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Whole genome sequencing for surveillance of antimicrobial resistance in Actinobacillus pleuropneumoniae

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Date
06/03/2017
Author
Bossé, Janine T.
Li, Yanwen
Rogers, Jon
Crespo, Roberto Fernandez
Li, Yinghui
Chaudhuri, Roy R.
Holden, Matthew T. G.
Maskell, Duncan J.
Tucker, Alexander W.
Wren, Brendan W.
Rycroft, Andrew N.
Langford, Paul R.
BRaDP1T Consortium
Keywords
Animal infections
Antimicrobial resistance genes
Integrative conjugative elements
Plasmids
Genomics
Respiratory tract
Pasteurellaceae
QR Microbiology
QH301 Biology
DAS
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Abstract
The aim of this study was to evaluate the correlation between antimicrobial resistance (AMR) profiles of 96 clinical isolates of Actinobacillus pleuropneumoniae, an important porcine respiratory pathogen, and the identification of AMR genes in whole genome sequence (wgs) data. Susceptibility of the isolates to nine antimicrobial agents (ampicillin, enrofloxacin, erythromycin, florfenicol, sulfisoxazole, tetracycline, tilmicosin, trimethoprim, and tylosin) was determined by agar dilution susceptibility test. Except for the macrolides tested, elevated MICs were highly correlated to the presence of AMR genes identified in wgs data using ResFinder or BLASTn. Of the isolates tested, 57% were resistant to tetracycline [MIC ≥ 4 mg/L; 94.8% with either tet(B) or tet(H)]; 48% to sulfisoxazole (MIC ≥ 256 mg/L or DD = 6; 100% with sul2), 20% to ampicillin (MIC ≥ 4 mg/L; 100% with blaROB-1), 17% to trimethoprim (MIC ≥ 32 mg/L; 100% with dfrA14), and 6% to enrofloxacin (MIC ≥ 0.25 mg/L; 100% with GyrAS83F). Only 33% of the isolates did not have detectable AMR genes, and were sensitive by MICs for the antimicrobial agents tested. Although 23 isolates had MIC ≥ 32 mg/L for tylosin, all isolates had MIC ≥ 32 mg/L for tylosin, all isolates had MIC ≤ 16 mg/L for both erythromycin and tilmicosin, and no macrolide resistance genes or known point mutations were detected. Other than the GyrAS83F mutation, the AMR genes detected were mapped to potential plasmids. In addition to presence on plasmid(s), the tet(B) gene was also found chromosomally either as part of a 56 kb integrative conjugative element (ICEApl1) in 21, or as part of a Tn7 insertion in 15 isolates. Our results indicate that, with the exception of macrolides, wgs data can be used to accurately predict resistance of A. pleuropneumoniae to the tested antimicrobial agents and provides added value for routine surveillance.
Citation
Bossé , J T , Li , Y , Rogers , J , Crespo , R F , Li , Y , Chaudhuri , R R , Holden , M T G , Maskell , D J , Tucker , A W , Wren , B W , Rycroft , A N , Langford , P R & BRaDP1T Consortium 2017 , ' Whole genome sequencing for surveillance of antimicrobial resistance in Actinobacillus pleuropneumoniae ' , Frontiers in Microbiology , vol. 8 , 311 . https://doi.org/10.3389/fmicb.2017.00311
Publication
Frontiers in Microbiology
Status
Peer reviewed
DOI
https://doi.org/10.3389/fmicb.2017.00311
ISSN
1664-302X
Type
Journal article
Rights
© 2017 Bossé, Li, Rogers, Fernandez Crespo, Li, Chaudhuri, Holden, Maskell, Tucker, Wren, Rycroft, and Langford on behalf of the BRaDP1T Consortium. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
Description
This work was supported by a Longer and Larger (LoLa) grant from the Biotechnology and Biological Sciences Research Council (BBSRC grant numbers BB/G020744/1, BB/G019177/1, BB/G019274/1, and BB/G018553/1), the UK Department for Environment, Food and Rural Affairs, and Zoetis (formerly Pfizer Animal Health) awarded to the Bacterial Respiratory Diseases of Pigs-1 Technology (BRaDP1T) consortium. MH was supported by the Wellcome Trust (grant number 098051). JR was funded from the former AHVLA’s Research and Development Internal Investment Fund (grant number RD0030c).
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  • University of St Andrews Research
URL
http://journal.frontiersin.org/article/10.3389/fmicb.2017.00311/full#supplementary-material
URI
http://hdl.handle.net/10023/10529

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