High-throughput sequencing reveals genetic determinants associated with antibiotic resistance in Campylobacter spp. from farm-to-fork

[EN]Campylobacter species are one of the most common causative agents of gastroenteritis worldwide. Resistance against quinolone and macrolide antimicrobials, the most commonly used therapeutic options, poses a serious risk for campylobacteriosis treatment. Owing to whole genome sequencing advanceme...

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Autores: Mouftah, Shaimaa F, Cobo Díaz, José Francisco, Álvarez Ordóñez, Avelino, Elserafy, Menattallah, Saif, Nehal A., El-Shibiny, Ayman, Sadat, Asmaa, Elhadidy, Mohamed
Formato: artículo
Estado:Versión publicada
Fecha de publicación:2021
País:España
Recursos:Universidad de León
Repositorio:BULERIA. Repositorio Institucional de la Universidad de León
OAI Identifier:oai:buleria.unileon.es:10612/20649
Acesso em linha:https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0253797
https://hdl.handle.net/10612/20649
Access Level:acceso abierto
Palavra-chave:Tecnología de los alimentos
Campylobacter
Resistencia a los antibióticos
Resistencias microbianas
3108.01 Bacterias
3309 Tecnología de Los Alimentos
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network_acronym_str ES
network_name_str España
repository_id_str
spelling High-throughput sequencing reveals genetic determinants associated with antibiotic resistance in Campylobacter spp. from farm-to-forkMouftah, Shaimaa FCobo Díaz, José FranciscoÁlvarez Ordóñez, AvelinoElserafy, MenattallahSaif, Nehal A.El-Shibiny, AymanSadat, AsmaaEl-Shibiny, AymanElhadidy, MohamedTecnología de los alimentosCampylobacterResistencia a los antibióticosResistencias microbianas3108.01 Bacterias3309 Tecnología de Los Alimentos[EN]Campylobacter species are one of the most common causative agents of gastroenteritis worldwide. Resistance against quinolone and macrolide antimicrobials, the most commonly used therapeutic options, poses a serious risk for campylobacteriosis treatment. Owing to whole genome sequencing advancements for rapid detection of antimicrobial resistance mechanisms, phenotypic and genotypic resistance trends along the “farm-to-fork” continuum can be determined. Here, we examined the resistance trends in 111 Campylobacter isolates (90 C. jejuni and 21 C. coli) recovered from clinical samples, commercial broiler carcasses and dairy products in Cairo, Egypt. Multidrug resistance (MDR) was observed in 10% of the isolates, mostly from C. coli. The prevalence of MDR was the highest in isolates collected from broiler carcasses (13.3%), followed by clinical isolates (10.5%), and finally isolates from dairy products (4%). The highest proportion of antimicrobial resistance in both species was against quinolones (ciprofloxacin and/or nalidixic acid) (68.4%), followed by tetracycline (51.3%), then erythromycin (12.6%) and aminoglycosides (streptomycin and/or gentamicin) (5.4%). Similar resistance rates were observed for quinolones, tetracycline, and erythromycin among isolates recovered from broiler carcasses and clinical samples highlighting the contribution of food of animal sources to human illness. Significant associations between phenotypic resistance and putative gene mutations was observed, with a high prevalence of the gyrA T86I substitution among quinolone resistant isolates, tet(O), tet (W), and tet(32) among tetracycline resistant isolates, and 23S rRNA A2075G and A2074T mutations among erythromycin resistant isolates. Emergence of resistance was attributed to the dissemination of resistance genes among various lineages, with the dominance of distinctive clones. For example, sub-lineages of CC828 in C. coli and CC21 in C. jejuni and the genetically related clonal complexes ‘CC206 and CC48’ and ‘CC464, CC353, CC354, CC574’, respectively, propagated across different niches sharing semi-homogenous resistance patterns.SIThis work was partially funded by the Zewail City internal research fund (agreement number ZC 004-2019) and joint ASRT-BA research grant (project number 1110) awarded to Dr. Mohamed Elhadidy. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.Public Library of ScienceTecnologia de los AlimentosFacultad de Veterinaria2021info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttps://journals.plos.org/plosone/article?id=10.1371/journal.pone.0253797https://hdl.handle.net/10612/20649reponame:BULERIA. Repositorio Institucional de la Universidad de Leóninstname:Universidad de LeónIngléshttp://creativecommons.org/licenses/by/4.0/info:eu-repo/semantics/openAccessoai:buleria.unileon.es:10612/206492026-06-24T12:43:27Z
dc.title.none.fl_str_mv High-throughput sequencing reveals genetic determinants associated with antibiotic resistance in Campylobacter spp. from farm-to-fork
title High-throughput sequencing reveals genetic determinants associated with antibiotic resistance in Campylobacter spp. from farm-to-fork
spellingShingle High-throughput sequencing reveals genetic determinants associated with antibiotic resistance in Campylobacter spp. from farm-to-fork
Mouftah, Shaimaa F
Tecnología de los alimentos
Campylobacter
Resistencia a los antibióticos
Resistencias microbianas
3108.01 Bacterias
3309 Tecnología de Los Alimentos
title_short High-throughput sequencing reveals genetic determinants associated with antibiotic resistance in Campylobacter spp. from farm-to-fork
title_full High-throughput sequencing reveals genetic determinants associated with antibiotic resistance in Campylobacter spp. from farm-to-fork
title_fullStr High-throughput sequencing reveals genetic determinants associated with antibiotic resistance in Campylobacter spp. from farm-to-fork
title_full_unstemmed High-throughput sequencing reveals genetic determinants associated with antibiotic resistance in Campylobacter spp. from farm-to-fork
title_sort High-throughput sequencing reveals genetic determinants associated with antibiotic resistance in Campylobacter spp. from farm-to-fork
dc.creator.none.fl_str_mv Mouftah, Shaimaa F
Cobo Díaz, José Francisco
Álvarez Ordóñez, Avelino
Elserafy, Menattallah
Saif, Nehal A.
