| A global network of coexisting microbes from environmental and whole-genome sequence data. | |
| | |
MedLine Citation:
|
PMID: 20458099 Owner: NLM Status: MEDLINE |
Abstract/OtherAbstract:
|
Microbes are the most abundant and diverse organisms on Earth. In contrast to macroscopic organisms, their environmental preferences and ecological interdependencies remain difficult to assess, requiring laborious molecular surveys at diverse sampling sites. Here, we present a global meta-analysis of previously sampled microbial lineages in the environment. We grouped publicly available 16S ribosomal RNA sequences into operational taxonomic units at various levels of resolution and systematically searched these for co-occurrence across environments. Naturally occurring microbes, indeed, exhibited numerous, significant interlineage associations. These ranged from relatively specific groupings encompassing only a few lineages, to larger assemblages of microbes with shared habitat preferences. Many of the coexisting lineages were phylogenetically closely related, but a significant number of distant associations were observed as well. The increased availability of completely sequenced genomes allowed us, for the first time, to search for genomic correlates of such ecological associations. Genomes from coexisting microbes tended to be more similar than expected by chance, both with respect to pathway content and genome size, and outliers from these trends are discussed. We hypothesize that groupings of lineages are often ancient, and that they may have significantly impacted on genome evolution. |
| | |
Authors:
|
Samuel Chaffron; Hubert Rehrauer; Jakob Pernthaler; Christian von Mering |
Related Documents
:
|
11311439 - Expansion of the geographic distribution of a novel lineage of epsilon-proteobacteria t... 18611419 - Taxonomic composition and gene content of a methane-producing microbial community isola... 15184179 - Discovery of the novel candidate phylum "poribacteria" in marine sponges. 17585989 - Bacterial community composition and structure of biofilms developing on nanofiltration ... 12788769 - Combining culture-dependent and -independent methodologies for estimation of richness o... 18358549 - Development and validation of a molecular technique for the analysis of archived formal... 6098829 - Hygromycin b phosphotransferase as a selectable marker for dna transfer experiments wit... 8026499 - Sequencing and characterization of the sdac gene and identification of the sdacb operon... 9393729 - The rpon (sigma54) gene from listeria monocytogenes is involved in resistance to mesent... |
Publication Detail:
|
Type: Journal Article; Research Support, Non-U.S. Gov't Date: 2010-05-10 |
Journal Detail:
|
Title: Genome research Volume: 20 ISSN: 1549-5469 ISO Abbreviation: Genome Res. Publication Date: 2010 Jul |
Date Detail:
|
Created Date: 2010-07-02 Completed Date: 2010-10-29 Revised Date: - |
Medline Journal Info:
|
Nlm Unique ID: 9518021 Medline TA: Genome Res Country: United States |
Other Details:
|
Languages: eng Pagination: 947-59 Citation Subset: IM |
Affiliation:
|
Institute of Molecular Life Sciences and Swiss Institute of Bioinformatics, University of Zurich, CH-8057 Zürich, Switzerland. |
Export Citation:
|
APA/MLA Format Download EndNote Download BibTex |
| MeSH Terms | |
Descriptor/Qualifier:
|
Base Sequence Cluster Analysis Environment* Evolution, Molecular Genome* Geography Meta-Analysis as Topic Metagenomics Microbial Interactions / genetics* Models, Biological Molecular Sequence Data RNA, Ribosomal, 16S / genetics Sequence Analysis, DNA* |
| Chemical | |
Reg. No./Substance:
|
0/RNA, Ribosomal, 16S |
| Comments/Corrections | |
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine
Previous Document: Nut consumption and blood lipid levels: a pooled analysis of 25 intervention trials.
Next Document: Evolution of a genomic regulatory domain: the role of gene co-option and gene duplication in the Enh...