A decade of metaproteomics: Where we stand and what the future holds

We are living through exciting times during which we are able to unravel the “microbial dark matter” in and around us through the application of high‐resolution “meta‐omics”. Metaproteomics offers the ability to resolve the major catalytic units of microbial populations and thereby allows the establ...

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Bibliographic Details
Published in:Proteomics (Weinheim) Vol. 15; no. 20; pp. 3409 - 3417
Main Authors: Wilmes, Paul, Heintz-Buschart, Anna, Bond, Philip L.
Format: Journal Article
Language:English
Published: Germany Blackwell Publishing Ltd 01.10.2015
Wiley Subscription Services, Inc
John Wiley and Sons Inc
Subjects:
Acid mine drainage
Activated sludge
Betaproteobacteria - genetics
Biofilms
Catalysis
Chemical analysis
Communities
Community composition
Cyanobacteria - genetics
Dark matter
Ecological function
Ecosystem
Fresh Water
Genotypes
Humans
Integrated omics
Intestinal microflora
Leptospiraceae - genetics
Metagenomics
Metaproteomics
Microbial activity
Microbial community
Microbial systems ecology
Microbiology
Microbiota
Microorganisms
Phenotypes
Proteins
Proteome - genetics
Proteomics
Seawater
Soil Microbiology
Viewpoint
Water analysis
Metagenomics
Microbial systems ecology
Metaproteomics
Microbiology
Integrated omics
Microbial community
ISSN:1615-9853, 1615-9861, 1615-9861
Online Access:Get full text
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Summary:We are living through exciting times during which we are able to unravel the “microbial dark matter” in and around us through the application of high‐resolution “meta‐omics”. Metaproteomics offers the ability to resolve the major catalytic units of microbial populations and thereby allows the establishment of genotype‐phenotype linkages from in situ samples. A decade has passed since the term “metaproteomics” was first coined and corresponding analyses were carried out on mixed microbial communities. Since then metaproteomics has yielded many important insights into microbial ecosystem function in the various environmental settings where it has been applied. Although initial progress in analytical capacities and resulting numbers of proteins identified was extremely fast, this trend slowed rapidly. Here, we discuss several representative metaproteomic investigations of activated sludge, acid mine drainage biofilms, freshwater and seawater microbial communities, soil, and human gut microbiota. By using these case studies, we highlight current challenges and possible solutions for metaproteomics to realize its full potential, i.e. to enable conclusive links between microbial community composition, physiology, function, interactions, ecology, and evolution in situ.
Bibliography:ark:/67375/WNG-13J8VB60-T
ArticleID:PMIC12114
istex:E6122B6B398ECB6D70D874FEB6E19F7B48A2AB66
phil.bond@awmc.uq.edu.au
E‐mail
Additional corresponding author: Dr. Philip L. Bond
ObjectType-Article-1
SourceType-Scholarly Journals-1
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E‐mail: phil.bond@awmc.uq.edu.au
ISSN:1615-9853
1615-9861
1615-9861
DOI:10.1002/pmic.201500183