Whole genome sequencing reveals antimicrobial resistance determinants (AMR genes) of Salmonella enterica recovered from raw chicken and ready-to-eat leaves imported into England between 2014 and 2019

Nicola Davies; Frieda Jørgensen; Caroline Willis; Jim McLauchlin; Marie Anne Chattaway

doi:10.1111/jam.15728

Whole genome sequencing reveals antimicrobial resistance determinants (AMR genes) of Salmonella enterica recovered from raw chicken and ready-to-eat leaves imported into England between 2014 and 2019

Nicola Davies
, Frieda Jørgensen
, Caroline Willis
, Jim McLauchlin
, Marie Anne Chattaway^*

^*Corresponding author for this work

Research output: Contribution to journal › Article › peer-review

13 Citations (Scopus)

113 Downloads (Pure)

Abstract

Aims: To compare the antimicrobial resistance (AMR) genes in a genetically diverse group of Salmonella enterica recovered from foods imported into England between 2014 and 2018.

Methods and Results: Whole genome sequence was used to detect AMR genes or chromosomal mutations associated with AMR in Salmonella recovered from edible leaves imported from Asia (n = 115) as compared to Salmonella (n = 231) isolated from raw chicken, 74% originated from South America. Among isolates from edible leaves, three (3%) showed resistance to at least one antimicrobial agent, two (2%) of which were multidrug resistant (MDR, resistance to three or more antimicrobial classes). Resistance to at least one antimicrobial agent was detected in 214 (93%) in the chicken isolates, with 164 (71%) showing MDR. Genetic diversity and AMR profiles were highly heterogeneous across the different serovars.

Conclusions: Resistance was rare among the Salmonella isolates from edible leaves but common (including MDR) among those from raw chicken. Significance and Impact of the Study: Surveillance of AMR in imported foods is essential for monitoring the risk of transmission of resistance from the food chain to humans and provides added public health value to pre-existing controls of the food chain.

Original language	English
Pages (from-to)	2569-2582
Number of pages	14
Journal	Journal of Applied Microbiology
Volume	133
Issue number	4
Early online date	5 Aug 2022
DOIs	https://doi.org/10.1111/jam.15728
Publication status	Published - Oct 2022

Bibliographical note

Funding Information: This study was funded by UKHSA and University College
London. Marie Anne Chattaway is affiliated to the National Institute for Health Research Health Protection Research Unit (NIHR HPRU) in Genomics and Enabling
Data at University of Warwick in partnership with the UK Health Security Agency (UKHSA), in collaboration with University or Cambridge and Oxford. MAC is
based at UKHSA. The views expressed are those of the author(s) and not necessarily those of the NIHR, the Department of Health and Social Care or the UK Health Security Agency.

Open Access: This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.

Publisher Copyright: © 2022 The Authors. Journal of Applied Microbiology published by John Wiley & Sons Ltd on behalf of Society for Applied Microbiology.

Citation: Davies, N., Jørgensen, F., Willis, C., McLauchlin, J. & Chattaway, M.A. (2022) Whole genome sequencing reveals antimicrobial resistance determinants (AMR genes) of Salmonella enterica recovered from raw chicken and ready-to-eat leaves imported into England between 2014 and 2019. Journal of Applied Microbiology, 133, 2569– 2582. Available from: https://doi.org/10.1111/jam.15728

DOI: https://doi.org/10.1111/jam.15728

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

SDG 3 Good Health and Well-being

Keywords

Salmonella
chromosomal mutations and antimicrobial resistance genes
imported food
monitoring
whole genome sequencing

Access to Document

10.1111/jam.15728Licence: CC BY

Davies2022WholeGenomeSequencingRevealsAntimicrobialResistanceDeterminants(AMRGenes)OfSalmonellaEntericaJApplMicrobiolFinal published version, 2.95 MBLicence: CC BY

