Mercurial > repos > estrain > ncbi_amrfinderplus
diff test-data/2019-08-27.1/changes.txt @ 3:dddde93d5c20
Uploaded
| author | estrain |
|---|---|
| date | Fri, 06 Mar 2020 10:43:40 -0500 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/2019-08-27.1/changes.txt Fri Mar 06 10:43:40 2020 -0500 @@ -0,0 +1,2520 @@ +--------------------------------------------------------------------- +Changes included in 2019-08-27.1 +--------------------------------------------------------------------- + +This release includes a new database file to correspond with AMRFinderPlus +version 3.1 that includes information for blacklisting of a few "plus" proteins +common in some organisms that are interesting when found in others. This +release also includes the usual new AMR genes and alleles; the fixing of some +typos; removal of a redundant point mutation reference sequence; and the +addition, reoorganization, and renaming of some "plus" genes. + +- Reference Gene Catalog protein and allele changes: + + Total in prev: 6110 + Total in release: 6274 + Removed: 18 + Added: 182 + Changed: 33 + Removed emrD3 WP_000850833.1 + Removed blaOXA-671 WP_016660101.1 + Removed arsB-mob WP_063116263.1 + Removed gyrA_A67S WP_001281242.1 + Removed gyrA_A84P WP_001281242.1 + Removed gyrA_D87G WP_001281242.1 + Removed gyrA_D87H WP_001281242.1 + Removed gyrA_D87N WP_001281242.1 + Removed gyrA_D87V WP_001281242.1 + Removed gyrA_D87Y WP_001281242.1 + Removed gyrA_G81C WP_001281242.1 + Removed gyrA_H80P WP_001281242.1 + Removed gyrA_N57K WP_001281242.1 + Removed gyrA_Q106H WP_001281242.1 + Removed gyrA_S83F WP_001281242.1 + Removed gyrA_S83I WP_001281242.1 + Removed gyrA_S83L WP_001281242.1 + Removed gyrA_S83W WP_001281242.1 + Added arsB AAA21095.1 + Added arsC AAA21096.1 + Added arsR AAA25636.1 + Added arsB AAA25637.1 + Added copC AAA25808.1 + Added arsR AAA27587.1 + Added arsB AAA27588.1 + Added arsR AAB09624.1 + Added arsC AAB09628.1 + Added arsC AAB42203.1 + Added arsB AAB42204.1 + Added ipaH9.8 AAC23714.1 + Added pic AAD23953.1 + Added efa1 AAD49229.2 + Added iha AAG55323.1 + Added stb AAK29747.1 + Added efa1 AAL57562.1 + Added pic AAN78833.1 + Added iha AAN82058.1 + Added cif AAQ07241.1 + Added iha AAT68782.1 + Added efa1 AAV91321.1 + Added sab AAZ76500.1 + Added senB AAZ89288.1 + Added iha ABB17254.1 + Added emrD3 ABQ18953.1 + Added kdeA ABR76310.1 + Added lmrC ABX00624.1 + Added iha ACB20136.1 + Added iha ACD08748.1 + Added amvA ACQ82816.1 + Added ipaH4 ADA74402.1 + Added iha ADI47068.1 + Added iha ADN47767.1 + Added arsR ADZ44504.1 + Added iha AEQ14190.1 + Added stb AET14866.1 + Added arsR AET17094.1 + Added pic AFS72825.1 + Added iha AFS75030.1 + Added asr BAA15331.2 + Added arsB BAA24823.1 + Added arsC BAA24824.1 + Added espK BAB34991.1 + Added fieF BAB89353.1 + Added fieF BAE77395.1 + Added arsR BAE77793.1 + Added cif BAG66370.1 + Added iha BAI27255.1 + Added efa1 BAI32294.1 + Added iha CAC39288.1 + Added efa1 CAC81883.1 + Added efa1 CAD30848.1 + Added stb CAD87835.1 + Added iha CAE55782.1 + Added efa1 CAI43818.1 + Added hlyA-alpha CAQ77251.1 + Added iha CAR09712.2 + Added pic CAU99295.1 + Added iha CBW53086.1 + Added ipaH5 EID63069.1 + Added fosB WP_000920239.1 + Added dfrA36 WP_000949574.1 + Added mphM WP_001041372.1 + Added cfr(B) WP_002405682.1 + Added mphK WP_003246254.1 + Added blaPDC-374 WP_003454242.1 + Added tet(56) WP_003635403.1 + Added blaCDD-1 WP_009901927.1 + Added mphH WP_015776248.1 + Added erm(49) WP_019728092.1 + Added blaCDD-2 WP_021361759.1 + Added mphN WP_024127776.1 + Added tet(X) WP_024160783.1 + Added blaPDC-361 WP_031638595.1 + Added tet(G) WP_032489471.1 + Added vga(E) WP_032495718.1 + Added blaACT-72 WP_045895620.1 + Added blaACT-70 WP_047364854.1 + Added blaACT-69 WP_048209719.1 + Added ble WP_063842967.1 + Added blaOXA-671 WP_081401608.1 + Added icr-Mo WP_082741435.1 + Added blaOXA-653 WP_087554513.1 + Added tet(X) WP_094309310.1 + Added blaMOX-13 WP_096807444.1 + Added blaFOX-15 WP_096807445.1 + Added blaCMY-157 WP_096807446.1 + Added blaIMP-69 WP_099156051.1 + Added blaPDC-249 WP_104009845.1 + Added blaACT-58 WP_111965422.1 + Added blaACT-62 WP_111967096.1 + Added blaACT-63 WP_112780466.1 + Added blaOXA-727 WP_114272532.1 + Added blaOXA-731 WP_116786833.1 + Added blaOXA-728 WP_116786835.1 + Added blaPDC-367 WP_121286063.1 + Added blaPDC-364 WP_121347819.1 + Added blaFLC-1 WP_123061077.1 + Added blaPDC-371 WP_126118969.1 + Added blaPDC-353 WP_128550481.1 + Added blaVIM-67 WP_142875125.1 + Added blaADC-196 WP_145850033.1 + Added blaAQU WP_148044401.1 + Added blaAQU WP_148044402.1 + Added dfrA29 WP_148044403.1 + Added blaCAM-1 WP_148044405.1 + Added blaCMY-165 WP_148044406.1 + Added blaCMY-166 WP_148044407.1 + Added blaCMY-167 WP_148044408.1 + Added blaCTX-M-227 WP_148044409.1 + Added blaCTX-M-228 WP_148044410.1 + Added blaCTX-M-229 WP_148044411.1 + Added blaDHA-29 WP_148044412.1 + Added blaGES-42 WP_148044413.1 + Added blaGES-43 WP_148044414.1 + Added blaIMP-82 WP_148044416.1 + Added blaIMP-83 WP_148044417.1 + Added blaIMP-84 WP_148044418.1 + Added blaKPC-41 WP_148044419.1 + Added blaKPC-45 WP_148044420.1 + Added blaKPC-46 WP_148044421.1 + Added blaOXA-835 WP_148044422.1 + Added blaOXA-836 WP_148044423.1 + Added blaPAU-1 WP_148044424.1 + Added blaPDC-196 WP_148044425.1 + Added blaPDC-334 WP_148044426.1 + Added blaPDC-335 WP_148044427.1 + Added blaPDC-336 WP_148044428.1 + Added blaPDC-337 WP_148044429.1 + Added blaPDC-338 WP_148044430.1 + Added blaPDC-339 WP_148044431.1 + Added blaPDC-340 WP_148044432.1 + Added blaPDC-341 WP_148044433.1 + Added blaPDC-342 WP_148044434.1 + Added blaPDC-343 WP_148044435.1 + Added blaPDC-344 WP_148044436.1 + Added blaPDC-345 WP_148044437.1 + Added blaPDC-346 WP_148044438.1 + Added blaPDC-347 WP_148044439.1 + Added blaPDC-348 WP_148044440.1 + Added blaPDC-349 WP_148044441.1 + Added blaPDC-350 WP_148044442.1 + Added blaPDC-351 WP_148044443.1 + Added blaPDC-352 WP_148044444.1 + Added blaPDC-354 WP_148044445.1 + Added blaPDC-355 WP_148044446.1 + Added blaPDC-356 WP_148044447.1 + Added blaPDC-357 WP_148044448.1 + Added blaPDC-358 WP_148044449.1 + Added blaPDC-359 WP_148044450.1 + Added blaPDC-360 WP_148044451.1 + Added blaPDC-362 WP_148044452.1 + Added blaPDC-363 WP_148044453.1 + Added blaPDC-365 WP_148044454.1 + Added blaPDC-366 WP_148044455.1 + Added blaPDC-368 WP_148044456.1 + Added blaPDC-369 WP_148044457.1 + Added blaPDC-370 WP_148044458.1 + Added blaPDC-372 WP_148044459.1 + Added blaPDC-373 WP_148044460.1 + Added blaPDC-375 WP_148044461.1 + Added blaPDC-376 WP_148044462.1 + Added blaPDC-377 WP_148044463.1 + Added blaPDC-378 WP_148044464.1 + Added blaPDC-379 WP_148044465.1 + Added blaPDC-380 WP_148044466.1 + Added blaPDC-381 WP_148044467.1 + Added blaPDC-382 WP_148044468.1 + Added blaPDC-383 WP_148044469.1 + Added blaPFM-1 WP_148044470.1 + Added blaTEM-241 WP_148044472.1 + Added blaTEM-242 WP_148044473.1 + Added blaTEM-39 WP_148044474.1 + Added blaVEB-22 WP_148044475.1 + Added blaVIM-68 WP_148044476.1 + Added mcr-1.22 WP_148044477.1 + Added mcr-5.4 WP_148044478.1 + Added blaOXA-837 WP_148281568.1 + Added gyrA_H80P WP_001281243.1 + Added gyrA_N57K WP_001281243.1 + Added gyrA_S83F WP_001281243.1 + Changes: + faeG AAA24032.1 + product_name F4 fimbrial adhesin subunit FaeG -> F4 (K88) fimbrial adhesin subunit FaeG + faeG AAA24035.1 + product_name F4 fimbrial adhesin subunit FaeG -> F4 (K88) fimbrial adhesin subunit FaeG + faeG AAA24390.1 + product_name F4 fimbrial adhesin subunit FaeG -> F4 (K88) fimbrial adhesin subunit FaeG + nccX AAA65102.1 + subclass METAL -> + merB AAA88369.1 + class MECURY -> MERCURY + subclass ORGANOMECURY -> ORGANOMERCURY + merC AAC33908.1 + class MECURY -> MERCURY + subclass ORGANOMECURY -> ORGANOMERCURY + faeG AAC34727.1 + product_name F4 fimbrial adhesin subunit FaeG -> F4 (K88) fimbrial adhesin subunit FaeG + merB AAC38230.1 + class MECURY -> MERCURY + subclass ORGANOMECURY -> ORGANOMERCURY + merC AAC38233.1 + class MECURY -> MERCURY + subclass ORGANOMECURY -> ORGANOMERCURY + ipaH2 AAN43435.1 + gene_family ipaH9.8 -> ipaH2 + product_name T3SS effector E3 ubiquitin-protein ligase IpaH9.8 -> T3SS effector E3 ubiquitin-protein ligase IpaH2 + mreA AAN68577.1 + subclass METAL -> + ipaH2 AAZ87985.1 + gene_family ipaH9.8 -> ipaH2 + product_name T3SS effector E3 ubiquitin-protein ligase IpaH9.8 -> T3SS effector E3 ubiquitin-protein ligase IpaH2 + ipaH3 ABB62096.1 + gene_family ipaH9.8 -> ipaH3 + product_name T3SS effector E3 ubiquitin-protein ligase IpaH9.8 -> T3SS effector E3 ubiquitin-protein ligase IpaH3 + ipaH2 ABB62098.1 + gene_family ipaH9.8 -> ipaH2 + product_name T3SS effector E3 ubiquitin-protein ligase IpaH9.8 -> T3SS effector E3 ubiquitin-protein ligase IpaH2 + ipaH2 ABB66229.1 + gene_family ipaH9.8 -> ipaH2 + product_name T3SS effector E3 ubiquitin-protein ligase IpaH9.8 -> T3SS effector E3 ubiquitin-protein ligase IpaH2 + ipaH1 ABF02983.1 + gene_family ipaH9.8 -> ipaH1 + product_name T3SS effector E3 ubiquitin-protein ligase IpaH9.8 -> T3SS effector E3 ubiquitin-protein ligase IpaH1/H6 + ipaH2 ABF04028.1 + gene_family ipaH9.8 -> ipaH2 + product_name T3SS effector E3 ubiquitin-protein ligase IpaH9.8 -> T3SS effector E3 ubiquitin-protein ligase IpaH2 + faeG ACB72721.1 + product_name F4 fimbrial adhesin subunit FaeG -> F4 (K88) fimbrial adhesin subunit FaeG + ipaH2 ACD09076.1 + gene_family ipaH9.8 -> ipaH2 + product_name T3SS effector E3 ubiquitin-protein ligase IpaH9.8 -> T3SS effector E3 ubiquitin-protein ligase IpaH2 + faeG AFH14350.1 + product_name F4 fimbrial adhesin subunit FaeG -> F4 (K88) fimbrial adhesin subunit FaeG + merC BAA14138.2 + class MECURY -> MERCURY + subclass ORGANOMECURY -> ORGANOMERCURY + merB BAA20338.2 + class MECURY -> MERCURY + subclass ORGANOMECURY -> ORGANOMERCURY + merG BAA23166.1 + class MECURY -> MERCURY + merB BAB47641.1 + class MECURY -> MERCURY + subclass ORGANOMECURY -> ORGANOMERCURY + merB CAC86907.1 + class MECURY -> MERCURY + subclass ORGANOMECURY -> ORGANOMERCURY + faeG CAE82650.1 + product_name F4 fimbrial adhesin subunit FaeG -> F4 (K88) fimbrial adhesin subunit FaeG + faeG CAE82653.1 + product_name F4 fimbrial adhesin subunit FaeG -> F4 (K88) fimbrial adhesin subunit FaeG + faeG CAE82670.1 + product_name F4 fimbrial adhesin subunit FaeG -> F4 (K88) fimbrial adhesin subunit FaeG + mphL WP_002047670.1 + gene_family mph(B) -> mphL + product_name Mph(B) family macrolide 2'-phosphotransferase -> macrolide 2'-phosphotransferase MphL + poxtA WP_002415638.1 + genbank_cds_start 1856 -> 57639 + genbank_cds_stop 3484 -> 59267 + genbank_nucleotide_accession MF095097.1 -> MH746818.1 + mcr-3.22 WP_094308975.1 + refseq_nucleotide_accession NG_060581.1 -> NG_060581.2 + blaPDC-259 WP_109791193.1 + genbank_nucleotide_accession MH243333.1 -> MH243333.2 + refseq_nucleotide_accession NG_057591.1 -> NG_057591.2 + blaPDC-265 WP_109791199.1 + genbank_nucleotide_accession MH243339.1 -> MH243339.2 + refseq_nucleotide_accession NG_057597.1 -> NG_057597.2 + +- HMM library Changes: + Total: Added 6 + Total: Prev. Release 603 + Total: Removed 1 + Total: This Release 608 + HMM Removed: NF000274.2 PF04439 + HMM Added: NF007456.1 PRK10026.1 + HMM Added: NF033636.1 acid_shock_Asr + HMM Added: NF033877.0 arsB_Sta_pI258 + HMM Added: NF033895.1 blaCAM + HMM Added: NF033929.1 blaAXC + HMM Added: NF033933.0 fosA8 + +- Protein family changes: + Total: Added 47 + Total: Prev. Release 1454 + Total: Removed 1 + Total: This Release 1500 + Family Removed: - ubiq_IpaH3 + Family Added: - ACID + Family Added: - CDF_efflux + Family Added: - amvA + Family Added: NF033877.0 arsB_pI258 + Family Added: - arsB_pKW301 + Family Added: - arsB_pYV + Family Added: NF007456.1 arsC_gluta + Family Added: - arsR + Family Added: - arsR_K-12 + Family Added: - arsR_R46 + Family Added: - arsR_pI258 + Family Added: - arsR_pKW301 + Family Added: - arsR_pSX267 + Family Added: - arsR_pYV + Family Added: NF033636.1 asr + Family Added: NF033929.1 blaAXC + Family Added: NF033895.1 blaCAM + Family Added: - blaPFM + Family Added: - cif + Family Added: - copC_Psyr + Family Added: - dfrA29 + Family Added: - efa1 + Family Added: - erm(49) + Family Added: - espK + Family Added: - fieF + Family Added: NF033933.0 fosA8 + Family Added: - hlyA-alpha + Family Added: - icr-Mo + Family Added: - iha + Family Added: - ipaH1 + Family Added: - ipaH2 + Family Added: - ipaH3 + Family Added: - ipaH4 + Family Added: - ipaH5 + Family Added: - ipa_gen + Family Added: - kdeA + Family Added: - lmrC_abcf + Family Added: - mphH + Family Added: - mphK + Family Added: - mphL + Family Added: - mphM + Family Added: - mphN + Family Added: - pic_auto + Family Added: - sab + Family Added: - senB + Family Added: - stb + Family Added: - tet(56) + Family Changed: NF000274.2 ant6_gen updated to - ant6_gen + +--------------------------------------------------------------------- +Changes included in 2019-07-10.1 +--------------------------------------------------------------------- + +New alleles and sequences were added, a few product names were made more +specific as more phenotype information became available. Cleanup of the +database caused some families and HMMs not used by AMRFinderPlus to be removed. + +- Protein changes: + Total: Added 57 + Total: Prev. Release 5757 + Total: Removed 3 + Total: This Release 5811 + Protein Removed: WP_029728367.1 blaB BlaB_family_subclass_B1_metallo-beta-lactamase + Protein Removed: WP_063842622.1 blaB BlaB_family_subclass_B1_metallo-beta-lactamase + Protein Removed: WP_063842629.1 blaGOB GOB_family_subclass_B3_metallo-beta-lactamase + Protein Added: AAA21095.1 arsB_R773 arsenite_efflux_transporter_membrane_subunit_ArsB + Protein Added: ABQ18953.1 emrD3 multidrug_efflux_MFS_transporter_EmrD-3 + Protein Added: WP_000850833.1 emrD3 multidrug_efflux_MFS_transporter_EmrD-3 + Protein Added: WP_010446567.1 tet(B) tetracycline_efflux_MFS_transporter_Tet(B) + Protein Added: WP_039902635.1 blaOXA-134_like OXA-134_family_carbapenem-hydrolyzing_class_D_beta-lactamase_OXA-646 + Protein Added: WP_063116263.1 arsB_R773 arsenite_efflux_transporter_membrane_subunit_ArsB + Protein Added: WP_063844329.1 dfrA12 trimethoprim-resistant_dihydrofolate_reductase_DfrA12 + Protein Added: WP_063856066.1 tet(B) tetracycline_efflux_MFS_transporter_Tet(B) + Protein Added: WP_063856068.1 tet(B) tetracycline_efflux_MFS_transporter_Tet(B) + Protein Added: WP_070342370.1 dfrA7 trimethoprim-resistant_dihydrofolate_reductase_DfrA7 + Protein Added: WP_071593205.1 aadA1bt ANT(3'')-Ia_family_aminoglycoside_nucleotidyltransferase_AadA1bt + Protein Added: WP_071593208.1 aadA1bt ANT(3'')-Ia_family_aminoglycoside_nucleotidyltransferase_AadA1bt + Protein Added: WP_086264536.1 blaOXA-213_like OXA-213_family_carbapenem-hydrolyzing_class_D_beta-lactamase_OXA-832 + Protein Added: WP_094323230.1 mcr-2 phosphoethanolamine--lipid_A_transferase_MCR-2.3 + Protein Added: WP_110174956.1 blaTEM class_A_beta-lactamase_TEM-235 + Protein Added: WP_125052736.1 blaOXA-51_like OXA-51_family_carbapenem-hydrolyzing_class_D_beta-lactamase_OXA-834 + Protein Added: WP_129336087.1 mcr-1 phosphoethanolamine--lipid_A_transferase_MCR-1.19 + Protein Added: WP_135350920.1 blaGES class_A_beta-lactamase_GES-41 + Protein Added: WP_140423191.1 aac(6')-Ib AAC(6')-Ib_family_aminoglycoside_6'-N-acetyltransferase + Protein Added: WP_140423278.1 aadA1 ANT(3'')-Ia_family_aminoglycoside_nucleotidyltransferase_AadA1 + Protein Added: WP_140423279.1 aadA2 ANT(3'')-Ia_family_aminoglycoside_nucleotidyltransferase_AadA2 + Protein Added: WP_140423280.1 aadA2 ANT(3'')-Ia_family_aminoglycoside_nucleotidyltransferase_AadA2 + Protein Added: WP_140423281.1 aadA2 ANT(3'')-Ia_family_aminoglycoside_nucleotidyltransferase_AadA2 + Protein Added: WP_140423282.1 aadA5 ANT(3'')-Ia_family_aminoglycoside_nucleotidyltransferase_AadA5 + Protein Added: WP_140423283.1 dfrA1 trimethoprim-resistant_dihydrofolate_reductase_DfrA1 + Protein Added: WP_140423284.1 dfrA12 trimethoprim-resistant_dihydrofolate_reductase_DfrA12 + Protein Added: WP_140423285.1 dfrA17 trimethoprim-resistant_dihydrofolate_reductase_DfrA17 + Protein Added: WP_140423286.1 dfrA17 trimethoprim-resistant_dihydrofolate_reductase_DfrA17 + Protein Added: WP_140423287.1 dfrA17 trimethoprim-resistant_dihydrofolate_reductase_DfrA17 + Protein Added: WP_140423305.1 blaADC class_C_beta-lactamase_ADC-195 + Protein Added: WP_140423306.1 blaB subclass_B1_metallo-beta-lactamase_BlaB-15 + Protein Added: WP_140423307.1 blaCMY class_C_beta-lactamase_CMY-164 + Protein Added: WP_140423308.1 blaFRI carbapenem-hydrolyzing_class_A_beta-lactamase_FRI-8 + Protein Added: WP_140423309.1 blaFRI carbapenem-hydrolyzing_class_A_beta-lactamase_FRI-9 + Protein Added: WP_140423310.1 blaIMI carbapenem-hydrolyzing_class_A_beta-lactamase_IMI-19 + Protein Added: WP_140423311.1 blaKPC carbapenem-hydrolyzing_class_A_beta-lactamase_KPC-44 + Protein Added: WP_140423312.1 blaOXA-211_like OXA-211_family_carbapenem-hydrolyzing_class_D_beta-lactamase_OXA-643 + Protein Added: WP_140423313.1 blaOXA-211_like OXA-211_family_carbapenem-hydrolyzing_class_D_beta-lactamase_OXA-644 + Protein Added: WP_140423314.1 blaOXA-211_like OXA-211_family_carbapenem-hydrolyzing_class_D_beta-lactamase_OXA-645 + Protein Added: WP_140423315.1 blaOXA-134_like OXA-134_family_carbapenem-hydrolyzing_class_D_beta-lactamase_OXA-647 + Protein Added: WP_140423316.1 blaOXA-134_like OXA-134_family_carbapenem-hydrolyzing_class_D_beta-lactamase_OXA-648 + Protein Added: WP_140423317.1 blaOXA-211_like OXA-211_family_carbapenem-hydrolyzing_class_D_beta-lactamase_OXA-650 + Protein Added: WP_140423318.1 blaOXA-143_like OXA-143_family_carbapenem-hydrolyzing_class_D_beta-lactamase_OXA-825 + Protein Added: WP_140423319.1 blaOXA-213_like OXA-213_family_carbapenem-hydrolyzing_class_D_beta-lactamase_OXA-826 + Protein Added: WP_140423320.1 blaOXA-10_like OXA-10_family_class_D_beta-lactamase_OXA-827 + Protein Added: WP_140423321.1 blaOXA-51_like OXA-51_family_carbapenem-hydrolyzing_class_D_beta-lactamase_OXA-828 + Protein Added: WP_140423322.1 blaOXA-51_like OXA-51_family_carbapenem-hydrolyzing_class_D_beta-lactamase_OXA-829 + Protein Added: WP_140423323.1 blaOXA-51_like OXA-51_family_carbapenem-hydrolyzing_class_D_beta-lactamase_OXA-831 + Protein Added: WP_140423324.1 blaOXA-48_like OXA-48_family_class_D_beta-lactamase_OXA-833 + Protein Added: WP_140423325.1 blaPDC class_C_beta-lactamase_PDC-333 + Protein Added: WP_140423326.1 blaPOM subclass_B3_metallo-beta-lactamase_POM-2 + Protein Added: WP_140423327.1 blaVIM subclass_B1_metallo-beta-lactamase_VIM-64 + Protein Added: WP_140423328.1 blaVIM subclass_B1_metallo-beta-lactamase_VIM-65 + Protein Added: WP_140423329.1 mcr-1 phosphoethanolamine--lipid_A_transferase_MCR-1.20 + Protein Added: WP_140423330.1 mcr-1 phosphoethanolamine--lipid_A_transferase_MCR-1.21 + Protein Added: WP_140423331.1 mcr-3 phosphoethanolamine--lipid_A_transferase_MCR-3.26 + Protein Added: WP_140423332.1 mcr-3 phosphoethanolamine--lipid_A_transferase_MCR-3.30 + Protein Modified: ACM67153.1 lamda-2 intimin_type_lambda updated to ACM67153.1 lambda-2 intimin_type_lambda + Protein Modified: WP_001100753.1 blaPER class_A_extended-spectrum_beta-lactamase_PER-1 updated to WP_001100753.1 blaPER inhibitor-resistant_class_A_extended-spectrum_beta-lactamase_PER-1 + Protein Modified: WP_002317273.1 vanR-B VanB-type_vancomycin_resistance_DNA-binding_response_regulator_VanR updated to WP_002317273.1 vanR-B VanB-type_vancomycin_resistance_response_regulator_transcription_factor_VanR + Protein Modified: WP_002368697.1 vanR-B VanB-type_vancomycin_resistance_DNA-binding_response_regulator_VanR updated to WP_002368697.1 vanR-B VanB-type_vancomycin_resistance_response_regulator_transcription_factor_VanR + Protein Modified: WP_032489743.1 vanR-B VanB-type_vancomycin_resistance_DNA-binding_response_regulator_VanR updated to WP_032489743.1 vanR-B VanB-type_vancomycin_resistance_response_regulator_transcription_factor_VanR + Protein Modified: WP_063856719.1 vanR-B VanB-type_vancomycin_resistance_DNA-binding_response_regulator_VanR updated to WP_063856719.1 vanR-B VanB-type_vancomycin_resistance_response_regulator_transcription_factor_VanR + Protein Modified: WP_063856723.1 vanR-B VanB-type_vancomycin_resistance_DNA-binding_response_regulator_VanR updated to WP_063856723.1 vanR-B VanB-type_vancomycin_resistance_response_regulator_transcription_factor_VanR + Protein Modified: WP_063856729.1 vanR-O VanO-type_vancomycin_resistance_DNA-binding_response_regulator_VanR updated to WP_063856729.1 vanR-O VanO-type_vancomycin_resistance_response_regulator_transcription_factor_VanR + Protein Modified: WP_063860636.1 blaKPC carbapenem-hydrolyzing_class_A_beta-lactamase_KPC-14 updated to WP_063860636.1 blaKPC inhibitor-resistant_class_A_extended-spectrum_beta-lactamase_KPC-14 +- AMR HMM library Changes: + Total: Added 5 + Total: Prev. Release 610 + Total: Removed 12 + Total: This Release 603 + HMM Removed: NF000252.1 MexX + HMM Removed: NF000282.2 RND_permease_1 + HMM Removed: NF000314.1 adeB + HMM Removed: NF000315.1 adeC-adeK-oprM + HMM Removed: NF007842.1 PRK10555.1 + HMM Removed: NF011706.2 PRK15127.1 + HMM Removed: NF028537.1 P_eth_NH2_trans + HMM Removed: NF033086.2 penta_rpt_Qnr + HMM Removed: NF033134.0 cmlA_floR + HMM Removed: NF033143.1 efflux_OM_AdeK + HMM Removed: NF033643.1 EspJ_gen + HMM Removed: NF033651.1 cyto_nec_fctrs + HMM Added: NF000478.2 linco_LnuE + HMM Added: NF012180.1 tet_MFS_43 + HMM Added: NF033866.1 blaCDD + HMM Added: NF033867.1 blaPAU + HMM Added: NF033868.0 trim_DfrA36 +- Protein family changes: + Total: Added 11 + Total: Prev. Release 1449 + Total: Removed 6 + Total: This Release 1454 + Family Removed: NF011706.2 acrB + Family Removed: NF007842.1 acrD + Family Removed: NF000314.1 adeB/adeJ + Family Removed: NF033143.1 adeK + Family Removed: - lamda + Family Removed: - lamda-2 + Family Added: - aadA1bt + Family Added: - arsB + Family Added: - arsB_R773 + Family Added: NF033866.1 blaCDD + Family Added: NF033867.1 blaPAU + Family Added: NF033868.0 dfrA36 + Family Added: - emrD3 + Family Added: - lambda + Family Added: - lambda-2 + Family Added: NF000478.2 lnu(E) + Family Added: NF012180.1 tet(43) + Family Changed: NF030466.1 MerP_Gneg updated to TIGR02052.1 MerP_Gneg + Family Changed: NF030467.1 merA updated to TIGR02053.1 merA + + +--------------------------------------------------------------------- +Changes included in 2019-06-18.1 +--------------------------------------------------------------------- + +This the first alpha release of the AMRFinderPlus database. For this and all +following releases there is a distinction between "core" proteins which +correspond to the genes that would previously have been reported by AMRFinder +and "plus" proteins that are new genes and classes of genes. The "core" +designation is given to proteins where we believe their presence is likely to +have an important effect on antimicrobial resistance. + +* Screen for select point mutations for antibiotic resistance from Salmonella, + E. coli, and Campylobacter + * Protein mutations in: 50S_L22 protein, acrB, acrR, basR, cmeR, cyaA, + fabG, fabI, folP, gyrA, gyrB, lon, marR, murA, nfsA, ompF, parC, parE, + pmrA, pmrB, ptsI, ramR, rpoB, rpsL, soxR, soxS, tufA, uhpA, uhpT + * Nucleotide mutations in 16S and 23S rRNA + * Included point mutations are listed in the reference gene database + (https://www.ncbi.nlm.nih.gov/pathogens/isolates#/refgene/) +* New "Plus" genes + * virulence factors + * biocide resistance + * metal resistance + * heat resistance + * acid resistance +* Combined and integrated results from nucleotide and protein searches + +File formats have changed significantly. See https://github.com/evolarjun/amr/wiki +for details. + +Since release 2019-04-29.1 only one change has been made to the core AMR +proteins. Qac's are now categorized under Type STRESS and Subtype BIOCIDE. + +- Protein changes: + Prev. Release: 4942 + This Release: 5718 + Added: 776 + Modified: 0 + + Protein Added: ABF69110.1 eae intimin type beta + Protein Added: ABF69117.1 eae intimin type epsilon + Protein Added: ABF69121.1 eae intimin type epsilon + Protein Added: ABF69122.1 eae intimin type alpha + Protein Added: KYU89760.1 subB subtilase AB5 cytotoxin subunit B + Protein Added: AAG16664.1 perA BFP system transcriptional regulator PerA + Protein Added: AAG16667.1 perA BFP system transcriptional regulator PerA + Protein Added: AAG16676.1 perA BFP system transcriptional regulator PerA + Protein Added: AAB09625.1 arsD arsenite efflux transporter metallochaperone ArsD + Protein Added: AAB09626.1 arsA arsenite efflux transporter ATPase subunit ArsA + Protein Added: CAJ76690.1 stx1Aa Shiga toxin Stx1a subunit A + Protein Added: CAJ76692.1 stx1Aa Shiga toxin Stx1a subunit A + Protein Added: AAA98291.1 terC tellurium resistance membrane protein TerC + Protein Added: AAA98293.1 terE tellurium resistance cAMP binding protein TerE + Protein Added: AAG27731.1 norM sodium-coupled multidrug efflux MATE transporter NorM + Protein Added: ABF02983.1 ipaH9.8 T3SS effector E3 ubiquitin-protein ligase IpaH9.8 + Protein Added: ABF04028.1 ipaH9.8 T3SS effector E3 ubiquitin-protein ligase IpaH9.8 + Protein Added: BAE98279.1 bfpA bundle-forming pilus major subunit BfpA + Protein Added: BAE98281.1 bfpA bundle-forming pilus major subunit BfpA + Protein Added: CAC14596.1 smeF multidrug efflux RND transporter outer membrane subunit SmeF + Protein Added: AAA83973.1 merR1 mercury resistance transcriptional regulator MerR1 + Protein Added: AAA83975.1 merT mercuric transport protein MerT + Protein Added: AAA98292.1 terD tellurium resistance membrane protein TerD + Protein Added: AAG34504.1 perA BFP system transcriptional regulator PerA + Protein Added: APX31172.1 yfdX1 heat resistance protein YfdX1 + Protein Added: APX31174.1 hdeD-GI heat resistance membrane protein HdeD-GI + Protein Added: APX31176.1 trxLHR heat resistance system thioredoxin Trx-GI + Protein Added: APX31177.1 kefB-GI heat resistance system K+/H+ antiporter KefB-GI + Protein Added: APX31178.1 psi-GI heat resistance protein PsiE-GI + Protein Added: AAA85087.1 f17a F17A fimbrial adhesin + Protein Added: AAA85196.1 cnf1 cytotoxic necrotizing factor CNF1 + Protein Added: AAG37043.1 espC serine protease autotransporter toxin EspC + Protein Added: ABI93207.1 fedF F18 fimbrial adhesin subunit FedF + Protein Added: BAF33872.1 capU putative hexosyltransferase CapU + Protein Added: BAF33878.1 aggR aggregative adherence transcriptional regulator AggR + Protein Added: BAF33885.1 sepA serine protease autotransporter toxin SepA + Protein Added: BAF33888.1 agg4D aggregative adherence fimbria 4 chaperone Agg4D/HdaD + Protein Added: BAF33891.1 agg4A aggregative adherence fimbria 4 major subunit Agg4A/HdaA + Protein Added: BAF33901.1 aatA dispersin export ABC transporter outer membrane protein AatA + Protein Added: BAF34018.1 aap dispersin Aap + Protein Added: ABJ00546.1 iss increased serum survival lipoprotein Iss + Protein Added: ABJ02430.1 ireA TonB-dependent siderophore receptor IreA + Protein Added: OPH66324.1 lpfA1 long polar fimbria major subunit LpfA1 + Protein Added: ABJ90288.1 fedF F18 fimbrial adhesin subunit FedF + Protein Added: AAA86846.1 terZ tellurium resistance-associated protein TerZ + Protein Added: ABC67318.2 stx2Aa Shiga toxin Stx2a subunit A + Protein Added: AAG40758.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: AAA88371.1 merE broad-spectrum mercury transporter MerE + Protein Added: AAG42788.1 perA BFP system transcriptional regulator PerA + Protein Added: ASF80766.1 yfdX2 heat resistance protein YfdX2 + Protein Added: ASF80771.1 shsP small heat shock protein sHSP20-GI + Protein Added: CAM11313.1 nleA type III secretion system effector NleA + Protein Added: CAM11314.1 nleA type III secretion system effector NleA + Protein Added: CAM11315.1 nleA type III secretion system effector NleA + Protein Added: CAM11317.1 nleA type III secretion system effector NleA + Protein Added: CAM11321.1 nleA type III secretion system effector NleA + Protein Added: CAM11323.1 nleA type III secretion system effector NleA + Protein Added: CAM11324.1 nleA type III secretion system effector NleA + Protein Added: CAM11325.1 nleA type III secretion system effector NleA + Protein Added: AAA92618.1 f17a F17A fimbrial adhesin + Protein Added: AAA92621.1 f17g F17G fimbrial adhesin + Protein Added: AAA93060.1 arsD arsenite efflux transporter metallochaperone ArsD + Protein Added: AAG53662.1 perA BFP system transcriptional regulator PerA + Protein Added: BAF45432.1 tccP Tir-cytoskeleton coupling protein TccP + Protein Added: BAF45437.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF45439.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF45440.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF45447.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF45451.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF45459.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: ABM90581.1 perA BFP system transcriptional regulator PerA + Protein Added: ABM90583.1 perA BFP system transcriptional regulator PerA + Protein Added: ABM90587.1 perA BFP system transcriptional regulator PerA + Protein Added: ABM90589.1 perA BFP system transcriptional regulator PerA + Protein Added: ABM90597.1 perA BFP system transcriptional regulator PerA + Protein Added: ABM90605.1 perA BFP system transcriptional regulator PerA + Protein Added: ABM90615.1 perA BFP system transcriptional regulator PerA + Protein Added: AAC46147.1 yfeA iron/manganese ABC transporter substrate-binding protein YfeA + Protein Added: AAC46148.1 yfeB iron/manganese ABC transporter ATP-binding protein YfeB + Protein Added: AAC46150.1 yfeD iron/manganese ABC transporter permease subunit YfeD + Protein Added: ATE69525.1 acr3 arsenite efflux transporter Acr3 + Protein Added: AAG55141.1 nleC type III secretion system effector zinc metalloprotease NleC + Protein Added: AAG56990.1 espJ type III secretion system effector ADP-ribosyltransferase EspJ + Protein Added: AAG58695.1 lpfA1 long polar fimbria major subunit LpfA1 + Protein Added: AAG58814.1 espF type III secretion system LEE effector EspF + Protein Added: AAG58818.1 espB type III secretion system LEE translocon pore-forming subunit EspB + Protein Added: AAG58825.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: AAK15050.1 ttgR efflux transport transcriptional regulator TtgR + Protein Added: AAK16940.1 nleA type III secretion system effector NleA + Protein Added: AAK17180.1 nfaE Dr family non-fimbrial adhesin I chaperone NfaE + Protein Added: AAK18385.1 sepA serine protease autotransporter toxin SepA + Protein Added: AAK18444.1 ipaD type III secretion system needle tip complex protein IpaD + Protein Added: BAB37280.1 nleB type III secretion system effector arginine glycosyltransferase NleB + Protein Added: BAB38093.1 lpfA2 long polar fimbria major subunit LpfA2 + Protein Added: AAC44736.1 terW tellurium resistance protein TerW + Protein Added: AVL28824.1 aar AggR-activated transcriptional regulator Aar + Protein Added: SPD96882.1 silS copper/silver sensor histidine kinase SilS + Protein Added: SPD96883.1 silR copper/silver response regulator transcription factor SilR + Protein Added: SPD96884.1 silC Cu(+)/Ag(+) efflux RND transporter outer membrane channel SilC + Protein Added: CAA57177.1 stx2Ae Shiga toxin Stx2e subunit A + Protein Added: CAA57175.1 stx2Ae Shiga toxin Stx2e subunit A + Protein Added: CAA57173.1 stx2Ae Shiga toxin Stx2e subunit A + Protein Added: CAA57171.1 stx2Ae Shiga toxin Stx2e subunit A + Protein Added: BAB43874.1 cadD cadmium resistance transporter CadD + Protein Added: AAK48830.1 cadR cadmium resistance transcriptional regulator CadR + Protein Added: BAF52034.