Cargando…

Safety assessment of Enterococcus lactis based on comparative genomics and phenotypic analysis

Enterococcus faecium is sometimes used in food production; however, its acquisition of antibiotic resistance has become an alarming health concern. The E. lactis species is closely related to E. faecium and has good probiotic potential. This study aimed to investigate the antibiotic resistance of E....

Descripción completa

Detalles Bibliográficos
Autores principales: Lu, Jingda, Shen, Tingting, Zhang, Yixin, Ma, Xinwei, Xu, Sheng, Awad, Sameh, Du, Muying, Zhong, Zhi
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10239811/
https://www.ncbi.nlm.nih.gov/pubmed/37283930
http://dx.doi.org/10.3389/fmicb.2023.1196558
_version_ 1785053572743823360
author Lu, Jingda
Shen, Tingting
Zhang, Yixin
Ma, Xinwei
Xu, Sheng
Awad, Sameh
Du, Muying
Zhong, Zhi
author_facet Lu, Jingda
Shen, Tingting
Zhang, Yixin
Ma, Xinwei
Xu, Sheng
Awad, Sameh
Du, Muying
Zhong, Zhi
author_sort Lu, Jingda
collection PubMed
description Enterococcus faecium is sometimes used in food production; however, its acquisition of antibiotic resistance has become an alarming health concern. The E. lactis species is closely related to E. faecium and has good probiotic potential. This study aimed to investigate the antibiotic resistance of E. lactis. We analyzed the antibiotic resistance phenotype and whole-genome sequences of 60 E. lactis isolates (23, 29, and 8 isolates from dairy products, Rice wine Koji, and human feces, respectively). These isolates showed varying degree of resistance to 13 antibiotics, and were sensitive to ampicillin and linezolid. The E. lactis genomes carried only a subset of commonly reported antibiotic resistance genes (ARGs) in E. faecium. Five ARGs were detected across the investigated E. lactis, including two universally present genes (msrC and AAC(6′)-Ii) and three rarely detected ARGs (tet(L), tetM, and efmA). To identify other undescribed antibiotic resistance-encoding genes, a genome-wide association study was performed, returning 160 potential resistance genes that were associated with six antibiotics, namely chloramphenicol, vancomycin, clindamycin, erythromycin, quinupristin-dalfopristin, and rifampicin. Only around one-third of these genes encode known biological functions, including cellular metabolism, membrane transport, and DNA synthesis. This work identified interesting targets for future study of antibiotic resistance in E. lactis. The fact that the lower number of ARGs present in E. lactis supports that it may be an alternative to E. faecalis for use in the food industry. Data generated in this work is of interest to the dairy industry.
format Online
Article
Text
id pubmed-10239811
institution National Center for Biotechnology Information
language English
publishDate 2023
publisher Frontiers Media S.A.
record_format MEDLINE/PubMed
spelling pubmed-102398112023-06-06 Safety assessment of Enterococcus lactis based on comparative genomics and phenotypic analysis Lu, Jingda Shen, Tingting Zhang, Yixin Ma, Xinwei Xu, Sheng Awad, Sameh Du, Muying Zhong, Zhi Front Microbiol Microbiology Enterococcus faecium is sometimes used in food production; however, its acquisition of antibiotic resistance has become an alarming health concern. The E. lactis species is closely related to E. faecium and has good probiotic potential. This study aimed to investigate the antibiotic resistance of E. lactis. We analyzed the antibiotic resistance phenotype and whole-genome sequences of 60 E. lactis isolates (23, 29, and 8 isolates from dairy products, Rice wine Koji, and human feces, respectively). These isolates showed varying degree of resistance to 13 antibiotics, and were sensitive to ampicillin and linezolid. The E. lactis genomes carried only a subset of commonly reported antibiotic resistance genes (ARGs) in E. faecium. Five ARGs were detected across the investigated E. lactis, including two universally present genes (msrC and AAC(6′)-Ii) and three rarely detected ARGs (tet(L), tetM, and efmA). To identify other undescribed antibiotic resistance-encoding genes, a genome-wide association study was performed, returning 160 potential resistance genes that were associated with six antibiotics, namely chloramphenicol, vancomycin, clindamycin, erythromycin, quinupristin-dalfopristin, and rifampicin. Only around one-third of these genes encode known biological functions, including cellular metabolism, membrane transport, and DNA synthesis. This work identified interesting targets for future study of antibiotic resistance in E. lactis. The fact that the lower number of ARGs present in E. lactis supports that it may be an alternative to E. faecalis for use in the food industry. Data generated in this work is of interest to the dairy industry. Frontiers Media S.A. 2023-05-22 /pmc/articles/PMC10239811/ /pubmed/37283930 http://dx.doi.org/10.3389/fmicb.2023.1196558 Text en Copyright © 2023 Lu, Shen, Zhang, Ma, Xu, Awad, Du and Zhong. https://creativecommons.org/licenses/by/4.0/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) and the copyright owner(s) 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.
spellingShingle Microbiology
Lu, Jingda
Shen, Tingting
Zhang, Yixin
Ma, Xinwei
Xu, Sheng
Awad, Sameh
Du, Muying
Zhong, Zhi
Safety assessment of Enterococcus lactis based on comparative genomics and phenotypic analysis
title Safety assessment of Enterococcus lactis based on comparative genomics and phenotypic analysis
title_full Safety assessment of Enterococcus lactis based on comparative genomics and phenotypic analysis
title_fullStr Safety assessment of Enterococcus lactis based on comparative genomics and phenotypic analysis
title_full_unstemmed Safety assessment of Enterococcus lactis based on comparative genomics and phenotypic analysis
title_short Safety assessment of Enterococcus lactis based on comparative genomics and phenotypic analysis
title_sort safety assessment of enterococcus lactis based on comparative genomics and phenotypic analysis
topic Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10239811/
https://www.ncbi.nlm.nih.gov/pubmed/37283930
http://dx.doi.org/10.3389/fmicb.2023.1196558
work_keys_str_mv AT lujingda safetyassessmentofenterococcuslactisbasedoncomparativegenomicsandphenotypicanalysis
AT shentingting safetyassessmentofenterococcuslactisbasedoncomparativegenomicsandphenotypicanalysis
AT zhangyixin safetyassessmentofenterococcuslactisbasedoncomparativegenomicsandphenotypicanalysis
AT maxinwei safetyassessmentofenterococcuslactisbasedoncomparativegenomicsandphenotypicanalysis
AT xusheng safetyassessmentofenterococcuslactisbasedoncomparativegenomicsandphenotypicanalysis
AT awadsameh safetyassessmentofenterococcuslactisbasedoncomparativegenomicsandphenotypicanalysis
AT dumuying safetyassessmentofenterococcuslactisbasedoncomparativegenomicsandphenotypicanalysis
AT zhongzhi safetyassessmentofenterococcuslactisbasedoncomparativegenomicsandphenotypicanalysis