Publication Date:
2012-02-04
Description:
Ecosystems are shaped by complex communities of mostly unculturable microbes. Metagenomes provide a fragmented view of such communities, but the ecosystem functions of major groups of organisms remain mysterious. To better characterize members of these communities, we developed methods to reconstruct genomes directly from mate-paired short-read metagenomes. We closed a genome representing the as-yet uncultured marine group II Euryarchaeota, assembled de novo from 1.7% of a metagenome sequenced from surface seawater. The genome describes a motile, photo-heterotrophic cell focused on degradation of protein and lipids and clarifies the origin of proteorhodopsin. It also demonstrates that high-coverage mate-paired sequence can overcome assembly difficulties caused by interstrain variation in complex microbial communities, enabling inference of ecosystem functions for uncultured members.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Iverson, Vaughn -- Morris, Robert M -- Frazar, Christian D -- Berthiaume, Chris T -- Morales, Rhonda L -- Armbrust, E Virginia -- New York, N.Y. -- Science. 2012 Feb 3;335(6068):587-90. doi: 10.1126/science.1212665.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉School of Oceanography, University of Washington, Seattle, WA 98195, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22301318" target="_blank"〉PubMed〈/a〉
Keywords:
Archaeal Proteins/*genetics/metabolism
;
Biota
;
*Ecosystem
;
Enzymes/genetics/metabolism
;
Euryarchaeota/classification/*genetics/metabolism/*physiology
;
Genes, Archaeal
;
*Genome, Archaeal
;
Genome, Bacterial
;
Heterotrophic Processes
;
Lipid Metabolism/genetics
;
Metabolic Networks and Pathways/genetics
;
*Metagenome
;
Microbial Consortia
;
Molecular Sequence Data
;
Pacific Ocean
;
Peptide Hydrolases/genetics/metabolism
;
Phylogeny
;
Proteins/metabolism
;
Rhodopsin/genetics
;
Rhodopsins, Microbial
;
Seawater/*microbiology
;
Sequence Alignment
;
Sequence Analysis, DNA
Print ISSN:
0036-8075
Electronic ISSN:
1095-9203
Topics:
Biology
,
Chemistry and Pharmacology
,
Computer Science
,
Medicine
,
Natural Sciences in General
,
Physics
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