El-Shibiny, Ayman
Sadat, Asmaa
El-Shibiny, Ayman
Elhadidy, Mohamed
author Mouftah, Shaimaa F
author_facet Mouftah, Shaimaa F
Cobo Díaz, José Francisco
Álvarez Ordóñez, Avelino
Elserafy, Menattallah
Saif, Nehal A.
El-Shibiny, Ayman
Sadat, Asmaa
Elhadidy, Mohamed
author_role author
author2 Cobo Díaz, José Francisco
Álvarez Ordóñez, Avelino
Elserafy, Menattallah
Saif, Nehal A.
El-Shibiny, Ayman
Sadat, Asmaa
Elhadidy, Mohamed
author2_role author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv Tecnologia de los Alimentos
Facultad de Veterinaria
dc.subject.none.fl_str_mv Tecnología de los alimentos
Campylobacter
Resistencia a los antibióticos
Resistencias microbianas
3108.01 Bacterias
3309 Tecnología de Los Alimentos
topic Tecnología de los alimentos
Campylobacter
Resistencia a los antibióticos
Resistencias microbianas
3108.01 Bacterias
3309 Tecnología de Los Alimentos
description [EN]Campylobacter species are one of the most common causative agents of gastroenteritis worldwide. Resistance against quinolone and macrolide antimicrobials, the most commonly used therapeutic options, poses a serious risk for campylobacteriosis treatment. Owing to whole genome sequencing advancements for rapid detection of antimicrobial resistance mechanisms, phenotypic and genotypic resistance trends along the “farm-to-fork” continuum can be determined. Here, we examined the resistance trends in 111 Campylobacter isolates (90 C. jejuni and 21 C. coli) recovered from clinical samples, commercial broiler carcasses and dairy products in Cairo, Egypt. Multidrug resistance (MDR) was observed in 10% of the isolates, mostly from C. coli. The prevalence of MDR was the highest in isolates collected from broiler carcasses (13.3%), followed by clinical isolates (10.5%), and finally isolates from dairy products (4%). The highest proportion of antimicrobial resistance in both species was against quinolones (ciprofloxacin and/or nalidixic acid) (68.4%), followed by tetracycline (51.3%), then erythromycin (12.6%) and aminoglycosides (streptomycin and/or gentamicin) (5.4%). Similar resistance rates were observed for quinolones, tetracycline, and erythromycin among isolates recovered from broiler carcasses and clinical samples highlighting the contribution of food of animal sources to human illness. Significant associations between phenotypic resistance and putative gene mutations was observed, with a high prevalence of the gyrA T86I substitution among quinolone resistant isolates, tet(O), tet (W), and tet(32) among tetracycline resistant isolates, and 23S rRNA A2075G and A2074T mutations among erythromycin resistant isolates. Emergence of resistance was attributed to the dissemination of resistance genes among various lineages, with the dominance of distinctive clones. For example, sub-lineages of CC828 in C. coli and CC21 in C. jejuni and the genetically related clonal complexes ‘CC206 and CC48’ and ‘CC464, CC353, CC354, CC574’, respectively, propagated across different niches sharing semi-homogenous resistance patterns.
publishDate 2021
dc.date.none.fl_str_mv 2021
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0253797
https://hdl.handle.net/10612/20649
url https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0253797
https://hdl.handle.net/10612/20649
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.rights.none.fl_str_mv http://creativecommons.org/licenses/by/4.0/
info:eu-repo/semantics/openAccess
rights_invalid_str_mv http://creativecommons.org/licenses/by/4.0/
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv Public Library of Science
publisher.none.fl_str_mv Public Library of Science
dc.source.none.fl_str_mv reponame:BULERIA. Repositorio Institucional de la Universidad de León
instname:Universidad de León
instname_str Universidad de León
reponame_str BULERIA. Repositorio Institucional de la Universidad de León
collection BULERIA. Repositorio Institucional de la Universidad de León
repository.name.fl_str_mv
repository.mail.fl_str_mv
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