Cite this

@article{4f589c693cae471eb4193e88c970945a,

title = "Whole genome sequencing reveals antimicrobial resistance determinants (AMR genes) of Salmonella enterica recovered from raw chicken and ready-to-eat leaves imported into England between 2014 and 2019",

abstract = "Aims: To compare the antimicrobial resistance (AMR) genes in a genetically diverse group of Salmonella enterica recovered from foods imported into England between 2014 and 2018. Methods and Results: Whole genome sequence was used to detect AMR genes or chromosomal mutations associated with AMR in Salmonella recovered from edible leaves imported from Asia (n = 115) as compared to Salmonella (n = 231) isolated from raw chicken, 74\% originated from South America. Among isolates from edible leaves, three (3\%) showed resistance to at least one antimicrobial agent, two (2\%) of which were multidrug resistant (MDR, resistance to three or more antimicrobial classes). Resistance to at least one antimicrobial agent was detected in 214 (93\%) in the chicken isolates, with 164 (71\%) showing MDR. Genetic diversity and AMR profiles were highly heterogeneous across the different serovars. Conclusions: Resistance was rare among the Salmonella isolates from edible leaves but common (including MDR) among those from raw chicken. Significance and Impact of the Study: Surveillance of AMR in imported foods is essential for monitoring the risk of transmission of resistance from the food chain to humans and provides added public health value to pre-existing controls of the food chain.",

keywords = "Salmonella, chromosomal mutations and antimicrobial resistance genes, imported food, monitoring, whole genome sequencing",

author = "Nicola Davies and Frieda J{\o}rgensen and Caroline Willis and Jim McLauchlin and Chattaway, \{Marie Anne\}",

note = "Funding Information: This study was funded by UKHSA and University College London. Marie Anne Chattaway is affiliated to the National Institute for Health Research Health Protection Research Unit (NIHR HPRU) in Genomics and Enabling Data at University of Warwick in partnership with the UK Health Security Agency (UKHSA), in collaboration with University or Cambridge and Oxford. MAC is based at UKHSA. The views expressed are those of the author(s) and not necessarily those of the NIHR, the Department of Health and Social Care or the UK Health Security Agency. Open Access: This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. Publisher Copyright: {\textcopyright} 2022 The Authors. Journal of Applied Microbiology published by John Wiley \& Sons Ltd on behalf of Society for Applied Microbiology. Citation: Davies, N., J{\o}rgensen, F., Willis, C., McLauchlin, J. \& Chattaway, M.A. (2022) Whole genome sequencing reveals antimicrobial resistance determinants (AMR genes) of Salmonella enterica recovered from raw chicken and ready-to-eat leaves imported into England between 2014 and 2019. Journal of Applied Microbiology, 133, 2569– 2582. Available from: https://doi.org/10.1111/jam.15728 DOI: https://doi.org/10.1111/jam.15728 ",

year = "2022",

month = oct,

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language = "English",

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pages = "2569--2582",

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Davies, N, Jørgensen, F , Willis, C , McLauchlin, J & Chattaway, MA 2022, 'Whole genome sequencing reveals antimicrobial resistance determinants (AMR genes) of Salmonella enterica recovered from raw chicken and ready-to-eat leaves imported into England between 2014 and 2019', Journal of Applied Microbiology, vol. 133, no. 4, pp. 2569-2582. https://doi.org/10.1111/jam.15728

Whole genome sequencing reveals antimicrobial resistance determinants (AMR genes) of Salmonella enterica recovered from raw chicken and ready-to-eat leaves imported into England between 2014 and 2019. / Davies, Nicola; Jørgensen, Frieda ; Willis, Caroline et al.
In: Journal of Applied Microbiology, Vol. 133, No. 4, 10.2022, p. 2569-2582.