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF52035.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF52033.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF52358.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF52360.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF52362.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF52363.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF52364.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF52365.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF52366.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF52367.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF52370.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF52374.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF52377.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAF52548.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: BAF52549.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: BAB47641.1 merB organomercurial lyase MerB + Protein Added: AAK56853.1 chrR class I chromate reductase ChrR + Protein Added: CAC39286.1 espI serine protease autotransporter EspI + Protein Added: AAA83977.1 merA mercury(II) reductase + Protein Added: AAA23405.1 fasA F6 fimbrial major subunit FasA + Protein Added: AAA23421.1 fim41a fimbrial adhesin F41 protein Fim41a + Protein Added: AAK66972.1 stx2Ad Shiga toxin Stx2d subunit A + Protein Added: AAC41416.1 cfaC CFA/I pilus usher protein CfaC + Protein Added: CAB54534.2 mchB microcin H47 + Protein Added: AAK69562.1 srpS solvent efflux transporter transcriptional repressor SrpS + Protein Added: AAA23734.1 fedA F18 fimbrial major subunit FedA + Protein Added: ABQ02454.1 eae intimin type rho + Protein Added: AAA24032.1 faeG F4 fimbrial adhesin subunit FaeG + Protein Added: AAA24035.1 faeG F4 fimbrial adhesin subunit FaeG + Protein Added: AAA24390.1 faeG F4 fimbrial adhesin subunit FaeG + Protein Added: AXV27948.1 agg3C aggregative adherence fimbria 3 usher protein Agg3C + Protein Added: AAA19189.1 stx2Ae Shiga toxin Stx2e subunit A + Protein Added: AAA19190.1 stx2Be Shiga toxin Stx2e subunit B + Protein Added: AAA24632.1 stx2Af Shiga toxin Stx2f subunit A + Protein Added: AAA24633.1 stx2Bf Shiga toxin Stx2f subunit B + Protein Added: AAA71893.1 stx1Aa Shiga toxin Stx1a subunit A + Protein Added: AAA71894.1 stx1Ba Shiga toxin Stx1a subunit B + Protein Added: AAA24653.1 sta1 heat-stable enterotoxin ST-I group a + Protein Added: ABR09925.1 stx2Ba Shiga toxin Stx2a subunit B + Protein Added: ABR09934.1 stx2Ac Shiga toxin Stx2c subunit A + Protein Added: ABR09935.1 stx2Bc Shiga toxin Stx2c subunit B + Protein Added: ABR09936.1 stx2Ad Shiga toxin Stx2d subunit A + Protein Added: ABR09937.1 stx2Bd Shiga toxin Stx2d subunit B + Protein Added: ABR09945.1 stx2Ba Shiga toxin Stx2a subunit B + Protein Added: ABR09961.1 stx2Ba Shiga toxin Stx2a subunit B + Protein Added: ABR09963.1 stx2Ba Shiga toxin Stx2a subunit B + Protein Added: ABR10024.1 stx2Ab Shiga toxin Stx2b subunit A + Protein Added: CAA30714.1 stx2Ac Shiga toxin Stx2c subunit A + Protein Added: CAA30715.1 stx2Ba Shiga toxin Stx2a subunit B + Protein Added: AAB59075.1 merT mercuric transport protein MerT + Protein Added: AAA88369.1 merB organomercurial lyase MerB + Protein Added: AAA88370.1 merD mercury resistance co-regulator MerD + Protein Added: AAA98222.1 merT mercuric transport protein MerT + Protein Added: AAA98223.1 merP mercury resistance system periplasmic binding protein MerP + Protein Added: AAA25638.1 arsC thioredoxin-dependent arsenate reductase + Protein Added: AAA88432.1 chrA chromate resistance efflux protein ChrA + Protein Added: AAA25803.1 copR heavy metal response regulator transcription factor CopR + Protein Added: AAA25804.1 copS copper resistance membrane spanning protein CopS + Protein Added: AAA25806.1 copA laccase-like oxidase CopA + Protein Added: AAA25807.1 copB copper-binding protein CopB + Protein Added: CAC48396.1 stx2Ab Shiga toxin Stx2b subunit A + Protein Added: CAC48398.1 stx2Ae Shiga toxin Stx2e subunit A + Protein Added: AAA21094.1 arsA arsenite efflux transporter ATPase subunit ArsA + Protein Added: BAB62897.1 cofA type IV pilus CFA/III major pilin + Protein Added: BAB62907.1 cofA type IV pilus CFA/III major pilin + Protein Added: CAA63849.1 ehxA enterohemolysin + Protein Added: AAA26402.1 klaB tellurium resistance system protein klaB + Protein Added: AAA26403.1 klaC tellurium resistance system protein klaC + Protein Added: AAK97136.1 cfaC CFA/I pilus usher protein CfaC + Protein Added: AAK99679.1 pmrA multidrug efflux MFS transporter PmrA + Protein Added: CAC69248.1 merR mercury resistance transcriptional regulator MerR + Protein Added: CAC69249.1 merT mercuric transport protein MerT + Protein Added: CAC69250.1 merP mercury resistance system periplasmic binding protein MerP + Protein Added: CAC69251.1 merA mercury(II) reductase + Protein Added: BAB64566.1 bexA multidrug efflux MATE transporter BexA + Protein Added: AAA27589.1 arsC thioredoxin-dependent arsenate reductase + Protein Added: ABU55302.1 stx2Ac Shiga toxin Stx2c subunit A + Protein Added: BAF76383.1 ttgA toluene efflux RND transporter periplasmic adaptor subunit TtgA + Protein Added: BAF76384.1 ttgB multidrug efflux RND transporter permease subunit TtgB + Protein Added: ABV01314.1 ltcA heat-labile enterotoxin LT subunit A + Protein Added: BAF79679.1 smdA multidrug efflux ABC transporter permease/ATP-binding subunit SmdA + Protein Added: BAF79680.1 smdB multidrug efflux ABC transporter permease/ATP-binding subunit SmdB + Protein Added: ABV16438.1 eatA serine protease autotransporter toxin EatA + Protein Added: BAB68369.1 stx2Ac Shiga toxin Stx2c subunit A + Protein Added: BAB68370.1 stx2Bc Shiga toxin Stx2c subunit B + Protein Added: BAF80121.1 ssmE multidrug efflux SMR transporter SsmE + Protein Added: AAL06376.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: AAL06381.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: AAL06387.1 espF type III secretion system LEE effector EspF + Protein Added: AAC23256.1 hmrM sodium-coupled multidrug efflux MATE transporter HmrM + Protein Added: ABQ02442.1 ehxA enterohemolysin + Protein Added: ABQ02443.1 ehxA enterohemolysin + Protein Added: ABQ02445.1 ehxA enterohemolysin + Protein Added: ABQ02447.1 ehxA enterohemolysin + Protein Added: ABQ02448.1 ehxA enterohemolysin + Protein Added: AAL08400.1 mchF microcin H47 export transporter peptidase/ATP-binding subunit MchF + Protein Added: BAF92845.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: AAL14441.1 adeC multidrug efflux RND transporter AdeABC outer membrane channel subunit AdeC + Protein Added: CAP17609.1 stx2Ae Shiga toxin Stx2e subunit A + Protein Added: CAP17610.1 stx2Be Shiga toxin Stx2e subunit B + Protein Added: AAL18821.1 epeA serine protease autotransporter EpeA + Protein Added: AAL19305.1 mdsB multidrug efflux RND transporter permease subunit MdsB + Protein Added: AAL19306.1 mdsA multidrug efflux RND transporter periplasmic adaptor subunit MdsA + Protein Added: AAL19307.1 golT gold/copper-translocating P-type ATPase GolT + Protein Added: AAL19308.1 golS Au(I) sensor transcriptional regulator GolS + Protein Added: BAF96525.1 espJ type III secretion system effector ADP-ribosyltransferase EspJ + Protein Added: BAF96538.1 nleB2 type III secretion system effector arginine glycosyltransferase NleB2 + Protein Added: BAF96541.1 nleA type III secretion system effector NleA + Protein Added: BAA18405.1 acr3 arsenite efflux transporter Acr3 + Protein Added: BAA18407.1 arsC thioredoxin-dependent arsenate reductase + Protein Added: AAL26283.1 saa autoagglutinating adhesin Saa + Protein Added: CAA65654.1 espB type III secretion system LEE translocon pore-forming subunit EspB + Protein Added: AAC45964.1 stx2Ae Shiga toxin Stx2e subunit A + Protein Added: AAC45965.1 stx2Be Shiga toxin Stx2e subunit B + Protein Added: ACA34793.1 tsh temperature-sensitive protease autotransporter hemagglutinin Tsh + Protein Added: BAG11995.1 tccP Tir-cytoskeleton coupling protein TccP + Protein Added: BAG11997.1 tccP Tir-cytoskeleton coupling protein TccP + Protein Added: BAG12001.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: ACB16424.1 lpfA long polar fimbria major subunit LpfA-O113 + Protein Added: ACB16655.1 eilA HilA family transcriptional regulator EilA + Protein Added: ACB17037.1 air inverse autotransporter adhesin EaeX/Air + Protein Added: CAA70196.1 merT mercuric transport protein MerT + Protein Added: ACB72721.1 faeG F4 fimbrial adhesin subunit FaeG + Protein Added: AAC44731.1 espC serine protease autotransporter toxin EspC + Protein Added: AAC74250.1 ymgB biofilm/acid-resistance regulator AriR + Protein Added: AAC76298.1 acrF multidrug efflux RND transporter permease subunit AcrF + Protein Added: AAC77293.1 mdtM multidrug efflux MFS transporter MdtM + Protein Added: AAL57565.1 nleB type III secretion system effector arginine glycosyltransferase NleB + Protein Added: BAB82994.1 stx2Ab Shiga toxin Stx2b subunit A + Protein Added: BAB82996.1 stx2Ab Shiga toxin Stx2b subunit A + Protein Added: BAB82998.1 stx2Ab Shiga toxin Stx2b subunit A + Protein Added: BAB83000.1 stx2Ab Shiga toxin Stx2b subunit A + Protein Added: BAB83002.1 stx2Ag Shiga toxin Stx2g subunit A + Protein Added: BAB83003.1 stx2Bg Shiga toxin Stx2g subunit B + Protein Added: BAB83005.1 stx2Bb Shiga toxin Stx2b subunit B + Protein Added: BAB83007.1 stx2Bb Shiga toxin Stx2b subunit B + Protein Added: BAB83020.1 stx2Ag Shiga toxin Stx2g subunit A + Protein Added: BAB83022.1 stx1Ac Shiga toxin Stx1c subunit A + Protein Added: BAB83023.1 stx1Bc Shiga toxin Stx1c subunit B + Protein Added: BAB83024.1 stx2Ab Shiga toxin Stx2b subunit A + Protein Added: AAL72309.1 sepA serine protease autotransporter toxin SepA + Protein Added: AAL72350.1 ipaD type III secretion system needle tip complex protein IpaD + Protein Added: AAL05407.1 tcrB copper-translocating P-type ATPase TcrB + Protein Added: ACD06066.1 capU putative hexosyltransferase CapU + Protein Added: ACD06132.1 ipaD type III secretion system needle tip complex protein IpaD + Protein Added: ACD07996.1 ipaH3 T3SS effector E3 ubiquitin-protein ligase IpaH3 + Protein Added: ACD09076.1 ipaH9.8 T3SS effector E3 ubiquitin-protein ligase IpaH9.8 + Protein Added: BAA11821.1 chrR class I chromate reductase ChrR + Protein Added: CAQ45062.1 emrC multidrug efflux transporter outer membrane subunit EmrC + Protein Added: CAQ45063.1 emrA multidrug efflux MFS transporter periplasmic adaptor subunit EmrA + Protein Added: CAQ45064.1 emrB multidrug efflux MFS transporter permease subunit EmrB + Protein Added: ACF05260.1 agg4A aggregative adherence fimbria 4 major subunit Agg4A/HdaA + Protein Added: ACF30254.1 mtrR multidrug efflux system transcriptional repressor MtrR + Protein Added: ACF30256.1 mtrF AbgT family antimetabolite efflux transporter MtrF + Protein Added: BAG66379.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAG66729.1 espB type III secretion system LEE translocon pore-forming subunit EspB + Protein Added: BAG66736.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: ACG59623.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: ACG59674.1 espB type III secretion system LEE translocon pore-forming subunit EspB + Protein Added: ACG59676.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: ACG59681.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: ACG59730.1 espB type III secretion system LEE translocon pore-forming subunit EspB + Protein Added: ACG59732.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: ACG59737.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: ACG76368.1 arsP organoarsenical efflux permease ArsP + Protein Added: ACI12150.1 terB tellurium resistance membrane protein TerB + Protein Added: BAG76115.1 iss increased serum survival lipoprotein Iss + Protein Added: AAA98099.1 stx1Aa Shiga toxin Stx1a subunit A + Protein Added: CAS08589.1 nleB2 type III secretion system effector arginine glycosyltransferase NleB2 + Protein Added: CAS08990.1 nleA type III secretion system effector NleA + Protein Added: CAS10463.1 espC serine protease autotransporter toxin EspC + Protein Added: CAS06720.1 eae intimin type gamma + Protein Added: CAS06721.1 eae intimin type alpha + Protein Added: CAS06723.1 eae intimin type alpha + Protein Added: BAA20334.1 merR mercury resistance transcriptional regulator MerR + Protein Added: BAA20336.1 merP mercury resistance system periplasmic binding protein MerP + Protein Added: BAA20337.1 merA mercury(II) reductase + Protein Added: AAM70045.1 stx2Aa Shiga toxin Stx2a subunit A + Protein Added: CAQ87187.1 iroN siderophore salmochelin receptor IroN + Protein Added: CAV00478.1 lpfA long polar fimbria major subunit LpfA + Protein Added: CAV00812.1 lpfA long polar fimbria major subunit LpfA-O113 + Protein Added: CAV02025.1 capU putative hexosyltransferase CapU + Protein Added: CAQ90194.1 iss increased serum survival lipoprotein Iss + Protein Added: CAU95796.1 aatA dispersin export ABC transporter outer membrane protein AatA + Protein Added: CAU95824.1 agg3D aggregative adherence fimbria 3 chaperone Agg3D + Protein Added: CAQ97644.1 iss increased serum survival lipoprotein Iss + Protein Added: CAR01635.1 vactox vacuolating autotransporter toxin Vat + Protein Added: CAR09703.2 ireA TonB-dependent siderophore receptor IreA + Protein Added: CAR12622.1 iss increased serum survival lipoprotein Iss + Protein Added: CAR15326.1 air inverse autotransporter adhesin EaeX/Air + Protein Added: CAW30811.1 nfaE Dr family non-fimbrial adhesin I chaperone NfaE + Protein Added: CAW30815.1 nfaE Dr family non-fimbrial adhesin I chaperone NfaE + Protein Added: ACL13561.1 copR heavy metal response regulator transcription factor CopR + Protein Added: ACL13562.1 copS copper resistance membrane spanning protein CopS + Protein Added: ACL51961.1 ehxA enterohemolysin + Protein Added: ACL51990.1 toxB toxin B + Protein Added: AAM88296.1 agg3C aggregative adherence fimbria 3 usher protein Agg3C + Protein Added: AAM88297.1 agg3B aggregative adherence fimbria 3 minor subunit Agg3B + Protein Added: AAM88298.1 agg3A aggregative adherence fimbria 3 major subunit Agg3A + Protein Added: AAM88299.1 astA heat-stable enterotoxin EAST1 + Protein Added: AAM88302.1 stx2Ad Shiga toxin Stx2d subunit A + Protein Added: BAA14138.2 merC organomercurial transporter MerC + Protein Added: AAM88668.1 cueA copper resistance metal-translocating P1-type ATPase CueA + Protein Added: AAM90978.1 stx2Ba Shiga toxin Stx2a subunit B + Protein Added: CAX18553.1 nleB type III secretion system effector arginine glycosyltransferase NleB + Protein Added: CAX18626.1 nleB type III secretion system effector arginine glycosyltransferase NleB + Protein Added: CAX18635.1 espF type III secretion system LEE effector EspF + Protein Added: CAX18641.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: CAX18646.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: CAX18721.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: CAX18726.