Charles Ayodeji Osunla, Ayorinde Akinbobola, Arif Elshafea, Esther Eyram Asare Yeboah, Olayemi Stephen Bakare, Aderonke Fayanju, Dorcas Oladayo Fatoba, Bright Boamah, Daniel Gyamfi Amoako
{"title":"尼日利亚零售肉类中粪肠球菌的基因组学和生物信息学研究。","authors":"Charles Ayodeji Osunla, Ayorinde Akinbobola, Arif Elshafea, Esther Eyram Asare Yeboah, Olayemi Stephen Bakare, Aderonke Fayanju, Dorcas Oladayo Fatoba, Bright Boamah, Daniel Gyamfi Amoako","doi":"10.1155/ijm/7325430","DOIUrl":null,"url":null,"abstract":"<p><p><i>Enterococcus faecalis</i> is a commensal and opportunistic pathogen increasingly recognized for its antimicrobial resistance (AMR) and zoonotic potential. This study employs whole-genome sequencing (WGS) to characterize <i>E. faecalis</i> isolates from retail meat samples, focusing on antimicrobial resistance genes (ARGs), virulence determinants, mobile genetic elements, and phylogenomic relationships. Fifty raw meat samples, including chicken (<i>n</i> = 18), beef (<i>n</i> = 17), and turkey (<i>n</i> = 15), were collected from retail markets in Akungba-Akoko, Nigeria. Confirmed isolates underwent antimicrobial susceptibility testing and WGS-based genomic analysis. Ten <i>E. faecalis</i> isolates were recovered, predominantly from chicken. All exhibited resistance to clindamycin, erythromycin, and tetracycline. Dominant AMR genes included <i>aac(6</i>'<i>)-aph(2</i><sup>″</sup>), <i>ant(6)-Ia</i>, <i>lsa(A)</i>, <i>erm(B)</i>, <i>tet(M)</i>, and <i>tet(L)</i>. Plasmid replicons <i>rep9c</i> and <i>repUS43</i> were associated with sequence types ST477 and ST16, respectively. MGEs such as IS3, IS6, IS256, and IS1380 colocalized with resistance and virulence genes. Phylogenomic analysis revealed two major lineages (ST477 and ST16) and indicated geographic clustering across African isolates. The co-occurrence of multidrug resistance, virulence factors, and MGEs in foodborne <i>E. faecalis</i> poses a public health concern due to the risk of horizontal gene transfer and zoonotic spread. These findings support the need for strengthened genomic surveillance and AMR control strategies in food systems, particularly within low- and middle-income countries.</p>","PeriodicalId":14098,"journal":{"name":"International Journal of Microbiology","volume":"2025 ","pages":"7325430"},"PeriodicalIF":3.2000,"publicationDate":"2025-08-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12390423/pdf/","citationCount":"0","resultStr":"{\"title\":\"Genomic and Bioinformatic Insights Into <i>Enterococcus faecalis</i> From Retail Meats in Nigeria.\",\"authors\":\"Charles Ayodeji Osunla, Ayorinde Akinbobola, Arif Elshafea, Esther Eyram Asare Yeboah, Olayemi Stephen Bakare, Aderonke Fayanju, Dorcas Oladayo Fatoba, Bright Boamah, Daniel Gyamfi Amoako\",\"doi\":\"10.1155/ijm/7325430\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><p><i>Enterococcus faecalis</i> is a commensal and opportunistic pathogen increasingly recognized for its antimicrobial resistance (AMR) and zoonotic potential. This study employs whole-genome sequencing (WGS) to characterize <i>E. faecalis</i> isolates from retail meat samples, focusing on antimicrobial resistance genes (ARGs), virulence determinants, mobile genetic elements, and phylogenomic relationships. Fifty raw meat samples, including chicken (<i>n</i> = 18), beef (<i>n</i> = 17), and turkey (<i>n</i> = 15), were collected from retail markets in Akungba-Akoko, Nigeria. Confirmed isolates underwent antimicrobial susceptibility testing and WGS-based genomic analysis. Ten <i>E. faecalis</i> isolates were recovered, predominantly from chicken. All exhibited resistance to clindamycin, erythromycin, and tetracycline. Dominant AMR genes included <i>aac(6</i>'<i>)-aph(2</i><sup>″</sup>), <i>ant(6)-Ia</i>, <i>lsa(A)</i>, <i>erm(B)</i>, <i>tet(M)</i>, and <i>tet(L)</i>. Plasmid replicons <i>rep9c</i> and <i>repUS43</i> were associated with sequence types ST477 and ST16, respectively. MGEs such as IS3, IS6, IS256, and IS1380 colocalized with resistance and virulence genes. Phylogenomic analysis revealed two major lineages (ST477 and ST16) and indicated geographic clustering across African isolates. The co-occurrence of multidrug resistance, virulence factors, and MGEs in foodborne <i>E. faecalis</i> poses a public health concern due to the risk of horizontal gene transfer and zoonotic spread. 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Genomic and Bioinformatic Insights Into Enterococcus faecalis From Retail Meats in Nigeria.
Enterococcus faecalis is a commensal and opportunistic pathogen increasingly recognized for its antimicrobial resistance (AMR) and zoonotic potential. This study employs whole-genome sequencing (WGS) to characterize E. faecalis isolates from retail meat samples, focusing on antimicrobial resistance genes (ARGs), virulence determinants, mobile genetic elements, and phylogenomic relationships. Fifty raw meat samples, including chicken (n = 18), beef (n = 17), and turkey (n = 15), were collected from retail markets in Akungba-Akoko, Nigeria. Confirmed isolates underwent antimicrobial susceptibility testing and WGS-based genomic analysis. Ten E. faecalis isolates were recovered, predominantly from chicken. All exhibited resistance to clindamycin, erythromycin, and tetracycline. Dominant AMR genes included aac(6')-aph(2″), ant(6)-Ia, lsa(A), erm(B), tet(M), and tet(L). Plasmid replicons rep9c and repUS43 were associated with sequence types ST477 and ST16, respectively. MGEs such as IS3, IS6, IS256, and IS1380 colocalized with resistance and virulence genes. Phylogenomic analysis revealed two major lineages (ST477 and ST16) and indicated geographic clustering across African isolates. The co-occurrence of multidrug resistance, virulence factors, and MGEs in foodborne E. faecalis poses a public health concern due to the risk of horizontal gene transfer and zoonotic spread. These findings support the need for strengthened genomic surveillance and AMR control strategies in food systems, particularly within low- and middle-income countries.
期刊介绍:
International Journal of Microbiology is a peer-reviewed, Open Access journal that publishes original research articles, review articles, and clinical studies on microorganisms and their interaction with hosts and the environment. The journal covers all microbes, including bacteria, fungi, viruses, archaea, and protozoa. Basic science will be considered, as well as medical and applied research.