Research output: Contribution to journal › Article › peer-review

TY - JOUR

T1 - Whole genome sequencing reveals antimicrobial resistance determinants (AMR genes) of Salmonella enterica recovered from raw chicken and ready-to-eat leaves imported into England between 2014 and 2019

AU - Davies, Nicola

AU - Jørgensen, Frieda

AU - Willis, Caroline

AU - McLauchlin, Jim

AU - Chattaway, Marie Anne

N1 - Funding Information: This study was funded by UKHSA and University College London. Marie Anne Chattaway is affiliated to the National Institute for Health Research Health Protection Research Unit (NIHR HPRU) in Genomics and Enabling Data at University of Warwick in partnership with the UK Health Security Agency (UKHSA), in collaboration with University or Cambridge and Oxford. MAC is based at UKHSA. The views expressed are those of the author(s) and not necessarily those of the NIHR, the Department of Health and Social Care or the UK Health Security Agency. Open Access: This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. Publisher Copyright: © 2022 The Authors. Journal of Applied Microbiology published by John Wiley & Sons Ltd on behalf of Society for Applied Microbiology. Citation: Davies, N., Jørgensen, F., Willis, C., McLauchlin, J. & Chattaway, M.A. (2022) Whole genome sequencing reveals antimicrobial resistance determinants (AMR genes) of Salmonella enterica recovered from raw chicken and ready-to-eat leaves imported into England between 2014 and 2019. Journal of Applied Microbiology, 133, 2569– 2582. Available from: https://doi.org/10.1111/jam.15728 DOI: https://doi.org/10.1111/jam.15728

PY - 2022/10

Y1 - 2022/10

N2 - Aims: To compare the antimicrobial resistance (AMR) genes in a genetically diverse group of Salmonella enterica recovered from foods imported into England between 2014 and 2018. Methods and Results: Whole genome sequence was used to detect AMR genes or chromosomal mutations associated with AMR in Salmonella recovered from edible leaves imported from Asia (n = 115) as compared to Salmonella (n = 231) isolated from raw chicken, 74% originated from South America. Among isolates from edible leaves, three (3%) showed resistance to at least one antimicrobial agent, two (2%) of which were multidrug resistant (MDR, resistance to three or more antimicrobial classes). Resistance to at least one antimicrobial agent was detected in 214 (93%) in the chicken isolates, with 164 (71%) showing MDR. Genetic diversity and AMR profiles were highly heterogeneous across the different serovars. Conclusions: Resistance was rare among the Salmonella isolates from edible leaves but common (including MDR) among those from raw chicken. Significance and Impact of the Study: Surveillance of AMR in imported foods is essential for monitoring the risk of transmission of resistance from the food chain to humans and provides added public health value to pre-existing controls of the food chain.

AB - Aims: To compare the antimicrobial resistance (AMR) genes in a genetically diverse group of Salmonella enterica recovered from foods imported into England between 2014 and 2018. Methods and Results: Whole genome sequence was used to detect AMR genes or chromosomal mutations associated with AMR in Salmonella recovered from edible leaves imported from Asia (n = 115) as compared to Salmonella (n = 231) isolated from raw chicken, 74% originated from South America. Among isolates from edible leaves, three (3%) showed resistance to at least one antimicrobial agent, two (2%) of which were multidrug resistant (MDR, resistance to three or more antimicrobial classes). Resistance to at least one antimicrobial agent was detected in 214 (93%) in the chicken isolates, with 164 (71%) showing MDR. Genetic diversity and AMR profiles were highly heterogeneous across the different serovars. Conclusions: Resistance was rare among the Salmonella isolates from edible leaves but common (including MDR) among those from raw chicken. Significance and Impact of the Study: Surveillance of AMR in imported foods is essential for monitoring the risk of transmission of resistance from the food chain to humans and provides added public health value to pre-existing controls of the food chain.

KW - Salmonella

KW - chromosomal mutations and antimicrobial resistance genes

KW - imported food

KW - monitoring

KW - whole genome sequencing

UR - https://www.scopus.com/pages/publications/85135473377

U2 - 10.1111/jam.15728

DO - 10.1111/jam.15728

M3 - Article

C2 - 35880358

AN - SCOPUS:85135473377

SN - 1364-5072

VL - 133

SP - 2569

EP - 2582

JO - Journal of Applied Microbiology

JF - Journal of Applied Microbiology

IS - 4

ER -

Whole genome sequencing reveals antimicrobial resistance determinants (AMR genes) of Salmonella enterica recovered from raw chicken and ready-to-eat leaves imported into England between 2014 and 2019

Abstract

Bibliographical note

UN SDGs

Keywords

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