دورية أكاديمية
أعرض في EDS

The use of different 16S rRNA gene variable regions in biogeographical studies.

التفاصيل البيبلوغرافية
العنوان: The use of different 16S rRNA gene variable regions in biogeographical studies.
المؤلفون: Varliero G; Department of Biochemistry, Genetics and Microbiology, Centre for Microbial Ecology and Genomics, University of Pretoria, Pretoria, South Africa., Lebre PH; Department of Biochemistry, Genetics and Microbiology, Centre for Microbial Ecology and Genomics, University of Pretoria, Pretoria, South Africa., Stevens MI; Securing Antarctica's Environmental Future, Earth & Biological Sciences, South Australian Museum, Adelaide, Australia.; School of Biological Sciences, University of Adelaide, Adelaide, Australia., Czechowski P; Helmholtz Institute for Metabolic, Obesity and Vascular Research Leipzig (HI-MAG), Leipzig, Germany., Makhalanyane T; Department of Biochemistry, Genetics and Microbiology, University of Pretoria, Pretoria, South Africa., Cowan DA; Department of Biochemistry, Genetics and Microbiology, Centre for Microbial Ecology and Genomics, University of Pretoria, Pretoria, South Africa.
المصدر: Environmental microbiology reports [Environ Microbiol Rep] 2023 Jun; Vol. 15 (3), pp. 216-228. Date of Electronic Publication: 2023 Feb 21.
نوع المنشور: Journal Article; Research Support, Non-U.S. Gov't
اللغة: English
بيانات الدورية: Publisher: Society for Applied Microbiology and Blackwell Pub Country of Publication: United States NLM ID: 101499207 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1758-2229 (Electronic) Linking ISSN: 17582229 NLM ISO Abbreviation: Environ Microbiol Rep Subsets: MEDLINE
أسماء مطبوعة: Original Publication: [Hoboken, N.J.] : Society for Applied Microbiology and Blackwell Pub., c2009-
مواضيع طبية MeSH: Bacteria*/genetics, RNA, Ribosomal, 16S/genetics ; Phylogeny ; Genes, rRNA ; Sequence Analysis, DNA
مستخلص: 16S rRNA gene amplicon sequencing is routinely used in environmental surveys to identify microbial diversity and composition of the samples of interest. The dominant sequencing technology of the past decade (Illumina) is based on the sequencing of 16S rRNA hypervariable regions. Online sequence data repositories, which represent an invaluable resource for investigating microbial distributional patterns across spatial, environmental or temporal scales, contain amplicon datasets from diverse 16S rRNA gene variable regions. However, the utility of these sequence datasets is potentially reduced by the use of different 16S rRNA gene amplified regions. By comparing 10 Antarctic soil samples sequenced for five different 16S rRNA amplicons, we explore whether sequence data derived from diverse 16S rRNA variable regions can be validly used as a resource for biogeographical studies. Patterns of shared and unique taxa differed among samples as a result of variable taxonomic resolutions of the assessed 16S rRNA variable regions. However, our analyses also suggest that the use of multi-primer datasets for biogeographical studies of the domain Bacteria is a valid approach to explore bacterial biogeographical patterns due to the preservation of bacterial taxonomic and diversity patterns across different variable region datasets. We deem composite datasets useful for biogeographical studies.
(© 2023 The Authors. Environmental Microbiology Reports published by Applied Microbiology International and John Wiley & Sons Ltd.)
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المشرفين على المادة: 0 (RNA, Ribosomal, 16S)
تواريخ الأحداث: Date Created: 20230222 Date Completed: 20230508 Latest Revision: 20230831
رمز التحديث: 20230831
مُعرف محوري في PubMed: PMC10464692
DOI: 10.1111/1758-2229.13145
PMID: 36810880
قاعدة البيانات: MEDLINE
الوصف
تدمد:1758-2229
DOI:10.1111/1758-2229.13145