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: ACM67143.1 eae intimin type alpha + Protein Added: ACM67145.1 eae intimin type iota + Protein Added: ACM67146.1 eae intimin type alpha + Protein Added: ACM67148.1 eae intimin type gamma + Protein Added: ACM67149.1 eae intimin type gamma + Protein Added: ACM67152.1 eae intimin type beta + Protein Added: ACM67153.1 eae intimin type lambda + Protein Added: ACM67154.1 eae intimin type gamma + Protein Added: ACM67155.1 eae intimin type epsilon + Protein Added: ACM67156.1 eae intimin type epsilon + Protein Added: ACM67157.1 eae intimin type beta + Protein Added: ACM67158.1 eae intimin type epsilon + Protein Added: ACM67160.1 eae intimin type beta + Protein Added: ACM67161.1 eae intimin type beta + Protein Added: ACM67162.1 eae intimin type gamma + Protein Added: ACM67163.1 eae intimin type rho + Protein Added: ACM67164.1 eae intimin type gamma + Protein Added: ACM67165.1 eae intimin type gamma + Protein Added: ACM67166.1 eae intimin type gamma + Protein Added: ACM67167.1 eae intimin type epsilon + Protein Added: ACM67168.1 eae intimin type alpha + Protein Added: ACM67169.1 eae intimin type gamma + Protein Added: ACM67172.1 eae intimin type epsilon + Protein Added: ACM67177.1 eae intimin type gamma + Protein Added: ACM67178.1 eae intimin type epsilon + Protein Added: BAH24012.1 toxB toxin B + Protein Added: CAB14520.2 acr3 arsenite efflux transporter Acr3 + Protein Added: ACO06752.1 emhB efflux RND transporter permease subunit EmhB + Protein Added: AAN03785.1 cnf1 cytotoxic necrotizing factor CNF1 + Protein Added: AAN03786.1 cnf1 cytotoxic necrotizing factor CNF1 + Protein Added: AAN04250.1 dpsA non-specific DNA-binding protein DpsA + Protein Added: BAC10987.1 stx1Ac Shiga toxin Stx1c subunit A + Protein Added: BAC10988.1 stx1Bc Shiga toxin Stx1c subunit B + Protein Added: BAC10992.1 stx1Bc Shiga toxin Stx1c subunit B + Protein Added: CAY54182.1 bfpA bundle-forming pilus major subunit BfpA + Protein Added: AAN29240.1 bepD multidrug efflux RND transporter periplasmic adaptor subunit BepD + Protein Added: AAN29241.1 bepE multidrug efflux RND transporter permease subunit BepE + Protein Added: AAN29871.1 bepC multidrug efflux RND transporter outer membrane subunit BepC + Protein Added: AAN33534.1 bepG multidrug efflux RND transporter permease subunit BepG + Protein Added: AAN33535.1 bepF multidrug efflux RND transporter periplasmic adaptor subunit BepF + Protein Added: CAD48850.1 cdtB cytolethal distending toxin type III/V nuclease subunit CdtB + Protein Added: CAC86907.1 merB organomercurial lyase MerB + Protein Added: BAH65949.1 iroN siderophore salmochelin receptor IroN + Protein Added: BAH72965.1 cdtB cytolethal distending toxin type II nuclease subunit CdtB + Protein Added: AAN42986.1 ipaH3 T3SS effector E3 ubiquitin-protein ligase IpaH3 + Protein Added: AAN43435.1 ipaH9.8 T3SS effector E3 ubiquitin-protein ligase IpaH9.8 + Protein Added: AAN44449.1 sigA serine protease autotransporter toxin SigA + Protein Added: CAQ68302.1 stx2Ac Shiga toxin Stx2c subunit A + Protein Added: ACS88189.1 ipaD type III secretion system needle tip complex protein IpaD + Protein Added: AAC45719.1 f17a F17A fimbrial adhesin + Protein Added: AAC45722.1 f17g F17G fimbrial adhesin + Protein Added: AAN68576.1 mrdH Ni(II)/Co(II) efflux transporter permease subunit MrdH + Protein Added: AAN68577.1 mreA metal-sensing transcriptional repressor MreA + Protein Added: ACT33468.1 f17a F17A fimbrial adhesin + Protein Added: ACT33471.1 f17g F17G fimbrial adhesin + Protein Added: ACT72391.1 tccP Tir-cytoskeleton coupling protein TccP + Protein Added: CAR47993.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: CAR48009.1 nleB type III secretion system effector arginine glycosyltransferase NleB + Protein Added: BAH86759.1 stx2Af Shiga toxin Stx2f subunit A + Protein Added: BAH86760.1 stx2Bf Shiga toxin Stx2f subunit B + Protein Added: BAA20338.2 merB organomercurial lyase MerB + Protein Added: ACU32684.1 stx2Aa Shiga toxin Stx2a subunit A + Protein Added: ACU65296.1 merA mercury(II) reductase + Protein Added: CAX45702.1 stx2Ae Shiga toxin Stx2e subunit A + Protein Added: CAX45706.1 stx2Ad Shiga toxin Stx2d subunit A + Protein Added: CAX45714.1 stx2Ae Shiga toxin Stx2e subunit A + Protein Added: CAX45718.1 stx2Ae Shiga toxin Stx2e subunit A + Protein Added: CAX45737.1 stx2Bd Shiga toxin Stx2d subunit B + Protein Added: CAX45739.1 stx2Ba Shiga toxin Stx2a subunit B + Protein Added: CAX45746.1 stx2Ac Shiga toxin Stx2c subunit A + Protein Added: CAX51714.1 stx2Ae Shiga toxin Stx2e subunit A + Protein Added: AAB82330.1 aafA aggregative adherence fimbria II major subunit AafA + Protein Added: BAI25473.1 nleC type III secretion system effector zinc metalloprotease NleC + Protein Added: BAI31154.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: BAI32292.1 nleB type III secretion system effector arginine glycosyltransferase NleB + Protein Added: BAI32327.1 espB type III secretion system LEE translocon pore-forming subunit EspB + Protein Added: BAI32516.1 espI serine protease autotransporter EspI + Protein Added: BAI33940.1 etpD variant type II secretion system secretin EtpD + Protein Added: BAI36256.1 nleC type III secretion system effector zinc metalloprotease NleC + Protein Added: BAI36790.1 nleA type III secretion system effector NleA + Protein Added: BAI37513.1 nleB type III secretion system effector arginine glycosyltransferase NleB + Protein Added: BAI37519.1 espF type III secretion system LEE effector EspF + Protein Added: BAI37525.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: BAA23166.1 merG phenylmercury resistance protein MerG + Protein Added: AAN76093.1 iroN siderophore salmochelin receptor IroN + Protein Added: AAN77057.1 stx2Ad Shiga toxin Stx2d subunit A + Protein Added: AAN77061.1 stx2Ad Shiga toxin Stx2d subunit A + Protein Added: AAN77063.1 stx2Ad Shiga toxin Stx2d subunit A + Protein Added: BAI44131.1 agg5A aggregative adherence fimbria V major subunit Agg5A + Protein Added: AAD12176.1 srpB solvent efflux RND transporter permease subunit SrpB + Protein Added: AAD12177.1 ttgI solvent efflux RND transporter outer membrane subunit SrpC + Protein Added: AAD12178.1 srpA solvent efflux RND transporter periplasmic adaptor subunit SrpA + Protein Added: AAN78874.1 vactox vacuolating autotransporter toxin Vat + Protein Added: AAN79707.1 iroN siderophore salmochelin receptor IroN + Protein Added: AAN80033.1 iss increased serum survival lipoprotein Iss + Protein Added: AAN83596.1 ireA TonB-dependent siderophore receptor IreA + Protein Added: CAB14519.1 arsC thioredoxin-dependent arsenate reductase + Protein Added: AAB91079.1 copB copper-binding protein CopB + Protein Added: CAA05105.1 copP copper-binding metallochaperone CopP + Protein Added: AAB88410.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: EEZ94110.1 sdeA multidrug efflux RND transporter periplasmic adaptor subunit SdeA + Protein Added: AAO17297.1 eatA serine protease autotransporter toxin EatA + Protein Added: ADA73787.1 ipaH3 T3SS effector E3 ubiquitin-protein ligase IpaH3 + Protein Added: ADA76801.1 sepA serine protease autotransporter toxin SepA + Protein Added: AAO19475.1 stx1Ad Shiga toxin Stx1d subunit A + Protein Added: AAO19476.1 stx1Bd Shiga toxin Stx1d subunit B + Protein Added: ADA79992.1 merT mercuric transport protein MerT + Protein Added: CBG87859.1 nleB type III secretion system effector arginine glycosyltransferase NleB + Protein Added: CBG89712.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: CAD66214.1 vactox vacuolating autotransporter toxin Vat + Protein Added: ADB20445.1 toxB toxin B + Protein Added: CBG36837.1 eilA HilA family transcriptional regulator EilA + Protein Added: CBG36838.1 air inverse autotransporter adhesin EaeX/Air + Protein Added: CBG37385.1 aaiC type VI secretion system protein AaiC/Hcp2 + Protein Added: CBG27762.1 aatA dispersin export ABC transporter outer membrane protein AatA + Protein Added: CBG27784.1 aafB aggregative adherence fimbria II minor subunit AafB + Protein Added: CBG27798.1 aafD aggregative adherence fimbria II chaperone AafD + Protein Added: CBG27800.1 aafA aggregative adherence fimbria II major subunit AafA + Protein Added: CBG27804.1 aggR aggregative adherence transcriptional regulator AggR + Protein Added: CBG27807.1 aap dispersin Aap + Protein Added: CBG27812.1 aar AggR-activated transcriptional regulator Aar + Protein Added: AAD12174.1 stx2Ab Shiga toxin Stx2b subunit A + Protein Added: AAO49780.1 ttgD toluene efflux RND transporter periplasmic adaptor subunit TtgD + Protein Added: AAC38390.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: AAC38394.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: AAC38400.1 espF type III secretion system LEE effector EspF + Protein Added: BAA24822.1 arsA arsenite efflux transporter ATPase subunit ArsA + Protein Added: AAA20885.1 astA heat-stable enterotoxin EAST1 + Protein Added: AAA23736.1 f17g F17G fimbrial adhesin + Protein Added: AAA23737.1 f17a F17A fimbrial adhesin + Protein Added: ADD58872.1 espF type III secretion system LEE effector EspF + Protein Added: ADD58881.1 eae intimin type gamma + Protein Added: ADD58883.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: EFF39147.1 norM sodium-coupled multidrug efflux MATE transporter NorM + Protein Added: AAO66617.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: BAJ04486.1 perA BFP system transcriptional regulator PerA + Protein Added: BAJ04488.1 perA BFP system transcriptional regulator PerA + Protein Added: AAC38219.1 merP mercury resistance system periplasmic binding protein MerP + Protein Added: AAC38220.1 merA mercury(II) reductase + Protein Added: AAC38221.1 merD mercury resistance co-regulator MerD + Protein Added: ADE90928.1 vactox vacuolating autotransporter toxin Vat + Protein Added: AAC38229.1 merR mercury resistance transcriptional regulator MerR + Protein Added: AAC38230.1 merB organomercurial lyase MerB + Protein Added: AAC38231.1 merT mercuric transport protein MerT + Protein Added: AAC38232.1 merP mercury resistance system periplasmic binding protein MerP + Protein Added: AAC38233.1 merC organomercurial transporter MerC + Protein Added: AAC38236.1 merE broad-spectrum mercury transporter MerE + Protein Added: ADF64798.1 ncrC Ni(II)/Co(II) efflux transporter permease subunit NcrC + Protein Added: CBK85583.1 iroN siderophore salmochelin receptor IroN + Protein Added: CBL93318.1 capU putative hexosyltransferase CapU + Protein Added: CBL93506.1 lngA type IV pilus longus major pilin + Protein Added: ADI59685.1 astA heat-stable enterotoxin EAST1 + Protein Added: ADI95409.1 ttgE multidrug efflux RND transporter permease subunit TtgE + Protein Added: ADI95411.1 ttgT efflux transport transcriptional regulator TtgT + Protein Added: AAP03990.1 mchF microcin H47 export transporter peptidase/ATP-binding subunit MchF + Protein Added: AAP18950.1 lpfA long polar fimbria major subunit LpfA-O113 + Protein Added: ADK23698.1 qacR multidrug-binding transcriptional regulator QacR + Protein Added: ADK73987.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: AAM22256.1 stx2Ad Shiga toxin Stx2d subunit A + Protein Added: AAM22257.1 stx2Bd Shiga toxin Stx2d subunit B + Protein Added: CAD56174.1 mchF microcin H47 export transporter peptidase/ATP-binding subunit MchF + Protein Added: CAD56186.1 mchF microcin H47 export transporter peptidase/ATP-binding subunit MchF + Protein Added: AAA16360.1 stx2Ab Shiga toxin Stx2b subunit A + Protein Added: AAA16361.1 stx2Bb Shiga toxin Stx2b subunit B + Protein Added: AAA16362.1 stx2Ac Shiga toxin Stx2c subunit A + Protein Added: ADM83435.1 nleA type III secretion system effector NleA + Protein Added: ADN71659.1 iss increased serum survival lipoprotein Iss + Protein Added: AAP37403.1 stx2Ag Shiga toxin Stx2g subunit A + Protein Added: AAC26634.1 pet serine protease autotransporter toxin Pet + Protein Added: CBJ04488.1 cfaC CFA/I pilus usher protein CfaC + Protein Added: AAC15683.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: ADO96486.1 hmrM sodium-coupled multidrug efflux MATE transporter HmrM + Protein Added: ADP02162.1 merA mercury(II) reductase + Protein Added: CAA73506.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: ADR26561.1 iss increased serum survival lipoprotein Iss + Protein Added: ADR70747.1 copA laccase-like oxidase CopA + Protein Added: ADR70748.1 copB copper-binding protein CopB + Protein Added: BAC77251.1 sdeY multidrug efflux RND transporter permease subunit SdeY + Protein Added: ADW66881.1 arsH arsenic resistance NADPH-dependent reductase ArsH + Protein Added: AAP78989.1 ipaD type III secretion system needle tip complex protein IpaD + Protein Added: BAC78639.1 stx1Aa Shiga toxin Stx1a subunit A + Protein Added: BAC78640.1 stx1Ba Shiga toxin Stx1a subunit B + Protein Added: AAC69314.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: AAC69318.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: BAJ79293.1 aafA aggregative adherence fimbria II major subunit AafA + Protein Added: BAJ79295.1 aafA aggregative adherence fimbria II major subunit AafA + Protein Added: BAJ79296.1 aafA aggregative adherence fimbria II major subunit AafA + Protein Added: BAJ79297.1 aafA aggregative adherence fimbria II major subunit AafA + Protein Added: BAJ79299.1 agg5A aggregative adherence fimbria V major subunit Agg5A + Protein Added: BAJ79300.1 agg5A aggregative adherence fimbria V major subunit Agg5A + Protein Added: ADY84088.1 nreB nickel resistance MFS transporter NreB + Protein Added: AAC24352.1 ehxA enterohemolysin + Protein Added: ADZ45128.1 ehxA enterohemolysin + Protein Added: AAP88295.1 copA laccase-like oxidase CopA + Protein Added: AEC46567.1 copA laccase-like oxidase CopA + Protein Added: AEC46568.1 copB copper-binding protein CopB + Protein Added: AAC38671.1 ttgB multidrug efflux RND transporter permease subunit TtgB + Protein Added: BAA31774.1 ehxA enterohemolysin + Protein Added: BAA31815.1 toxB toxin B + Protein Added: BAA31832.1 katP catalase/peroxidase KatP + Protein Added: BAA31836.1 espP serine protease autotransporter EspP + Protein Added: AAQ17236.1 mco multi-copper oxidase Mco + Protein Added: AAQ17546.1 stx2Ae Shiga toxin Stx2e subunit A + Protein Added: CAA74174.1 espB type III secretion system LEE translocon pore-forming subunit EspB + Protein Added: AEG95593.1 iroN siderophore salmochelin receptor IroN + Protein Added: AAQ20107.1 cfaC CFA/I pilus usher protein CfaC + Protein Added: AEK01061.1 iroN siderophore salmochelin receptor IroN + Protein Added: AAC31499.1 espB type III secretion system LEE translocon pore-forming subunit EspB + Protein Added: AAY90617.2 emhA efflux RND transporter periplasmic adaptor subunit EmhA + Protein Added: CAA12346.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: CAA12348.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: AEM17342.1 cdtB cytolethal distending toxin nuclease subunit CdtB + Protein Added: AAC33154.1 lngA type IV pilus longus major pilin + Protein Added: AEQ14997.1 eilA HilA family transcriptional regulator EilA + Protein Added: AEQ15694.1 capU putative hexosyltransferase CapU + Protein Added: AAC33908.1 merC organomercurial transporter MerC + Protein Added: CCE21264.1 agg3A aggregative adherence fimbria 3 major subunit Agg3A + Protein Added: EHE72460.1 pmrA multidrug efflux MFS transporter PmrA + Protein Added: EHF16244.1 aatA dispersin export ABC transporter outer membrane protein AatA + Protein Added: EHF16297.1 aggB aggregative adherence fimbria I minor subunit AggB + Protein Added: EHF16298.1 aggA aggregative adherence fimbria I major subunit AggA + Protein Added: AET11941.1 nleA type III secretion system effector NleA + Protein Added: AET11995.1 nleA type III secretion system effector NleA + Protein Added: AET12008.1 nleA type III secretion system effector NleA + Protein Added: BAL46940.1 eae intimin type alpha + Protein Added: BAL46941.1 eae intimin type epsilon + Protein Added: BAL47132.1 eae intimin type epsilon + Protein Added: BAL47176.1 eae intimin type rho + Protein Added: BAL47179.1 eae intimin type epsilon + Protein Added: BAL47181.1 eae intimin type alpha + Protein Added: AEZ42789.