Millions of reads, thousands of taxa: microbial community structure and associations analyzed via marker genes

Bálint, MiklósSenckenberg Biodivers & Climate Res Ctr, Senckenberganlage 25, D-60325 Frankfurt, Germany (author)

Millions of reads, thousands of taxa : microbial community structure and associations analyzed via marker genes

With high-throughput sequencing (HTS), we are able to explore the hidden world of microscopic organisms to an unpre-cedented level. The fast development of molecular technology and statistical methods means that microbial ecologists must keep their toolkits updated. Here, we review and evaluate some of the more widely adopted and emerging techniques for analysis of diversity and community composition, and the inference of species interactions from co-occurrence data generated by HTS of marker genes. We emphasize the importance of observational biases and statistical properties of the data and methods. The aim of the review is to critically discuss the advantages and disadvantages of established and emerging statistical methods, and to contribute to the integration of HTS-based marker gene data into community ecology.

Bahram, MohammadUppsala universitet,Systematisk biologi,Univ Tartu, Inst Ecol & Earth Sci, Dept Bot, 40 Lai St, EE-51005 Tartu, Estonia(Swepub:uu)mohba915 (author)
Eren, A. MuratMarine Biol Lab, Josephine Bay Paul Ctr Comparat Mol Biol & Evolut, Woods Hole, MA 02543 USA; Univ Chicago, Dept Med, 5841 S Maryland Ave, Chicago, IL 60637 USA (author)
Faust, KarolineKatholieke Univ Leuven, Rega Inst, Ctr Biol Dis, B-3000 Leuven, Belgium (author)
Fuhrman, JedUniv Southern Calif, Dept Biol Sci, MC0371, Los Angeles, CA 90089 USA (author)
Lindahl, BjörnSwedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för mark och miljö,Department of Soil and Environment(Swepub:slu)50956 (author)
O'Hara, Robert B.Senckenberg Biodivers & Climate Res Ctr, Senckenberganlage 25, D-60325 Frankfurt, Germany (author)
Öpik, MaarjaUniv Tartu, Inst Ecol & Earth Sci, Dept Bot, 40 Lai St, EE-51005 Tartu, Estonia (author)
Sogin, Mitchell L.Marine Biol Lab, Josephine Bay Paul Ctr Comparat Mol Biol & Evolut, Woods Hole, MA 02543 USA (author)
Untersehe, MartinErnst Moritz Arndt Univ Greifswald, Inst Bot & Landscape Ecol, Soldmannstr 15, D-17487 Greifswald, Germany (author)
Tedersoo, LehoUniv Tartu, Nat Hist Museum, 14a Ravila St, EE-50411 Tartu, Estonia (author)
Senckenberg Biodivers & Climate Res Ctr, Senckenberganlage 25, D-60325 Frankfurt, GermanySystematisk biologi (creator_code:org_t)
Sveriges lantbruksuniversitet

In:FEMS Microbiology Reviews: Oxford University Press (OUP)40:5, s. 686-7000168-64451574-6976

By the author/editor: Bálint, Miklós; Bahram, Mohammad; Eren, A. Murat; Faust, Karoline; Fuhrman, Jed; Lindahl, Björn; show more...; O'Hara, Robert B ...; Öpik, Maarja; Sogin, Mitchell ...; Untersehe, Marti ...; Tedersoo, Leho; show less...

About the subject

NATURAL SCIENCES: NATURAL SCIENCES; and Biological Scien ...; and Microbiology

By the university: Uppsala University; Swedish University of Agricultural Sciences

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