Metagenomic analysis of the microbial community in kefir grains

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dc.authoridNalbantoglu, Ozkan Ufuk/0000-0002-2278-7786|Dogan, Haluk/0000-0002-6547-6638|Ustek, Duran/0000-0002-0060-2859
dc.authorwosidNalbantoglu, Ozkan Ufuk/AAK-5238-2021
dc.authorwosidabacı, neslihan/AAD-5036-2020
dc.authorwosidNalbantoglu, Ufuk/AAA-8033-2022
dc.authorwosidDogan, Haluk/AAH-3873-2020
dc.authorwosidUstek, Duran/C-3484-2009
dc.contributor.authorNalbantoglu, Ufuk
dc.contributor.authorCakar, Atilla
dc.contributor.authorDogan, Haluk
dc.contributor.authorAbaci, Neslihan
dc.contributor.authorUstek, Duran
dc.contributor.authorSayood, Khalid
dc.contributor.authorCan, Handan
dc.date.accessioned2024-07-18T20:42:38Z
dc.date.available2024-07-18T20:42:38Z
dc.date.issued2014
dc.departmentİstanbul Bilgi Üniversitesien_US
dc.description.abstractKefir grains as a probiotic have been subject to microbial community identification using culture-dependent and independent methods that target specific strains in the community, or that are based on limited 16S rRNA analysis. We performed whole genome shotgun pyrosequencing using two Turkish Kefir grains. Sequencing generated 3,682,455 high quality reads for a total of similar to 1.6 Gbp of data assembled into 6151 contigs with a total length of similar to 24 Mbp. Species identification mapped 88.16% and 93.81% of the reads rendering 4 Mpb of assembly that did not show any homology to known bacterial sequences. Identified communities in the two grains showed high concordance where Lactobacillus was the most abundant genus with a mapped abundance of 99.42% and 99.79%. This genus was dominantly represented by three species Lactobacillus kefiranofaciens, Lactobacillus buchneri and Lactobacillus helveticus with a total mapped abundance of 97.63% and 98.74%. We compared and verified our findings with 16S pyrosequencing and model based 16S data analysis. Our results suggest that microbial community profiling using whole genome shotgun data is feasible, can identify novel species data, and has the potential to generate a more accurate and detailed assessment of the underlying bacterial community, especially for low abundance species. (C) 2014 Elsevier Ltd. All rights reserved.en_US
dc.description.sponsorshipScientific and Technological Research Council of Turkey (TUBITAK) [111T369]en_US
dc.description.sponsorshipThis work was supported by the Scientific and Technological Research Council of Turkey (TUBITAK) grant number 111T369 (to HC).en_US
dc.identifier.doi10.1016/j.fm.2014.01.014
dc.identifier.endpage51en_US
dc.identifier.issn0740-0020
dc.identifier.issn1095-9998
dc.identifier.pmid24750812en_US
dc.identifier.scopus2-s2.0-84894135682en_US
dc.identifier.scopusqualityQ1en_US
dc.identifier.startpage42en_US
dc.identifier.urihttps://doi.org/10.1016/j.fm.2014.01.014
dc.identifier.urihttps://hdl.handle.net/11411/7368
dc.identifier.volume41en_US
dc.identifier.wosWOS:000334849000006en_US
dc.identifier.wosqualityQ1en_US
dc.indekslendigikaynakWeb of Scienceen_US
dc.indekslendigikaynakScopusen_US
dc.indekslendigikaynakPubMeden_US
dc.language.isoenen_US
dc.publisherAcademic Press Ltd- Elsevier Science Ltden_US
dc.relation.ispartofFood Microbiologyen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/closedAccessen_US
dc.subjectKefiren_US
dc.subjectMetagenomicsen_US
dc.subjectPyrosequencingen_US
dc.subjectWhole Genome Sequencingen_US
dc.subjectMicrobial Diversityen_US
dc.subjectLactic-Acid Bacteriaen_US
dc.subjectGenome Sequenceen_US
dc.subjectIdentificationen_US
dc.subjectDiversityen_US
dc.subjectMilken_US
dc.subjectGenesen_US
dc.titleMetagenomic analysis of the microbial community in kefir grains
dc.typeArticle

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