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: AEZ43710.1 nleA type III secretion system effector NleA + Protein Added: AAQ92182.1 emhC efflux RND transporter outer membrane subunit EmhC + Protein Added: CAA77068.1 aggA aggregative adherence fimbria I major subunit AggA + Protein Added: AAR02190.1 aggA aggregative adherence fimbria I major subunit AggA + Protein Added: BAL72684.1 cdtB cytolethal distending toxin nuclease subunit CdtB + Protein Added: BAL72697.1 cdtB cytolethal distending toxin nuclease subunit CdtB + Protein Added: AAR12207.1 cdtB cytolethal distending toxin type III/V nuclease subunit CdtB + Protein Added: AAC69584.1 ybtQ yersiniabactin ABC transporter ATP-binding/permease protein YbtQ + Protein Added: AAR13270.1 iroN siderophore salmochelin receptor IroN + Protein Added: AFH14350.1 faeG F4 fimbrial adhesin subunit FaeG + Protein Added: CAD87828.1 sta1 heat-stable enterotoxin ST-I group a + Protein Added: BAA34299.1 mexX multidrug efflux RND transporter periplasmic adaptor subunit MexX + Protein Added: AFK88558.1 auto-sat serine protease autotransporter toxin Sat + Protein Added: AFM31243.1 tccP Tir-cytoskeleton coupling protein TccP2 + Protein Added: AFM70729.1 copA copper-translocating P-type ATPase CopA + Protein Added: AFM70730.1 copB copper/silver-translocating P-type ATPase CopB + Protein Added: AAC82360.1 espB type III secretion system LEE translocon pore-forming subunit EspB + Protein Added: AAR82963.1 nirA nickel resistance membrane nickel efflux protein NirA + Protein Added: AAR82964.1 nirB nickel-sensing transcriptional repressor NirB + Protein Added: AAR82966.1 nirD nickel resistance OB fold protein NirD + Protein Added: AFQ65076.1 mchF microcin H47 export transporter peptidase/ATP-binding subunit MchF + Protein Added: CAA50007.1 cnf1 cytotoxic necrotizing factor CNF1 + Protein Added: CAA12345.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: CAA12350.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: CAA12351.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: AFS59871.1 sepA serine protease autotransporter toxin SepA + Protein Added: AFS85685.1 mchF microcin H47 export transporter peptidase/ATP-binding subunit MchF + Protein Added: AAC99337.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: CAA21388.1 ybtP yersiniabactin ABC transporter ATP-binding/permease protein YbtP + Protein Added: BAA36431.1 merR mercury resistance transcriptional regulator MerR + Protein Added: BAA36433.1 merD mercury resistance co-regulator MerD + Protein Added: CAA40744.1 mchF microcin H47 export transporter peptidase/ATP-binding subunit MchF + Protein Added: CAA23532.1 ltcA heat-labile enterotoxin LT subunit A + Protein Added: CAA32535.1 fim41a fimbrial adhesin F41 protein Fim41a + Protein Added: AAD05936.1 copP copper-binding metallochaperone CopP + Protein Added: AAS07580.1 stx2Ac Shiga toxin Stx2c subunit A + Protein Added: AAS07581.1 stx2Bc Shiga toxin Stx2c subunit B + Protein Added: AAS07582.1 stx2Ac Shiga toxin Stx2c subunit A + Protein Added: AAS07586.1 stx2Ad Shiga toxin Stx2d subunit A + Protein Added: AAS07588.1 stx2Ad Shiga toxin Stx2d subunit A + Protein Added: AAS07589.1 stx2Bd Shiga toxin Stx2d subunit B + Protein Added: AAS07590.1 stx2Ac Shiga toxin Stx2c subunit A + Protein Added: AAS07596.1 stx2Ac Shiga toxin Stx2c subunit A + Protein Added: AAS07600.1 stx2Aa Shiga toxin Stx2a subunit A + Protein Added: AAS07606.1 stx2Aa Shiga toxin Stx2a subunit A + Protein Added: AAD11743.1 silE silver-binding protein SilE + Protein Added: AAD11746.1 silC Cu(+)/Ag(+) efflux RND transporter outer membrane channel SilC + Protein Added: AAD11748.1 silB Cu(+)/Ag(+) efflux RND transporter periplasmic adaptor subunit SilB + Protein Added: AAD11749.1 silA Cu(+)/Ag(+) efflux RND transporter permease subunit SilA + Protein Added: AAD11750.1 silP Ag(+)-translocating P-type ATPase SilP + Protein Added: AFX83959.1 subA subtilase AB5 cytotoxin subunit A + Protein Added: AAS21297.1 tbtR tribuytltin resistance regulator TbtR + Protein Added: CAA43585.1 stx2Ad Shiga toxin Stx2d subunit A + Protein Added: AAD15663.1 tbtA multidrug efflux RND transporter periplasmic adaptor subunit TbtA + Protein Added: AAD15664.1 tbtB multidrug efflux RND transporter permease subunit TbtB + Protein Added: AAD15665.1 tbtM multidrug efflux RND transporter outer membrane channel subunit TbtM + Protein Added: AAD17509.1 f17a F17A fimbrial adhesin + Protein Added: AAD17510.1 f17a F17A fimbrial adhesin + Protein Added: AAD17511.1 f17a F17A fimbrial adhesin + Protein Added: AAD17513.1 f17g F17G fimbrial adhesin + Protein Added: AAD17514.1 f17g F17G fimbrial adhesin + Protein Added: AAD17515.1 f17g F17G fimbrial adhesin + Protein Added: AAA18786.1 cdtB cytolethal distending toxin type II nuclease subunit CdtB + Protein Added: CAA77320.1 merR mercury resistance transcriptional regulator MerR + Protein Added: CAA77324.1 merD mercury resistance co-regulator MerD + Protein Added: CAA77325.1 merE broad-spectrum mercury transporter MerE + Protein Added: CAA81047.1 mtrR multidrug efflux system transcriptional repressor MtrR + Protein Added: AAA74436.1 mexA multidrug efflux RND transporter periplasmic adaptor subunit MexA + Protein Added: AGC14252.1 mchF microcin H47 export transporter peptidase/ATP-binding subunit MchF + Protein Added: AAS47019.1 nleC type III secretion system effector zinc metalloprotease NleC + Protein Added: AGC85979.1 iss increased serum survival lipoprotein Iss + Protein Added: CCG33322.1 iroN siderophore salmochelin receptor IroN + Protein Added: AAS50165.1 mchF microcin H47 export transporter peptidase/ATP-binding subunit MchF + Protein Added: AAO18187.2 sdeB multidrug efflux RND transporter permease subunit SdeB + Protein Added: AAA98221.1 merR mercury resistance transcriptional regulator MerR + Protein Added: AAS76847.1 fedA F18 fimbrial major subunit FedA + Protein Added: AAD25959.1 merR2 mercury resistance transcriptional regulator MerR2 + Protein Added: AAA98245.1 merA mercury(II) reductase + Protein Added: AAD27810.1 aafC aggregative adherence fimbria II usher protein AafC + Protein Added: AAA24698.1 tsh temperature-sensitive protease autotransporter hemagglutinin Tsh + Protein Added: CAE82650.1 faeG F4 fimbrial adhesin subunit FaeG + Protein Added: CAE82653.1 faeG F4 fimbrial adhesin subunit FaeG + Protein Added: CAE82670.1 faeG F4 fimbrial adhesin subunit FaeG + Protein Added: AAD28079.1 hlyE hemolysin HlyE + Protein Added: CAA83535.1 aggR aggregative adherence transcriptional regulator AggR + Protein Added: EMS03085.1 aggA aggregative adherence fimbria I major subunit AggA + Protein Added: CAE55775.1 auto-sat serine protease autotransporter toxin Sat + Protein Added: AAT36311.1 rpeA serine protease autotransporter colonization factor RpeA + Protein Added: BAA77749.1 stx2Ab Shiga toxin Stx2b subunit A + Protein Added: BAA77750.1 stx2Bb Shiga toxin Stx2b subunit B + Protein Added: BAA77751.1 stx2Ab Shiga toxin Stx2b subunit A + Protein Added: CAA46767.1 stx2Ab Shiga toxin Stx2b subunit A + Protein Added: CAA46768.1 stx2Bb Shiga toxin Stx2b subunit B + Protein Added: CAA77936.1 emrE multidrug efflux SMR transporter EmrE + Protein Added: AAT65972.1 stx2Ac Shiga toxin Stx2c subunit A + Protein Added: AAT66000.1 stx2Ac Shiga toxin Stx2c subunit A + Protein Added: AAT66010.1 stx2Aa Shiga toxin Stx2a subunit A + Protein Added: AAT66011.1 stx2Ba Shiga toxin Stx2a subunit B + Protein Added: AAT66012.1 stx2Ac Shiga toxin Stx2c subunit A + Protein Added: AGL46515.1 merF mercury resistance system transport protein MerF + Protein Added: AAT68784.1 subB subtilase AB5 cytotoxin subunit B + Protein Added: AAT68785.1 subA subtilase AB5 cytotoxin subunit A + Protein Added: AAT76975.1 lpfA long polar fimbria major subunit LpfA-O113 + Protein Added: AAD39553.1 ttgA toluene efflux RND transporter periplasmic adaptor subunit TtgA + Protein Added: AAU01878.1 sepA serine protease autotransporter toxin SepA + Protein Added: AAN38824.2 adeE multidrug efflux RND transporter permease subunit AdeE + Protein Added: AAU10477.1 adeD multidrug efflux RND transporter periplasmic adaptor subunit AdeD + Protein Added: AAU88208.1 stx2Ac Shiga toxin Stx2c subunit A + Protein Added: AAU88264.1 cdtB cytolethal distending toxin nuclease subunit CdtB + Protein Added: AAA57451.1 aggD aggregative adherence fimbria I chaperone AggD + Protein Added: AAA57452.1 aggC aggregative adherence fimbria I usher protein AggC + Protein Added: AAA57453.1 aggB aggregative adherence fimbria I minor subunit AggB + Protein Added: AAA57454.1 aggA aggregative adherence fimbria I major subunit AggA + Protein Added: CAA85366.1 stx1Aa Shiga toxin Stx1a subunit A + Protein Added: CAA85368.1 stx1Aa Shiga toxin Stx1a subunit A + Protein Added: CAA85370.1 stx1Ac Shiga toxin Stx1c subunit A + Protein Added: CAA85371.1 stx1Bc Shiga toxin Stx1c subunit B + Protein Added: EQX61716.1 aggA aggregative adherence fimbria I major subunit AggA + Protein Added: AAU95470.1 nleB type III secretion system effector arginine glycosyltransferase NleB + Protein Added: AAU95768.1 mepA multidrug efflux MATE transporter MepA + Protein Added: CAG17536.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: CAG17541.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: AAD43578.1 astA heat-stable enterotoxin EAST1 + Protein Added: AAD43579.1 astA heat-stable enterotoxin EAST1 + Protein Added: CAA85780.1 stx2Aa Shiga toxin Stx2a subunit A + Protein Added: AAA80193.1 mtrC multidrug efflux RND transporter periplasmic adaptor subunit MtrC + Protein Added: AAD44693.1 mtrA efflux transporter MtrCDE transcriptional activator MtrA + Protein Added: AAD47284.1 terZ tellurium resistance-associated protein TerZ + Protein Added: AAW38464.1 lmrS multidrug efflux MFS transporter LmrS + Protein Added: CAI43856.1 espF type III secretion system LEE effector EspF + Protein Added: CAI43860.1 espB type III secretion system LEE translocon pore-forming subunit EspB + Protein Added: CAI43862.1 espA type III secretion system LEE translocon filament protein EspA + Protein Added: CAI43865.1 eae intimin type epsilon + Protein Added: CAI43867.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: AAD54074.1 farB fatty acid resistance MFS efflux transporter permease subunit FarB + Protein Added: BAA84838.1 bfpA bundle-forming pilus major subunit BfpA + Protein Added: BAA84859.1 perA BFP system transcriptional regulator PerA + Protein Added: AAT35241.2 tsh temperature-sensitive protease autotransporter hemagglutinin Tsh + Protein Added: AAF03351.1 espF type III secretion system LEE effector EspF + Protein Added: AHW84565.1 aaiC type VI secretion system protein AaiC/Hcp2 + Protein Added: AHW84567.1 aaiC type VI secretion system protein AaiC/Hcp2 + Protein Added: AAX47728.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: AAX47729.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: AAX47730.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: AAX47731.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: CAA58525.1 pcoA multicopper oxidase PcoA + Protein Added: CAA58526.1 pcoB copper-binding protein PcoB + Protein Added: CAA58527.1 pcoC copper resistance system metallochaperone PcoC + Protein Added: CAA58528.1 pcoD copper resistance inner membrane protein PcoD + Protein Added: CAA58529.1 pcoR copper response regulator transcription factor PcoR + Protein Added: CAA58530.1 pcoS copper resistance membrane spanning protein PcoS + Protein Added: CAA58532.1 pcoE copper resistance system metallochaperone PcoE + Protein Added: AAX63244.1 fedF F18 fimbrial adhesin subunit FedF + Protein Added: AAX63245.1 fedF F18 fimbrial adhesin subunit FedF + Protein Added: AAX63259.1 fedF F18 fimbrial adhesin subunit FedF + Protein Added: AAX63270.1 fedF F18 fimbrial adhesin subunit FedF + Protein Added: AAY25390.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: AAY25394.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: AAY25395.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: AAF14522.1 mexX multidrug efflux RND transporter periplasmic adaptor subunit MexX + Protein Added: CAI91198.1 stx2Ag Shiga toxin Stx2g subunit A + Protein Added: AAF16681.1 srpS solvent efflux transporter transcriptional repressor SrpS + Protein Added: AAF16682.1 srpR solvent efflux transporter antirepressor SrpR + Protein Added: CAA54115.1 nfaE Dr family non-fimbrial adhesin I chaperone NfaE + Protein Added: AAF23359.1 eae intimin type epsilon + Protein Added: CAB64953.1 stx2Af Shiga toxin Stx2f subunit A + Protein Added: AAY63864.1 stx2Ad Shiga toxin Stx2d subunit A + Protein Added: AAY63865.1 stx2Bd Shiga toxin Stx2d subunit B + Protein Added: CDY80020.1 hsp20 small heat shock protein sHSP20 + Protein Added: AAY90615.1 emhC efflux RND transporter outer membrane subunit EmhC + Protein Added: KGL71342.1 silF Ag(+)/Cu(+) efflux RND transporter periplasmic metallochaperone SilF + Protein Added: AAF40764.1 farB fatty acid resistance MFS efflux transporter permease subunit FarB + Protein Added: AAF42063.1 mtrC multidrug efflux RND transporter periplasmic adaptor subunit MtrC + Protein Added: AAB26855.2 nfaE Dr family non-fimbrial adhesin I chaperone NfaE + Protein Added: CAB82448.1 cnrY nickel resistance system anti-sigma factor CnrY + Protein Added: AAZ76497.1 ehxA enterohemolysin + Protein Added: AAZ76514.1 espP serine protease autotransporter EspP + Protein Added: AAZ76524.1 subA subtilase AB5 cytotoxin subunit A + Protein Added: AAZ87985.1 ipaH9.8 T3SS effector E3 ubiquitin-protein ligase IpaH9.8 + Protein Added: AAZ88030.1 ipaH3 T3SS effector E3 ubiquitin-protein ligase IpaH3 + Protein Added: AAZ89804.1 sigA serine protease autotransporter toxin SigA + Protein Added: AAZ91108.1 ipaD type III secretion system needle tip complex protein IpaD + Protein Added: ABA25986.1 merF mercury resistance system transport protein MerF + Protein Added: AAX22079.2 mchF microcin H47 export transporter peptidase/ATP-binding subunit MchF + Protein Added: AAA65102.1 nccX periplasmic metal sensor NccX + Protein Added: AAA65103.1 nccH nickel/cobalt/cadmium resistance ECF sigma factor NccH + Protein Added: ABB16332.