Comparative genomics of Pediococcus pentosaceus isolated from different niches reveals genetic diversity in carbohydrate metabolism and immune system

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dc.contributor.authorJiang Jie
dc.contributor.authorYang, Bo
dc.contributor.authorRoss, R. Paul
dc.contributor.authorStanton, Catherine
dc.contributor.authorZhao, Jianxin
dc.contributor.authorZhang, Hao
dc.contributor.authorChen, Wei
dc.contributor.funderNational Natural Science Foundation of Chinaen
dc.contributor.funderNational First-Class Discipline Program of Food Science and Technologyen
dc.contributor.funderCollaborative Innovationcenter of Food Safety and Quality Control in Jiangsu Provinceen
dc.date.accessioned2023-02-28T16:24:21Z
dc.date.available2023-02-28T16:24:21Z
dc.date.issued2020-02
dc.date.updated2023-02-28T15:57:47Z
dc.description.abstractPediococcus pentosaceus isolated from fermented food and the gastrointestinal tracts of humans and animals have been widely identified, and some strains have been reported to reduce inflammation, encephalopathy, obesity and fatty liver in animals. In this study, the genomes of 65 P. pentosaceus strains isolated from human and animal feces and different fermented food were sequenced and comparative genomics analysis was performed on all strains along with nine sequenced representative strains to preliminarily reveal the lifestyle of P. pentosaceus, and investigate the genomic diversity within this species. The results reveal that P. pentosaceus is not host-specific, and shares core genes encoding proteins related to translation, ribosomal structure and biogenesis and signal transduction mechanisms, while its genetic diversity relates mainly to carbohydrate metabolism, and horizontally transferred DNA, especially prophages and bacteriocins encoded on plasmids. Additionally, this is the first report of a type IIA CRISPR/Cas system in P. pentosaceus. This work provides expanded resources of P. pentosaceus genomes, and offers a framework for understanding the biotechnological potential of this species.en
dc.description.sponsorshipNational Natural Science Foundation of China (Grant Nos. 31722041 and 31820103010); National First-Class Discipline Program of Food Science and Technology ( Grant No.JUFSTR20180102)en
dc.description.statusPeer revieweden
dc.description.versionPublished Versionen
dc.format.mimetypeapplication/pdfen
dc.identifier.articleid253en
dc.identifier.citationJiang, J., Yang, B., Ross, R.P., Stanton, C., Zhao, J., Zhang, H. and Chen, W. (2020) ‘Comparative genomics of Pediococcus pentosaceus isolated from different niches reveals genetic diversity in carbohydrate metabolism and immune system’, Frontiers in Microbiology, 11, 253 (22pp). doi: 10.3389/fmicb.2020.00253en
dc.identifier.doi10.3389/fmicb.2020.00253en
dc.identifier.endpage22en
dc.identifier.issn1664-302X
dc.identifier.journaltitleFrontiers In Microbiologyen
dc.identifier.startpage1en
dc.identifier.urihttps://hdl.handle.net/10468/14260
dc.identifier.volume11en
dc.language.isoenen
dc.publisherFrontiers Media S.A.en
dc.rights© 2020 Jiang, Yang, Ross, Stanton, Zhao, Zhang and Chen. 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.en
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/en
dc.subjectBacteriocinen
dc.subjectCarbohydrate utilizationen
dc.subjectComparative genomicsen
dc.subjectCRISPR/Casen
dc.subjectGenetic diversityen
dc.subjectPediococcus pentosaceusen
dc.subjectProphageen
dc.titleComparative genomics of Pediococcus pentosaceus isolated from different niches reveals genetic diversity in carbohydrate metabolism and immune systemen
dc.typeArticle (peer-reviewed)en
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