Ändra sökning
RefereraExporteraLänk till posten
Permanent länk

Direktlänk
Referera
Referensformat
  • apa
  • ieee
  • modern-language-association-8th-edition
  • vancouver
  • Annat format
Fler format
Språk
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Annat språk
Fler språk
Utmatningsformat
  • html
  • text
  • asciidoc
  • rtf
Analysing Microbial Community Composition through Amplicon Sequencing: From Sampling to Hypothesis Testing
KTH, Skolan för bioteknologi (BIO), Genteknologi. KTH, Centra, Science for Life Laboratory, SciLifeLab. Karolinska Institutet, Sweden.
KTH, Skolan för bioteknologi (BIO), Genteknologi. KTH, Centra, Science for Life Laboratory, SciLifeLab.ORCID-id: 0000-0002-3627-6899
2017 (Engelska)Ingår i: Frontiers in Microbiology, ISSN 1664-302X, E-ISSN 1664-302X, Vol. 8, artikel-id 1561Artikel, forskningsöversikt (Refereegranskat) Published
Abstract [en]

Microbial ecology as a scientific field is fundamentally driven by technological advance. The past decade's revolution in DNA sequencing cost and throughput has made it possible for most research groups to map microbial community composition in environments of interest. However, the computational and statistical methodology required to analyse this kind of data is often not part of the biologist training. In this review, we give a historical perspective on the use of sequencing data inmicrobial ecology and restate the current need for this method; but also highlight the major caveats with standard practices for handling these data, from sample collection and library preparation to statistical analysis. Further, we outline the main new analytical tools that have been developed in the past few years to bypass these caveats, as well as highlight the major requirements of common statistical practices and the extent to which they are applicable to microbial data. Besides delving into the meaning of select alpha- and beta-diversity measures, we give special consideration to techniques for finding the main drivers of community dissimilarity and for interaction network construction. While every project design has specific needs, this review should serve as a starting point for considering what options are available.

Ort, förlag, år, upplaga, sidor
FRONTIERS MEDIA SA , 2017. Vol. 8, artikel-id 1561
Nyckelord [en]
bioinformatics, biostatistics, amplicon sequencing, microbiome, NGS, 16S rRNA, microbial ecology
Nationell ämneskategori
Mikrobiologi
Identifikatorer
URN: urn:nbn:se:kth:diva-215454DOI: 10.3389/fmicb.2017.01561ISI: 000409344400001PubMedID: 28928718Scopus ID: 2-s2.0-85028756314OAI: oai:DiVA.org:kth-215454DiVA, id: diva2:1150582
Anmärkning

QC 20171019

Tillgänglig från: 2017-10-19 Skapad: 2017-10-19 Senast uppdaterad: 2017-11-29Bibliografiskt granskad

Open Access i DiVA

Fulltext saknas i DiVA

Övriga länkar

Förlagets fulltextPubMedScopus

Personposter BETA

Andersson, Anders F.

Sök vidare i DiVA

Av författaren/redaktören
Hugerth, Luisa W.Andersson, Anders F.
Av organisationen
GenteknologiScience for Life Laboratory, SciLifeLab
I samma tidskrift
Frontiers in Microbiology
Mikrobiologi

Sök vidare utanför DiVA

GoogleGoogle Scholar

doi
pubmed
urn-nbn

Altmetricpoäng

doi
pubmed
urn-nbn
Totalt: 48 träffar
RefereraExporteraLänk till posten
Permanent länk

Direktlänk
Referera
Referensformat
  • apa
  • ieee
  • modern-language-association-8th-edition
  • vancouver
  • Annat format
Fler format
Språk
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Annat språk
Fler språk
Utmatningsformat
  • html
  • text
  • asciidoc
  • rtf