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: ABB36584.1 stx2Ac Shiga toxin Stx2c subunit A + Protein Added: ABB36586.1 stx2Ad Shiga toxin Stx2d subunit A + Protein Added: ABB61187.1 iroN siderophore salmochelin receptor IroN + Protein Added: ABB62096.1 ipaH9.8 T3SS effector E3 ubiquitin-protein ligase IpaH9.8 + Protein Added: ABB62098.1 ipaH9.8 T3SS effector E3 ubiquitin-protein ligase IpaH9.8 + Protein Added: ABB64677.1 ipaD type III secretion system needle tip complex protein IpaD + Protein Added: ABB65884.1 ipaH3 T3SS effector E3 ubiquitin-protein ligase IpaH3 + Protein Added: ABB66229.1 ipaH9.8 T3SS effector E3 ubiquitin-protein ligase IpaH9.8 + Protein Added: ABB68924.1 virF AraC family invasion system transcriptional regulator VirF + Protein Added: KLB41245.1 copL transcriptional regulator CopL + Protein Added: CAI79539.1 eatA serine protease autotransporter toxin EatA + Protein Added: CAJ44959.1 mchF microcin H47 export transporter peptidase/ATP-binding subunit MchF + Protein Added: CAB77169.2 stx2Ae Shiga toxin Stx2e subunit A + Protein Added: CAB94149.1 stx2Ba Shiga toxin Stx2a subunit B + Protein Added: AAC34727.1 faeG F4 fimbrial adhesin subunit FaeG + Protein Added: BAA96815.1 tir type III secretion system LEE translocated intimin receptor Tir + Protein Added: AAA69514.1 f17g F17G fimbrial adhesin + Protein Added: CAA88252.1 sepA serine protease autotransporter toxin SepA + Protein Added: BAE79899.1 smfY multidrug efflux MFS transporter SmfY + Protein Added: ABE06598.1 sfaS S-fimbrial adhesin minor subunit SfaS + Protein Added: ABE10324.1 cnf1 cytotoxic necrotizing factor CNF1 + Protein Added: CAJ34994.1 bfpA bundle-forming pilus major subunit BfpA + Protein Added: ABF13034.1 merD mercury resistance co-regulator MerD + Protein Added: ABF13067.1 cnrC nickel efflux RND transporter outer membrane subunit CnrC + Protein Added: ABF13069.1 cnrA nickel efflux RND transporter permease subunit CnrA + Protein Added: ABF13070.1 cnrT nickel diffusion facilitator CnrT + Protein Added: ABF14406.1 ncrA Metal Resistance + Protein Added: ABF14407.1 ncrB nickel-sensing transcriptional repressor NcrB + Protein Added: CAK02719.1 cnf1 cytotoxic necrotizing factor CNF1 + Protein Added: CAA90630.1 stx2Aa Shiga toxin Stx2a subunit A + Protein Added: BAT41861.1 eae intimin type alpha + Protein Added: CAK15125.1 mexE MexE family multidrug efflux RND transporter periplasmic adaptor subunit + Protein Added: AAG01033.1 stx2Ac Shiga toxin Stx2c subunit A + Protein Added: AAB59153.1 cadC Cd(II)/Pb(II)/Zn(II)-sensing metalloregulatory transcriptional repressor CadC + Protein Added: ABF61434.1 ncrA Metal Resistance + Protein Added: ABF61435.1 ncrB nickel-sensing transcriptional repressor NcrB + Protein Added: ABF61437.1 ncrY nickel resistance OB fold protein NcrY + Protein Added: AAG05881.1 mexE MexE family multidrug efflux RND transporter periplasmic adaptor subunit + Protein Added: AAG10695.1 perA BFP system transcriptional regulator PerA + Protein Added: WP_000697899.1 pmrA pmrA + Protein Added: WP_097509477.1 acrB acrB + +- AMRFinder HMM library Changes: + Prev. Release: 574 + This Release: 610 + Removed: 2 + Added: 38 + Changed: 572 + HMM Removed: NF000478.2 linco_LnuE + HMM Removed: NF012180.1 tet_MFS_43 + HMM Added: NF000131.1 MATE_multi_MepA + HMM Added: NF000249.1 MexE + HMM Added: NF000252.1 MexX + HMM Added: NF000263.1 MATE_multi_NorM + HMM Added: NF000282.2 RND_permease_1 + HMM Added: NF000314.1 adeB + HMM Added: NF000315.1 adeC-adeK-oprM + HMM Added: NF000336.1 emrE + HMM Added: NF007842.1 PRK10555.1 + HMM Added: NF010310.2 PRK13747.1 + HMM Added: NF010315.0 PRK13752.1 + HMM Added: NF011706.2 PRK15127.1 + HMM Added: NF028537.1 P_eth_NH2_trans + HMM Added: NF033086.2 penta_rpt_Qnr + HMM Added: NF033134.0 cmlA_floR + HMM Added: NF033142.1 efflux_OM_AdeC + HMM Added: NF033143.1 efflux_OM_AdeK + HMM Added: NF033555.1 lyase_MerB + HMM Added: NF033560.1 merT_RC607 + HMM Added: NF033565.0 trans_MerF + HMM Added: NF033627.3 intimin_all + HMM Added: NF033637.1 transloc_TIR + HMM Added: NF033639.1 intimin_alpha + HMM Added: NF033643.1 EspJ_gen + HMM Added: NF033646.1 toxin_EAST1 + HMM Added: NF033651.1 cyto_nec_fctrs + HMM Added: NF033658.1 Shiga_Stx1A + HMM Added: NF033659.0 Shiga_Stx1B + HMM Added: NF033660.0 Shiga_Stx2B + HMM Added: NF033661.1 Shiga_Stx2A + HMM Added: NF033727.1 chaperon_ArsD + HMM Added: NF033781.1 chaper_CopP + HMM Added: NF033783.1 coreg_MerD + HMM Added: NF033784.1 transport_merC + HMM Added: NF033786.1 phenyl_MerG + HMM Added: NF033834.1 RND_adapt_MexA + HMM Added: TIGR02052.1 TIGR02052 + HMM Added: TIGR02053.1 TIGR02053 +--------------------------------------------------------------------- +Changes included in 2019-04-29.1 +--------------------------------------------------------------------- + +Summary: In addition to the usual addition of 134 new genes and alleles +community feedback led to the renaming of a few dfr genes. The family +heirarchy file (fam.tab) was cleaned up by removing a number of superfluous +entries. + +Changes included in 2019-04-29.1 +- Protein changes: + Prev. Release: 4810 + This Release: 4942 + Removed: 1 + Added: 134 + Modified: 3 + Protein Removed: WP_109545040.1 chrB + Protein Added: WP_000054744.1 satA_Ba + Protein Added: WP_001211209.1 blaADC-140 + Protein Added: WP_001211210.1 blaADC-185 + Protein Added: WP_001211214.1 blaADC-144 + Protein Added: WP_001211215.1 blaADC-115 + Protein Added: WP_001572373.1 mcr-9.1 + Protein Added: WP_002126587.1 blaADC-120 + Protein Added: WP_002157727.1 blaADC-117 + Protein Added: WP_003112187.1 blaADC-191 + Protein Added: WP_003242546.1 satA_Bs + Protein Added: WP_004643536.1 blaADC-128 + Protein Added: WP_004700205.1 blaADC-133 + Protein Added: WP_004707701.1 blaADC-131 + Protein Added: WP_004712857.1 blaADC-119 + Protein Added: WP_004790939.1 blaADC-135 + Protein Added: WP_004840559.1 blaADC-123 + Protein Added: WP_004886093.1 blaADC-130 + Protein Added: WP_005039111.1 blaADC-129 + Protein Added: WP_005046018.1 blaADC-127 + Protein Added: WP_005068074.1 blaADC-132 + Protein Added: WP_005109685.1 blaADC-121 + Protein Added: WP_005123276.1 blaADC-122 + Protein Added: WP_005131186.1 blaADC-125 + Protein Added: WP_005307218.1 blaADC-134 + Protein Added: WP_005404206.1 blaOXA-813 + Protein Added: WP_005405613.1 blaOXA-814 + Protein Added: WP_013197184.1 blaADC-193 + Protein Added: WP_014207272.1 blaADC-149 + Protein Added: WP_016137488.1 blaADC-136 + Protein Added: WP_016140427.1 blaADC-137 + Protein Added: WP_016146025.1 blaADC-138 + Protein Added: WP_017386568.1 blaADC-150 + Protein Added: WP_017778762.1 mcr-3.27 + Protein Added: WP_017816757.1 blaADC-116 + Protein Added: WP_026382828.1 blaOXA-114i + Protein Added: WP_026444036.1 blaOXA-816 + Protein Added: WP_032039838.1 blaADC-139 + Protein Added: WP_032053762.1 blaOXA-819 + Protein Added: WP_032057042.1 blaOXA-820 + Protein Added: WP_032062810.1 blaADC-141 + Protein Added: WP_032625176.1 blaACT-66 + Protein Added: WP_033502167.1 blaADC-143 + Protein Added: WP_034670108.1 blaOXA-818 + Protein Added: WP_034688190.1 blaOXA-812 + Protein Added: WP_036299413.1 sulR + Protein Added: WP_039246976.1 blaADC-148 + Protein Added: WP_039258389.1 blaADC-146 + Protein Added: WP_039270258.1 blaADC-145 + Protein Added: WP_044718369.1 blaADC-147 + Protein Added: WP_047726486.1 blaACT-65 + Protein Added: WP_053498400.1 blaOXA-114h + Protein Added: WP_054437016.1 blaOXA-114j + Protein Added: WP_054471662.1 blaOXA-114m + Protein Added: WP_054500785.1 blaOXA-789 + Protein Added: WP_054517040.1 blaOXA-114l + Protein Added: WP_057061999.1 blaOXA-821 + Protein Added: WP_059247009.1 blaADC-184 + Protein Added: WP_063099318.1 blaADC-151 + Protein Added: WP_063147148.1 blaACT-67 + Protein Added: WP_072292271.1 blaADC-186 + Protein Added: WP_075040046.1 blaOXA-817 + Protein Added: WP_076412384.1 blaOXA-114p + Protein Added: WP_099595307.1 dfrA35 + Protein Added: WP_103663397.1 sulX + Protein Added: WP_106743337.1 mcr-1.18 + Protein Added: WP_109545052.1 mcr-1.14 + Protein Added: WP_110612827.1 blaOXA-796 + Protein Added: WP_111280830.1 blaOXA-815 + Protein Added: WP_115470049.1 blaKPC-40 + Protein Added: WP_117664257.1 cfxA6 + Protein Added: WP_125052776.1 blaADC-114 + Protein Added: WP_136512051.1 blaACT-68 + Protein Added: WP_136512052.1 blaADC-109 + Protein Added: WP_136512053.1 blaADC-110 + Protein Added: WP_136512054.1 blaADC-112 + Protein Added: WP_136512055.1 blaADC-113 + Protein Added: WP_136512056.1 blaADC-187 + Protein Added: WP_136512057.1 blaADC-188 + Protein Added: WP_136512058.1 blaADC-189 + Protein Added: WP_136512059.1 blaADC-190 + Protein Added: WP_136512060.1 blaADC-192 + Protein Added: WP_136512061.1 blaADC-24 + Protein Added: WP_136512062.1 blaADC-65 + Protein Added: WP_136512063.1 blaADC-66 + Protein Added: WP_136512064.1 blaCTX-M-225 + Protein Added: WP_136512065.1 blaCTX-M-226 + Protein Added: WP_136512066.1 blaFRI-7 + Protein Added: WP_136512067.1 blaIMI-18 + Protein Added: WP_136512068.1 blaIMP-39 + Protein Added: WP_136512069.1 blaIMP-46 + Protein Added: WP_136512070.1 blaKPC-42 + Protein Added: WP_136512071.1 blaKPC-43 + Protein Added: WP_136512072.1 blaNDM-28 + Protein Added: WP_136512073.1 blaOXA-114k + Protein Added: WP_136512074.1 blaOXA-114n + Protein Added: WP_136512075.1 blaOXA-114q + Protein Added: WP_136512076.1 blaOXA-114r + Protein Added: WP_136512077.1 blaOXA-114s + Protein Added: WP_136512078.1 blaOXA-114t + Protein Added: WP_136512079.1 blaOXA-114u + Protein Added: WP_136512080.1 blaOXA-114v + Protein Added: WP_136512081.1 blaOXA-114w + Protein Added: WP_136512082.1 blaOXA-114x + Protein Added: WP_136512083.1 blaOXA-787 + Protein Added: WP_136512084.1 blaOXA-788 + Protein Added: WP_136512085.1 blaOXA-793 + Protein Added: WP_136512086.1 blaOXA-794 + Protein Added: WP_136512087.1 blaOXA-795 + Protein Added: WP_136512088.1 blaOXA-797 + Protein Added: WP_136512089.1 blaOXA-798 + Protein Added: WP_136512090.1 blaOXA-799 + Protein Added: WP_136512091.1 blaOXA-800 + Protein Added: WP_136512092.1 blaOXA-801 + Protein Added: WP_136512093.1 blaOXA-802 + Protein Added: WP_136512094.1 blaOXA-803 + Protein Added: WP_136512095.1 blaOXA-804 + Protein Added: WP_136512096.1 blaOXA-805 + Protein Added: WP_136512097.1 blaOXA-806 + Protein Added: WP_136512098.1 blaOXA-807 + Protein Added: WP_136512099.1 blaOXA-808 + Protein Added: WP_136512100.1 blaOXA-809 + Protein Added: WP_136512101.1 blaOXA-810 + Protein Added: WP_136512102.1 blaOXA-811 + Protein Added: WP_136512103.1 blaOXA-823 + Protein Added: WP_136512104.1 blaOXA-824 + Protein Added: WP_136512105.1 blaPER-13 + Protein Added: WP_136512106.1 blaVIM-48 + Protein Added: WP_136512107.1 blaVIM-55 + Protein Added: WP_136512108.1 blaVIM-63 + Protein Added: WP_136512109.1 blaVIM-66 + Protein Added: WP_136512110.1 mcr-1.16 + Protein Added: WP_136512111.1 mcr-1.17 + Protein Added: WP_136512112.1 mcr-3.29 + Protein Modified: WP_001031075.1 dfr18 updated to WP_001031075.1 dfrA18 + Protein Modified: WP_032490189.1 dfrA18 updated to WP_032490189.1 dfrA19 + Protein Modified: WP_063843245.1 chrB updated to WP_063843245.1 chrB_rRNA_meth +- AMR HMM library Changes: + Prev. Release: 571 + This Release: 574 + Removed: 0 + Added: 3 + Changed: 571 + HMM Added: NF033818.0 blaOXA-114_like + HMM Added: NF033836.1 polymyxin_MCR9 + HMM Added: NF033851.1 trim_DfrA35 + HMM Modified: NF000039.1 trim_Dfr18 renamed to NF000039.1 trim_DfrA18 + HMM Modified: NF000041.1 trim_DfrA18_A19 renamed to NF000041.1 trim_DfrA19 + HMM Modified: NF000422.2 blaPDC updated to NF000422.6 blaPDC +- Protein family changes: + Prev. Release: 1177 + This Release: 1119 + Removed: 68 + Added: 10 + Modified: 4 + Family Removed: - PORIN + Family Removed: - aac(1) + Family Removed: - aac(3')-IIe + Family Removed: - aac(3)-Ie + Family Removed: - aac(3)-VI + Family Removed: - aac(3)-Vb + Family Removed: - aac(6')-Ib8 + Family Removed: - aacA44 + Family Removed: - aadA1bt + Family Removed: - aadA1r + Family Removed: - aadA24 + Family Removed: - ampC_Eae + Family Removed: - ampH + Family Removed: - ampS + Family Removed: - ant(3'')(9) + Family Removed: - ant(3'')-Ii + Family Removed: - aph(3')-Ic + Family Removed: - arr-Cb + Family Removed: - blaCMG + Family Removed: - blaKLUG + Family Removed: - blaLMB + Family Removed: - blaMSI-OXA + Family Removed: - blaOXA_missing + Family Removed: - blaPNGM + Family Removed: - blaZEG + Family Removed: - blmS + Family Removed: - catA12 + Family Removed: - ccrA + Family Removed: NF000488.1 chrB + Family Removed: - cml + Family Removed: - cmlA7 + Family Removed: - cmlA9 + Family Removed: NF000039.1 dfr18 + Family Removed: NF000041.1 dfrA18_dfrA19 + Family Removed: - dfrA1_var + Family Removed: - dfrA29 + Family Removed: - dfrA33 + Family Removed: - dfrB7 + Family Removed: - flo + Family Removed: - mef(E) + Family Removed: - mef(G) + Family Removed: - mef(I) + Family Removed: - mph(D) + Family Removed: - nimF + Family Removed: - nimH + Family Removed: - omp35 + Family Removed: - ompE35 + Family Removed: - otr(C) + Family Removed: - penA + Family Removed: - sat2A + Family Removed: - sat3A + Family Removed: - spc + Family Removed: - sul1delta + Family Removed: - vanH-Ac2 + Family Removed: - vanH-F + Family Removed: - vanR-Pt + Family Removed: - vanR-Pt2 + Family Removed: - vanS-I + Family Removed: - vanSc + Family Removed: - vanTc4 + Family Removed: - vanX-Ac2 + Family Removed: - vanX-F + Family Removed: - vanX-Pt2 + Family Removed: - vanY-40021673 + Family Removed: - vanY-D4 + Family Removed: - vanY-D5 + Family Removed: - vanY-M + Family Removed: - vanY-Pt2 + Family Added: NF033818.0 blaOXA-114_like + Family Added: NF033851.1 dfrA35 + Family Added: NF033124.1 estX + Family Added: NF033836.1 mcr-9 + Family Added: - satA_Bs + Family Added: - sulR + Family Added: - sulX + Family Changed: NF000422.2 blaPDC updated to NF000422.6 blaPDC + Family Changed: NF000488.1 chrB renamed to chrB_rRNA_meth + Family Changed: NF000039.1 dfr18 renamed to dfrA18 + Family Changed: NF000041.1 dfrA18_dfrA19 renamed to dfrA19 +--------------------------------------------------------------------- +Changes included in 2019-02-08.1 +--------------------------------------------------------------------- + +Two incorrectly assigned proteins were accidentally released. They are not +AMR proteins and should not have been released. This release simply removes +them and is otherwise unchanged. + +- Protein changes: + Prev. Release: 4812 + This Release: 4810 + Removed: 2 + Added: 0 + Changed: 4810 + Protein Removed: WP_000122253.1 sat + Protein Removed: WP_001045652.1 sat +--------------------------------------------------------------------- +Changes included in 2019-02-04.1 +--------------------------------------------------------------------- +- Protein name changes: + "inhibitor-resistant" was added to the names of: + blaKPC-8 + blaKPC-30 + blaKPC-31 + blaKPC-32 + blaKPC-33 +- Protein changes: + Prev. Release: 4730 + This Release: 4812 + Removed: 0 + Added: 82 + Protein modified: WP_063855700.1 tet(35) replaced with WP_005480402.1 + Protein Added: WP_000122253.1 sat + Protein Added: WP_001045652.1 sat + Protein Added: WP_002415638.1 poxtA + Protein Added: WP_003234144.1 vmlR + Protein Added: WP_029728367.1 blaB + Protein Added: WP_044103626.1 blaVEB-21 + Protein Added: WP_046693238.1 blaADC-181 + Protein Added: WP_049637206.1 blaOXA-780 + Protein Added: WP_057691114.1 blaADC-182 + Protein Added: WP_058492019.1 vanI + Protein Added: WP_065980086.1 blaOXA-784 + Protein Added: WP_069953510.1 blaAFM-1 + Protein Added: WP_069996660.1 mecC3 + Protein Added: WP_071223118.1 taeA + Protein Added: WP_087343787.1 ant(6)-Ic + Protein Added: WP_087344360.1 blaBBI + Protein Added: WP_087344902.1 catV + Protein Added: WP_087346196.1 ant(4')-Ic + Protein Added: WP_087347987.1 rphC + Protein Added: WP_087348261.1 rphD + Protein Added: WP_087349244.1 mphJ + Protein Added: WP_087349651.1 aac(6')-35 + Protein Added: WP_114225343.1 blaOXA-739 + Protein Added: WP_123002100.1 blaGES-40 + Protein Added: WP_123002101.1 blaKPC-38 + Protein Added: WP_123002102.1 blaNDM-27 + Protein Added: WP_123002103.1 blaVIM-61 + Protein Added: WP_126205827.1 blaOXA-785 + Protein Added: WP_127728991.1 blaFRI-6 + Protein Added: WP_128268231.1 mecC2 + Protein Added: WP_128268232.1 blaADC-183 + Protein Added: WP_128268233.1 blaCARB-50 + Protein Added: WP_128268234.1 blaCFE-2 + Protein Added: WP_128268235.1 blaCTX-M-215 + Protein Added: WP_128268236.1 blaDHA-28 + Protein Added: WP_128268237.1 blaKPC-39 + Protein Added: WP_128268238.1 blaOXA-738 + Protein Added: WP_128268239.1 blaOXA-740 + Protein Added: WP_128268240.1 blaOXA-741 + Protein Added: WP_128268241.1 blaOXA-742 + Protein Added: WP_128268242.1 blaOXA-743 + Protein Added: WP_128268243.1 blaOXA-744 + Protein Added: WP_128268244.1 blaOXA-745 + Protein Added: WP_128268245.1 blaOXA-746 + Protein Added: WP_128268246.1 blaOXA-747 + Protein Added: WP_128268247.1 blaOXA-748 + Protein Added: WP_128268248.1 blaOXA-749 + Protein Added: WP_128268249.1 blaOXA-750 + Protein Added: WP_128268250.1 blaOXA-751 + Protein Added: WP_128268251.1 blaOXA-752 + Protein Added: WP_128268252.1 blaOXA-753 + Protein Added: WP_128268253.1 blaOXA-754 + Protein Added: WP_128268254.1 blaOXA-755 + Protein Added: WP_128268255.1 blaOXA-756 + Protein Added: WP_128268256.1 blaOXA-757 + Protein Added: WP_128268257.1 blaOXA-758 + Protein Added: WP_128268258.1 blaOXA-759 + Protein Added: WP_128268259.1 blaOXA-760 + Protein Added: WP_128268260.1 blaOXA-761 + Protein Added: WP_128268261.1 blaOXA-762 + Protein Added: WP_128268262.1 blaOXA-763 + Protein Added: WP_128268263.1 blaOXA-764 + Protein Added: WP_128268264.1 blaOXA-765 + Protein Added: WP_128268265.1 blaOXA-766 + Protein Added: WP_128268266.1 blaOXA-767 + Protein Added: WP_128268267.1 blaOXA-768 + Protein Added: WP_128268268.1 blaOXA-769 + Protein Added: WP_128268269.1 blaOXA-770 + Protein Added: WP_128268270.1 blaOXA-771 + Protein Added: WP_128268271.1 blaOXA-772 + Protein Added: WP_128268272.1 blaOXA-773 + Protein Added: WP_128268273.1 blaOXA-774 + Protein Added: WP_128268274.1 blaOXA-775 + Protein Added: WP_128268275.1 blaOXA-776 + Protein Added: WP_128268276.1 blaOXA-781 + Protein Added: WP_128268277.1 blaOXA-782 + Protein Added: WP_128268278.1 blaOXA-783 + Protein Added: WP_128268279.1 blaOXA-786 + Protein Added: WP_128268280.1 blaPDC-317 + Protein Added: WP_128268286.1 blaVEB-20 + Protein Added: WP_128268287.1 blaVIM-62 + Protein Added: WP_128268288.1 qnrS15 +- AMR HMM library Changes: + Prev. Release: 568 + This Release: 571 + Removed: 0 + Added: 3 + HMM Added: NF033714.1 blaBBI + HMM Added: NF033736.1 blaAFM + HMM Added: NF033815.0 blaOXA-364_like + HMM Modified: NF000355.2 ribo_prot_ABC_F updated to NF000355.3 ribo_prot_ABC_F +- Protein family changes: + Prev. Release: 1161 + This Release: 1177 + Removed: 0 + Added: 16 + Family Added: - aac(6')-35 + Family Added: - ant(4')-Ic + Family Added: - ant(6)-Ic + Family Added: NF033736.1 blaAFM + Family Added: NF033714.1 blaBBI + Family Added: NF033815.0 blaOXA-364_like + Family Added: - mecC2 + Family Added: - mecC3 + Family Added: - mphJ + Family Added: - poxtA + Family Added: - rphC + Family Added: - rphD + Family Added: - rph_gen + Family Added: - satA_Ba + Family Added: - taeA + Family Added: - vmlR + Family Changed: NF000355.2 abc-f updated to NF000355.3 abc-f + +--------------------------------------------------------------------- +Changes included in 2018-11-07.1 +--------------------------------------------------------------------- + +Due to a communication error three blaOXA alleles in the AMR database have +been reassigned. Alleles published by Tian, et al. (PMID:30247543) have +replaced them. + +AFY12006.1 JX846494.1 WP_072678505.1 NG_061615.1 were blaOXA-669, now they are blaOXA-732 +AAL47570.1 AY066004.1 WP_114699266.1 NG_061383.1 were blaOXA-666, now they are blaOXA-729 +AXH06203.1 MH684781.1 WP_116786836.1 NG_061623.1 were blaOXA-667, now they are blaOXA-730 + +- Protein changes: + Prev. Release: 4579 + This Release: 4730 + Removed: 0 + Added: 151 + Protein Added: WP_004143591.1 blaSHV-206 + Protein Added: WP_004384957.1 blaCSA-2 + Protein Added: WP_007888761.1 blaCSA-1 + Protein Added: WP_011245929.1 clbB + Protein Added: WP_011707905.1 blaOXA-725 + Protein Added: WP_012116915.1 clbA + Protein Added: WP_015892743.1 clbC + Protein Added: WP_016162389.1 blaOXA-673 + Protein Added: WP_016168805.1 blaOXA-664 + Protein Added: WP_016651348.1 blaOXA-670 + Protein Added: WP_016657654.1 blaOXA-665 + Protein Added: WP_016660101.1 blaOXA-671 + Protein Added: WP_016685888.1 blaOXA-715 + Protein Added: WP_017822040.1 qnrVC10 + Protein Added: WP_023271137.1 blaOXA-672 + Protein Added: WP_023341517.1 blaSHV-211 + Protein Added: WP_031998610.1 blaOXA-716 + Protein Added: WP_032018141.1 blaOXA-717 + Protein Added: WP_032495491.1 blaKLUC-3 + Protein Added: WP_032495492.1 blaKLUC-4 + Protein Added: WP_032974004.1 blaCMA-1 + Protein Added: WP_033179079.1 crpP + Protein Added: WP_034612711.1 blaOXA-668 + Protein Added: WP_056517622.1 blaOXA-669 + Protein Added: WP_057097547.1 aph(2'')-If2 + Protein Added: WP_058652112.1 dfrA34 + Protein Added: WP_064733493.1 blaSHV-207 + Protein Added: WP_064760451.1 qepA4 + Protein Added: WP_064768701.1 qepA7 + Protein Added: WP_077096319.1 blaOXA-724 + Protein Added: WP_081406929.1 blaOXA-674 + Protein Added: WP_081853183.1 blaELM-1 + Protein Added: WP_092689909.1 blaOXA-666 + Protein Added: WP_094166899.1 blaCTX-M-224 + Protein Added: WP_096735335.1 blaOXA-667 + Protein Added: WP_096941464.1 qepA6 + Protein Added: WP_100663667.1 blaKLUC-5 + Protein Added: WP_101150415.1 blaOXA-726 + Protein Added: WP_104159136.1 blaSHV-224 + Protein Added: WP_105620838.1 blaCMA-2 + Protein Added: WP_109232473.1 blaSHV-220 + Protein Added: WP_109638756.1 qepA8 + Protein Added: WP_112021705.1 qepA9 + Protein Added: WP_113334341.1 qepA10 + Protein Added: WP_115196748.1 blaSHV-210 + Protein Added: WP_117241614.1 blaSHV-223 + Protein Added: WP_122630822.1 blaEFM-1 + Protein Added: WP_122630823.1 blaEVM-1 + Protein Added: WP_122630824.1 blaECM-1 + Protein Added: WP_122630825.1 blaEAM-1 + Protein Added: WP_122630826.1 blaGES-38 + Protein Added: WP_122630827.1 blaGES-39 + Protein Added: WP_122630828.1 blaVIM-53 + Protein Added: WP_122630829.1 blaDHT2-1 + Protein Added: WP_122630830.1 blaSPN79-1 + Protein Added: WP_122630831.1 blaCRD3-1 + Protein Added: WP_122630832.1 blaALG6-1 + Protein Added: WP_122630833.1 blaALG11-1 + Protein Added: WP_122630834.1 blaGRD33-1 + Protein Added: WP_122630835.1 blaGRD23-1 + Protein Added: WP_122630836.1 blaCMY-158 + Protein Added: WP_122630837.1 blaCMY-159 + Protein Added: WP_122630838.1 blaSHV-201 + Protein Added: WP_122630839.1 blaSHV-202 + Protein Added: WP_122630840.1 aph(2'') + Protein Added: WP_122630841.1 blaTEM-237 + Protein Added: WP_122630842.1 blaOXA-655 + Protein Added: WP_122630843.1 blaOXA-656 + Protein Added: WP_122630844.1 blaOXA-733 + Protein Added: WP_122630845.1 blaPDC-307 + Protein Added: WP_122630846.1 blaPDC-308 + Protein Added: WP_122630847.1 blaPDC-309 + Protein Added: WP_122630848.1 blaPDC-310 + Protein Added: WP_122630849.1 blaPDC-311 + Protein Added: WP_122630850.1 blaPDC-312 + Protein Added: WP_122630851.1 blaPDC-313 + Protein Added: WP_122630852.1 blaPDC-314 + Protein Added: WP_122630853.1 blaOXA-734 + Protein Added: WP_122630854.1 blaOXA-735 + Protein Added: WP_122630855.1 blaOXA-736 + Protein Added: WP_122630856.1 blaOXA-737 + Protein Added: WP_122630857.1 blaOXA-675 + Protein Added: WP_122630858.1 blaOXA-676 + Protein Added: WP_122630859.1 blaOXA-677 + Protein Added: WP_122630860.1 blaOXA-678 + Protein Added: WP_122630861.1 blaIMP-80 + Protein Added: WP_122630862.1 blaCTX-M-223 + Protein Added: WP_122630863.1 blaSHV-205 + Protein Added: WP_122630864.1 blaOXA-680 + Protein Added: WP_122630865.1 blaSHV-208 + Protein Added: WP_122630866.1 blaSHV-209 + Protein Added: WP_122630867.1 blaSHV-212 + Protein Added: WP_122630868.1 blaSHV-213 + Protein Added: WP_122630869.1 blaSHV-214 + Protein Added: WP_122630870.1 blaSHV-215 + Protein Added: WP_122630871.1 blaSHV-216 + Protein Added: WP_122630872.1 blaSHV-217 + Protein Added: WP_122630873.1 blaSHV-218 + Protein Added: WP_122630874.1 blaSHV-219 + Protein Added: WP_122630875.1 blaSHV-221 + Protein Added: WP_122630876.1 blaSHV-222 + Protein Added: WP_122630877.1 blaSHV-225 + Protein Added: WP_122630878.1 blaSHV-226 + Protein Added: WP_122630879.1 blaSHV-227 + Protein Added: WP_122630880.1 blaSHV-228 + Protein Added: WP_122630881.1 blaOXA-681 + Protein Added: WP_122630882.1 blaPDC-315 + Protein Added: WP_122630883.1 blaPDC-316 + Protein Added: WP_122630884.1 blaOXA-682 + Protein Added: WP_122630885.1 blaOXA-683 + Protein Added: WP_122630886.1 blaOXA-684 + Protein Added: WP_122630887.1 blaOXA-685 + Protein Added: WP_122630888.1 blaOXA-686 + Protein Added: WP_122630889.1 blaOXA-687 + Protein Added: WP_122630890.1 blaOXA-688 + Protein Added: WP_122630891.1 blaOXA-689 + Protein Added: WP_122630892.1 blaOXA-690 + Protein Added: WP_122630893.1 blaOXA-691 + Protein Added: WP_122630894.1 blaOXA-692 + Protein Added: WP_122630895.1 blaOXA-693 + Protein Added: WP_122630896.1 blaOXA-694 + Protein Added: WP_122630897.1 blaOXA-695 + Protein Added: WP_122630898.1 blaOXA-696 + Protein Added: WP_122630899.1 blaOXA-697 + Protein Added: WP_122630900.1 blaOXA-698 + Protein Added: WP_122630901.1 blaOXA-699 + Protein Added: WP_122630902.1 blaOXA-700 + Protein Added: WP_122630903.1 blaOXA-701 + Protein Added: WP_122630904.1 blaOXA-702 + Protein Added: WP_122630905.1 blaOXA-703 + Protein Added: WP_122630906.1 blaOXA-704 + Protein Added: WP_122630907.1 blaOXA-705 + Protein Added: WP_122630908.1 blaOXA-706 + Protein Added: WP_122630909.1 blaOXA-707 + Protein Added: WP_122630910.1 blaOXA-718 + Protein Added: WP_122630911.1 blaOXA-719 + Protein Added: WP_122630912.1 blaOXA-720 + Protein Added: WP_122630913.1 blaOXA-721 + Protein Added: WP_122630914.1 blaOXA-722 + Protein Added: WP_122630915.1 blaOXA-723 + Protein Added: WP_122630916.1 blaOXA-708 + Protein Added: WP_122630917.1 blaOXA-709 + Protein Added: WP_122630918.1 blaOXA-710 + Protein Added: WP_122630919.1 blaOXA-711 + Protein Added: WP_122630920.1 blaOXA-712 + Protein Added: WP_122630921.1 blaOXA-713 + Protein Added: WP_122630922.1 blaOXA-714 + Protein Added: WP_122630923.1 blaOXA-777 + Protein Added: WP_122630924.1 blaOXA-778 + Protein Added: WP_122634438.1 blaOXA-779 + Protein Added: WP_122634439.1 blaOXA-679 + Gene Symbol Modified: WP_010890145.1 qacE_gen updated to WP_010890145.1 qacE + Gene Symbol Modified: WP_053515552.1 qacE_gen updated to WP_053515552.1 qacE + Gene Symbol Modified: WP_063844281.1 cphA updated to WP_063844281.1 cphA3 + Gene Symbol Modified: WP_063854778.1 qepA updated to WP_063854778.1 qepA5 + Gene Symbol Modified: WP_072678505.1 blaOXA-669 updated to WP_072678505.1 blaOXA-732 + Gene Symbol Modified: WP_114699266.1 blaOXA-666 updated to WP_114699266.1 blaOXA-729 + Gene Symbol Modified: WP_116786836.1 blaOXA-667 updated to WP_116786836.1 blaOXA-730 +- AMR HMM library Changes: + Prev. Release: 563 + This Release: 568 + Removed: 0 + Added: 5 + HMM Added: NF033692.1 APH_2pp_I_a_f_h + HMM Added: NF033693.0 AAC_6p_Ie_fam + HMM Added: NF033698.1 blaCSA + HMM Added: NF033700.1 blaCMA + HMM Added: NF033702.0 blaOXA-12_like + HMM Name Modified: NF033666.1 blaOXA-664_like updated to NF033666.1 blaOXA-727_like +- Protein family changes: + Prev. Release: 1133 + This Release: 1161 + Removed: 0 + Added: 28 + Family Added: - aac(6')-Ie2 + Family Added: NF033693.0 aac(6')-Ie_fam + Family Added: NF011706.2 acrB + Family Added: NF007842.1 acrD + Family Added: NF000314.1 adeB/adeJ + Family Added: NF033692.1 aph(2'')-I_a_f_h + Family Added: - aph(2'')-If2 + Family Added: - blaALG11 + Family Added: - blaALG6 + Family Added: NF033700.1 blaCMA + Family Added: - blaCRD3 + Family Added: NF033698.1 blaCSA + Family Added: - blaCrA + Family Added: - blaDHT2 + Family Added: - blaEAM + Family Added: - blaECM + Family Added: - blaEFM + Family Added: - blaELM + Family Added: - blaEVM + Family Added: - blaGRD23 + Family Added: - blaGRD33 + Family Added: NF033702.0 blaOXA-12_like + Family Added: - blaPNGM + Family Added: - blaSPN79 + Family Added: - catV + Family Added: - crpP + Family Added: - dfrA34 + Family Added: - qacE + Family Renamed: NF033666.1 blaOXA-664_like became blaOXA-727_like + +--------------------------------------------------------------------- +Changes included in 2018-09-14.1 +---------------------------------------------------------------------- +- Protein changes: + Prev. Release: 4569 + This Release: 4579 + Removed: 0 + Added: 10 + Protein Added: WP_116786828.1 mcr-4.6 + Protein Added: WP_116786829.1 blaCTX-M-222 + Protein Added: WP_116786830.1 mcr-1.15 + Protein Added: WP_116786831.1 blaTEM-236 + Protein Added: WP_116786832.1 blaKPC-37 + Protein Added: WP_116786834.1 blaPDC-304 + Protein Added: WP_116786836.1 blaOXA-667 + Protein Added: WP_116786837.1 blaPDC-305 + Protein Added: WP_116786838.1 blaPDC-306 + Protein Added: WP_116786839.1 blaIMP-79 +- AMR HMM library Changes: + Prev. Release: 563 + This Release: 563 + Removed: 0 + Added: 0 +- Protein family changes: + Prev. Release: 1133 + This Release: 1133 + Removed: 0 + Added: 0 + +--------------------------------------------------------------------- +Changes included in 2018-08-24.1 +--------------------------------------------------------------------- +- Protein changes: + Prev. Release: 4563 + This Release: 4569 + Removed: 1 + Added: 7 + Protein Removed: WP_063843217.1 catA1 + Protein Added: WP_003436401.1 vanR-Cd + Protein Added: WP_009889012.1 vanZ1 + Protein Added: WP_011861275.1 vanS-Cd + Protein Added: WP_011861276.1 vanG-Cd + Protein Added: WP_020924773.1 blaAXC-1 + Protein Added: WP_072310976.1 mcr-8.2 + Protein Added: WP_072678505.1 blaOXA-669 +- AMR HMM library Changes: + Prev. Release: 563 + This Release: 563 + Removed: 0 + Added: 0 +- Protein family changes: + Prev. Release: 1128 + This Release: 1133 + Removed: 0 + Added: 5 + Family Added: - blaAXC + Family Added: - vanG-Cd + Family Added: - vanR-Cd + Family Added: - vanS-Cd + Family Added: - vanZ1 + +--------------------------------------------------------------------- +Changes included in 2018-08-01.1 +--------------------------------------------------------------------- +- Protein changes: + Prev. Release: 4528 + This Release: 4563 + Removed: 0 + Added: 35 + Protein Added: WP_000622776.1 qacA + Protein Added: WP_001159761.1 blaADC-176 + Protein Added: WP_001211208.1 blaADC-175 + Protein Added: WP_010730188.1 qacZ + Protein Added: WP_013095270.1 blaCMH-4 + Protein Added: WP_032410229.1 blaOXA-663 + Protein Added: WP_033487869.1 blaACT-56 + Protein Added: WP_046887417.1 blaCMH-5 + Protein Added: WP_047052637.1 blaACT-55 + Protein Added: WP_050861789.1 blaACT-64 + Protein Added: WP_070210118.1 blaOXA-658 + Protein Added: WP_094935119.1 blaACT-57 + Protein Added: WP_111772163.1 blaVIM-58 + Protein Added: WP_111976052.1 blaACT-60 + Protein Added: WP_112017656.1 blaACT-61 + Protein Added: WP_112792421.1 blaACT-59 + Protein Added: WP_114699266.1 blaOXA-666 + Protein Added: WP_114699267.1 blaKPC-36 + Protein Added: WP_114699268.1 blaADC-174 + Protein Added: WP_114699269.1 blaADC-177 + Protein Added: WP_114699270.1 blaADC-178 + Protein Added: WP_114699271.1 blaADC-179 + Protein Added: WP_114699272.1 blaADC-180 + Protein Added: WP_114699273.1 blaOXA-661 + Protein Added: WP_114699274.1 blaOXA-662 + Protein Added: WP_114699275.1 mcr-8.1 + Protein Added: WP_114699276.1 blaOXA-659 + Protein Added: WP_114699277.1 blaVIM-60 + Protein Added: WP_114699278.1 mcr-5.3 + Protein Added: WP_114699279.1 blaOXA-660 + Protein Added: WP_114699280.1 blaIMP-76 + Protein Added: WP_114699281.1 blaIMP-77 + Protein Added: WP_114699282.1 blaIMP-78 + Protein Added: WP_114699283.1 blaVIM-59 + Protein Added: WP_114699284.1 blaCTX-M-221 +- AMR HMM library Changes: + Prev. Release: 557 + This Release: 563 + Removed: 0 + Added: 6 + HMM Added: NF033648.1 blaOXA-274_like + HMM Added: NF033666.1 blaOXA-664_like + HMM Added: NF033667.0 blaOXA-55_like + HMM Added: NF033669.1 polymyxin_MCR8 + HMM Added: NF033670.1 polymyxin_MCR6 + HMM Added: NF033671.1 polymyxin_MCR7 +- Protein family changes: + Prev. Release: 1123 + This Release: 1128 + Removed: 0 + Added: 5 + Family Added: - blaOXA-266_fam + Family Added: NF033648.1 blaOXA-274_like + Family Added: NF033667.1 blaOXA-55_like + Family Added: NF033666.1 blaOXA-664_like + Family Added: NF033669.1 mcr-8 + HMM Added: mcr-6 updated to NF033670.1 mcr-6 + HMM Added: mcr-7 updated to NF033671.1 mcr-7 + +Updates in 2018-07-07.1 +- Fix in amr_report.cpp to remove extra field from AMRFinder output + +Updates in 2018-06-27.1 +- Summary: + - Protein sequences + - Removed 1 protein sequence + - Added 290 protein sequences + - Changed the names of 2 proteins + - Gene families + - cfr was reorganized + - HMM library + - 58 HMMs not in the AMR family hierarchy were removed. They were not + used for AMR gene identification so this should have no effect on + AMRFinder output. + - The polymyxin_MCR3 HMM was updated +- Details: + Protein Removed: WP_063945333.1 aac(6')-IIa + Protein Added: WP_000131886.1 aac(3)-VIa + Protein Added: WP_000778180.1 varG + Protein Added: WP_001100752.1 blaPER-10 + Protein Added: WP_002812372.1 blaOXA-578 + Protein Added: WP_002824679.1 blaOXA-595 + Protein Added: WP_002837769.1 blaOXA-579 + Protein Added: WP_002857546.1 blaOXA-592 + Protein Added: WP_002889704.1 blaOXA-591 + Protein Added: WP_002936877.1 blaOXA-623 + Protein Added: WP_011339581.1 blaRHO + Protein Added: WP_011497575.1 blaSHN-1 + Protein Added: WP_011550565.1 blaMYX-1 + Protein Added: WP_011638903.1 mcr-4.3 + Protein Added: WP_012263521.1 mupA + Protein Added: WP_012541790.1 blaLEN-28 + Protein Added: WP_012698469.1 blaLHK-7 + Protein Added: WP_013255389.1 blaSPS-1 + Protein Added: WP_013992183.1 blaZOG-1 + Protein Added: WP_014206564.1 blaOXA-642 + Protein Added: WP_015058260.1 qnrS11 + Protein Added: WP_015266427.1 blaECV-1 + Protein Added: WP_015431537.1 blaROB-2 + Protein Added: WP_015818996.1 blaTTU-1 + Protein Added: WP_016252988.1 blaPDC-286 + Protein Added: WP_021018581.1 catB8 + Protein Added: WP_025006557.1 blaOXA-580 + Protein Added: WP_026025287.1 blaALI-1 + Protein Added: WP_031192893.1 aadA31 + Protein Added: WP_034035338.1 blaPDC-240 + Protein Added: WP_035203840.1 catA10 + Protein Added: WP_038333643.1 blaEBR-2 + Protein Added: WP_038640920.1 qnrB12 + Protein Added: WP_041079981.1 erm(44)v + Protein Added: WP_041258349.1 blaFIA-1 + Protein Added: WP_041385949.1 blaSGM-2 + Protein Added: WP_041449074.1 blaANA-1 + Protein Added: WP_043774378.1 catA13 + Protein Added: WP_043942497.1 blaPST-1 + Protein Added: WP_044600959.1 blaOXA-594 + Protein Added: WP_044779552.1 blaOXA-638 + Protein Added: WP_048236419.1 qnrB85 + Protein Added: WP_052259183.1 erm(42) + Protein Added: WP_052781249.1 blaOXA-583 + Protein Added: WP_052788483.1 blaOXA-611 + Protein Added: WP_052788887.1 blaOXA-581 + Protein Added: WP_052794776.1 blaOXA-625 + Protein Added: WP_052798312.1 blaOXA-609 + Protein Added: WP_052800105.1 blaOXA-597 + Protein Added: WP_052803794.1 blaOXA-601 + Protein Added: WP_052858477.1 blaOXA-637 + Protein Added: WP_053872444.1 blaOXA-639 + Protein Added: WP_053921012.1 blaOXA-603 + Protein Added: WP_057036510.1 blaOXA-629 + Protein Added: WP_058157026.1 blaPDC-271 + Protein Added: WP_058174497.1 blaPDC-250 + Protein Added: WP_058870660.1 blaOXA-651 + Protein Added: WP_058951457.1 blaOXA-652 + Protein Added: WP_061193431.1 blaPDC-298 + Protein Added: WP_064186845.1 qnrS13 + Protein Added: WP_065597326.1 blaALI-2 + Protein Added: WP_065801616.1 mcr-3.20 + Protein Added: WP_065908739.1 qnrB91 + Protein Added: WP_070233680.1 blaOXA-614 + Protein Added: WP_070698497.1 blaPDC-278 + Protein Added: WP_071701819.1 qnrS12 + Protein Added: WP_071846333.1 aac(6')_Serra + Protein Added: WP_073669325.1 blaPDC-285 + Protein Added: WP_075606311.1 blaROB-3 + Protein Added: WP_078207746.1 qnrE2 + Protein Added: WP_078318620.1 blaROB-4 + Protein Added: WP_080699425.1 blaTEM-229 + Protein Added: WP_081048762.1 blaMYO-1 + Protein Added: WP_081666691.1 blaLHK-1 + Protein Added: WP_085843691.1 qnrB95 + Protein Added: WP_087696200.1 blaOXA-576 + Protein Added: WP_087879616.1 mcr-3.19 + Protein Added: WP_088303859.1 blaOXA-624 + Protein Added: WP_094308975.1 mcr-3.22 + Protein Added: WP_094312656.1 mcr-3.21 + Protein Added: WP_094313523.1 mcr-3.23 + Protein Added: WP_094321595.1 mcr-3.24 + Protein Added: WP_094963248.1 aadA31 + Protein Added: WP_096170112.1 qnrS14 + Protein Added: WP_096865225.1 blaPER-12 + Protein Added: WP_100831609.1 blaPDC-245 + Protein Added: WP_103034696.1 blaROB-5 + Protein Added: WP_103252528.1 mcr-3.25 + Protein Added: WP_104009831.1 blaPER-11 + Protein Added: WP_104009832.1 blaPDC-234 + Protein Added: WP_104009833.1 blaPDC-235 + Protein Added: WP_104009834.1 blaPDC-236 + Protein Added: WP_104009835.1 blaPDC-237 + Protein Added: WP_104009836.1 blaPDC-238 + Protein Added: WP_104009837.1 blaPDC-239 + Protein Added: WP_104009838.1 blaPDC-241 + Protein Added: WP_104009839.1 blaPDC-242 + Protein Added: WP_104009840.1 blaPDC-243 + Protein Added: WP_104009841.1 blaPDC-244 + Protein Added: WP_104009842.1 blaPDC-246 + Protein Added: WP_104009843.1 blaPDC-247 + Protein Added: WP_104009844.1 blaPDC-248 + Protein Added: WP_104009846.1 blaVIM-56 + Protein Added: WP_104009847.1 blaCTX-M-178 + Protein Added: WP_104009848.1 blaCTX-M-187 + Protein Added: WP_104009849.1 blaCMY-156 + Protein Added: WP_104009850.1 mcr-1.12 + Protein Added: WP_104009851.1 mcr-7.1 + Protein Added: WP_104009852.1 blaIMP-71 + Protein Added: WP_104009853.1 blaOXA-575 + Protein Added: WP_104009854.1 blaTEM-230 + Protein Added: WP_104009855.1 blaTEM-231 + Protein Added: WP_104009856.1 blaPDC-227 + Protein Added: WP_104009857.1 blaPDC-228 + Protein Added: WP_104009858.1 blaPDC-229 + Protein Added: WP_104009859.1 blaPDC-230 + Protein Added: WP_104009860.1 blaPDC-231 + Protein Added: WP_104009861.1 blaPDC-232 + Protein Added: WP_104009862.1 blaPDC-233 + Protein Added: WP_104531863.1 blaBUT-1 + Protein Added: WP_104531864.1 blaBUT-2 + Protein Added: WP_104531865.1 blaLHK-2 + Protein Added: WP_104531866.1 blaLHK-3 + Protein Added: WP_104531867.1 blaLHK-4 + Protein Added: WP_104531868.1 blaLHK-5 + Protein Added: WP_104531869.1 blaLHK-6 + Protein Added: WP_106672612.1 blaCMY-150 + Protein Added: WP_106924209.1 blaCTX-M-213 + Protein Added: WP_109544237.1 tet(S) + Protein Added: WP_109545031.1 dfrA14 + Protein Added: WP_109545032.1 qnrB11 + Protein Added: WP_109545033.1 vanY-D + Protein Added: WP_109545034.1 qnrB22 + Protein Added: WP_109545035.1 qacF + Protein Added: WP_109545038.1 tet(33) + Protein Added: WP_109545039.1 blaSTA-1 + Protein Added: WP_109545040.1 chrB + Protein Added: WP_109545041.1 aph(3'')-Ib + Protein Added: WP_109545042.1 blaORR-1 + Protein Added: WP_109545044.1 blaKPC-34 + Protein Added: WP_109545045.1 qnrD3 + Protein Added: WP_109545046.1 qnrB81 + Protein Added: WP_109545047.1 qnrB82 + Protein Added: WP_109545048.1 blaOXA-542 + Protein Added: WP_109545049.1 blaNDM-20 + Protein Added: WP_109545050.1 blaCRH-2 + Protein Added: WP_109545051.1 blaCRH-3 + Protein Added: WP_109545053.1 blaIMP-73 + Protein Added: WP_109545054.1 mcr-4.5 + Protein Added: WP_109545055.1 mcr-4.4 + Protein Added: WP_109545056.1 mcr-1.13 + Protein Added: WP_109545057.1 mcr-5.2 + Protein Added: WP_109545058.1 mcr-4.2 + Protein Added: WP_109545059.1 blaTEM-232 + Protein Added: WP_109545060.1 blaCTX-M-208 + Protein Added: WP_109545061.1 blaCTX-M-209 + Protein Added: WP_109545062.1 blaCTX-M-210 + Protein Added: WP_109545063.1 blaCTX-M-211 + Protein Added: WP_109545064.1 blaCTX-M-212 + Protein Added: WP_109545065.1 blaCMY-161 + Protein Added: WP_109545066.1 blaFOX-16 + Protein Added: WP_109545067.1 blaDHA-27 + Protein Added: WP_109545068.1 blaDHA-26 + Protein Added: WP_109545069.1 blaCTX-M-214 + Protein Added: WP_109545070.1 mcr-3.12 + Protein Added: WP_109545071.1 blaOXA-649 + Protein Added: WP_109545072.1 blaOXA-641 + Protein Added: WP_109545073.1 blaFRI-5 + Protein Added: WP_109545074.1 blaGPC-1 + Protein Added: WP_109545075.1 blaOXA-619 + Protein Added: WP_109545076.1 blaOXA-620 + Protein Added: WP_109545077.1 blaOXA-636 + Protein Added: WP_109545078.1 blaOXA-635 + Protein Added: WP_109545079.1 blaOXA-631 + Protein Added: WP_109545080.1 blaOXA-626 + Protein Added: WP_109545081.1 blaOXA-627 + Protein Added: WP_109545082.1 blaOXA-633 + Protein Added: WP_109545083.1 blaOXA-628 + Protein Added: WP_109545084.1 blaOXA-634 + Protein Added: WP_109545085.1 blaOXA-630 + Protein Added: WP_109545086.1 blaOXA-632 + Protein Added: WP_109545087.1 blaOXA-608 + Protein Added: WP_109545088.1 blaOXA-584 + Protein Added: WP_109545089.1 blaOXA-585 + Protein Added: WP_109545090.1 blaOXA-586 + Protein Added: WP_109545091.1 blaOXA-577 + Protein Added: WP_109545092.1 blaOXA-587 + Protein Added: WP_109545093.1 blaOXA-596 + Protein Added: WP_109545094.1 blaOXA-600 + Protein Added: WP_109545095.1 blaOXA-588 + Protein Added: WP_109545096.1 blaOXA-589 + Protein Added: WP_109545097.1 blaOXA-593 + Protein Added: WP_109545098.1 blaOXA-599 + Protein Added: WP_109545099.1 blaOXA-610 + Protein Added: WP_109545100.1 blaOXA-612 + Protein Added: WP_109545101.1 blaOXA-598 + Protein Added: WP_109545102.1 blaOXA-607 + Protein Added: WP_109545103.1 blaOXA-590 + Protein Added: WP_109545104.1 blaOXA-604 + Protein Added: WP_109545105.1 blaOXA-602 + Protein Added: WP_109545106.1 blaOXA-606 + Protein Added: WP_109545107.1 blaOXA-582 + Protein Added: WP_109545108.1 blaOXA-605 + Protein Added: WP_109545109.1 blaOXA-640 + Protein Added: WP_109545110.1 blaOXA-616 + Protein Added: WP_109545111.1 blaOXA-613 + Protein Added: WP_109545112.1 blaOXA-622 + Protein Added: WP_109545113.1 blaOXA-618 + Protein Added: WP_109545114.1 blaOXA-617 + Protein Added: WP_109545115.1 blaOXA-615 + Protein Added: WP_109545116.1 blaOXA-621 + Protein Added: WP_109791184.1 blaTEM-233 + Protein Added: WP_109791185.1 blaPDC-251 + Protein Added: WP_109791186.1 blaPDC-252 + Protein Added: WP_109791187.1 blaPDC-253 + Protein Added: WP_109791188.1 blaPDC-254 + Protein Added: WP_109791189.1 blaPDC-255 + Protein Added: WP_109791190.1 blaPDC-256 + Protein Added: WP_109791191.1 blaPDC-257 + Protein Added: WP_109791192.1 blaPDC-258 + Protein Added: WP_109791193.1 blaPDC-259 + Protein Added: WP_109791194.1 blaPDC-260 + Protein Added: WP_109791195.1 blaPDC-261 + Protein Added: WP_109791196.1 blaPDC-262 + Protein Added: WP_109791197.1 blaPDC-263 + Protein Added: WP_109791198.1 blaPDC-264 + Protein Added: WP_109791199.1 blaPDC-265 + Protein Added: WP_109791200.1 blaPDC-266 + Protein Added: WP_109791201.1 blaPDC-267 + Protein Added: WP_109791202.1 blaPDC-268 + Protein Added: WP_109791203.1 blaPDC-270 + Protein Added: WP_109791204.1 blaPDC-272 + Protein Added: WP_109791205.1 blaPDC-273 + Protein Added: WP_109791206.1 blaPDC-274 + Protein Added: WP_109791207.1 blaIMP-74 + Protein Added: WP_109791208.1 blaIMP-75 + Protein Added: WP_109791209.1 blaCTX-M-216 + Protein Added: WP_109791210.1 blaTEM-234 + Protein Added: WP_109791211.1 blaCTX-M-217 + Protein Added: WP_109791212.1 blaSHV-204 + Protein Added: WP_109791213.1 blaNDM-22 + Protein Added: WP_109791214.1 blaCTX-M-218 + Protein Added: WP_109791215.1 blaCMY-160 + Protein Added: WP_109791216.1 blaOXA-654 + Protein Added: WP_109997726.1 qnrA9 + Protein Added: WP_110092882.1 blaCTX-M-219 + Protein Added: WP_111273842.1 mcr-3.13 + Protein Added: WP_111273843.1 mcr-3.14 + Protein Added: WP_111273844.1 mcr-3.15 + Protein Added: WP_111273845.1 mcr-3.16 + Protein Added: WP_111273846.1 mcr-3.17 + Protein Added: WP_111273847.1 mcr-3.18 + Protein Added: WP_111273848.1 blaGES-35 + Protein Added: WP_111273849.1 blaGES-36 + Protein Added: WP_111273850.1 blaGES-37 + Protein Added: WP_111273851.1 blaCMY-162 + Protein Added: WP_111273852.1 blaKPC-35 + Protein Added: WP_111672883.1 blaPDC-275 + Protein Added: WP_111672884.1 blaPDC-294 + Protein Added: WP_111672885.1 blaPDC-295 + Protein Added: WP_111672886.1 blaPDC-296 + Protein Added: WP_111672887.1 blaPDC-297 + Protein Added: WP_111672888.1 blaPDC-299 + Protein Added: WP_111672889.1 blaPDC-300 + Protein Added: WP_111672890.1 blaPDC-276 + Protein Added: WP_111672891.1 blaPDC-277 + Protein Added: WP_111672892.1 blaPDC-279 + Protein Added: WP_111672893.1 blaPDC-280 + Protein Added: WP_111672894.1 blaPDC-281 + Protein Added: WP_111672895.1 blaPDC-282 + Protein Added: WP_111672896.1 blaPDC-283 + Protein Added: WP_111672897.1 blaPDC-284 + Protein Added: WP_111672898.1 blaPDC-287 + Protein Added: WP_111672899.1 blaPDC-288 + Protein Added: WP_111672900.1 blaPDC-289 + Protein Added: WP_111672901.1 blaPDC-290 + Protein Added: WP_111672902.1 blaCTX-M-220 + Protein Added: WP_111672903.1 blaPDC-291 + Protein Added: WP_111672904.1 blaPDC-292 + Protein Added: WP_111672905.1 blaPDC-293 + Protein Added: WP_111672906.1 blaCMY-163 + Protein Added: WP_111672907.1 blaOXA-657 + Protein Added: WP_111672908.1 blaPDC-301 + Protein Added: WP_111672909.1 blaPDC-302 + Protein Added: WP_111672910.1 blaPDC-303 + Protein Added: WP_111672911.1 blaKPC-23 + Protein Added: WP_111672912.1 blaNDM-23 + Protein Added: WP_111672913.1 blaNDM-24 + Protein Added: WP_111672914.1 blaVIM-57 + Protein Added: WP_111690897.1 cfr(B) + Protein Added: WP_111690898.1 cfr(C) + Protein Modified: WP_011987126.1 cfrC updated to WP_011987126.1 cfr-Cb + Protein Modified: WP_063854808.1 qnrS updated to WP_063854808.1 qnrS10 + HMM Removed: NF000031.1 MFS_efflux_LmrA + HMM Removed: NF000040.1 172051428_tet + HMM Removed: NF000058.1 Erm41 + HMM Removed: NF000060.1 MFS_efflux_LmrB + HMM Removed: NF000106.1 40850658_otr + HMM Removed: NF000131.1 MATE_multi_MepA + HMM Removed: NF000140.3 AAC_6p_Salmo + HMM Removed: NF000217.1 MATE_multi_FepA + HMM Removed: NF000247.1 MexA + HMM Removed: NF000249.1 MexE + HMM Removed: NF000250.1 MexH + HMM Removed: NF000251.1 MexW-MexI + HMM Removed: NF000252.1 MexX + HMM Removed: NF000263.1 MATE_multi_NorM + HMM Removed: NF000282.2 RND_permease_1 + HMM Removed: NF000313.1 adeA-adeI + HMM Removed: NF000314.1 adeB + HMM Removed: NF000315.1 adeC-adeK-oprM + HMM Removed: NF000334.3 drrA + HMM Removed: NF000336.1 emrE + HMM Removed: NF000342.3 glpA_Cterm + HMM Removed: NF000344.1 macA + HMM Removed: NF000345.1 macB + HMM Removed: NF000349.1 mfpA_AE000516.2 + HMM Removed: NF000352.1 norA + HMM Removed: NF000357.1 romA + HMM Removed: NF000391.1 EmrB + HMM Removed: NF010314.2 PRK13751.2 + HMM Removed: NF012135.0 ANT_3pp_9_crypt + HMM Removed: NF012144.2 ramA_TF + HMM Removed: NF012163.2 BaeS_SmeS + HMM Removed: NF012168.1 BlaI_of_BCL + HMM Removed: NF012198.0 MarA_TF + HMM Removed: NF012208.0 SDR_dihy_bifunc + HMM Removed: NF012226.0 AdeS_HK + HMM Removed: NF012227.0 AdeR_RR + HMM Removed: NF012228.1 RobA_TF + HMM Removed: NF028537.1 P_eth_NH2_trans + HMM Removed: NF030466.0 TIGR02052 + HMM Removed: NF030467.0 TIGR02053 + HMM Removed: NF033086.2 penta_rpt_Qnr + HMM Removed: NF033124.1 estX + HMM Removed: NF033134.0 cmlA_floR + HMM Removed: NF033138.1 RND-peri-MexC + HMM Removed: NF033142.1 efflux_OM_AdeC + HMM Removed: NF033143.1 efflux_OM_AdeK + HMM Removed: NF033184.1 B3_Acin_new1 + HMM Removed: NF033480.1 bifunc_MprF + HMM Removed: NF033553.1 MerP_Gpos + HMM Removed: NF033555.1 lyase_MerB + HMM Removed: NF033556.1 MerTP_fusion + HMM Removed: NF033560.1 merT_RC607 + HMM Removed: NF033565.0 trans_MerF + HMM Removed: NF033606.1 heat_AAA_ClpK + HMM Removed: NF033607.0 disagg_AAA_ClpG + HMM Removed: NF033617.1 RND_permease_2 + HMM Removed: NF033627.1 intimin_all + HMM Removed: NF033636.1 acid_shock_Asr + HMM Modified: NF033408.2 polymyxin_MCR3 updated to NF033408.5 polymyxin_MCR3 + Family Removed: - cfrC + Family Added: - cfr(B) + Family Added: - cfr(C) + Family Added: - cfr-Cb + Family Changed: NF033408.2 mcr-3 updated to NF033408.5 mcr-3 + +--------------------------------------------------------------------- +Changes included in 2018-05-15.1 +--------------------------------------------------------------------- +- Data Changes: + Protein Removed: WP_010886396.1 lmr(B) + HMM Added: NF033614.1 APH_6_Ic_gen + HMM Added: NF033617.1 RND_permease_2 + HMM Added: NF033626.1 blaBKC_GPC + HMM Added: NF033627.1 intimin_all + HMM Added: NF033636.1 acid_shock_Asr + HMM Modified: NF000011.1 APH_6_Ic updated to NF000011.2 APH_6_Ic + HMM Modified: NF000221.3 FosA updated to NF000221.4 FosA + HMM Modified: NF000282.1 RND_permease_1 updated to NF000282.2 RND_permease_1 + HMM Modified: NF000428.2 blaFRI updated to NF000428.4 blaFRI + HMM Modified: NF033582.0 blaALI updated to NF033582.2 blaALI + Family Removed: NF000060.1 lmr(B) + Family Added: NF033626.1 blaBKC_GPC + Family Added: - blaGPC +- Algorithm Changes: + - Partial proteins identified as "Method" PARTIAL if length of blast + alignment > 50% and < 90% of database protein. + +--------------------------------------------------------------------- +Changes included in 2018-05-08.1 RELEASE CANDIDATE +--------------------------------------------------------------------- +- Addition of handling for genbank plasmid gff + +--------------------------------------------------------------------- +Changes included in 2018-04-16.1 +--------------------------------------------------------------------- +- Addition of file format checking for FASTA and GFF files before AMRFinder blast and HMM searches are run +- Altered format of fam.tab file to include NF accessions for families +- Removal of non-reportable families from fam.tab