Charting the Complexity of the Marine Microbiome through Single-Cell Genomics.
Genomics
biodiversity
biogeography
bioprospecting
microbial ecology
oceanography
omics
plankton
reference database
single-cell genomics
Journal
Cell
ISSN: 1097-4172
Titre abrégé: Cell
Pays: United States
ID NLM: 0413066
Informations de publication
Date de publication:
12 12 2019
12 12 2019
Historique:
received:
31
05
2019
revised:
30
09
2019
accepted:
13
11
2019
entrez:
14
12
2019
pubmed:
14
12
2019
medline:
6
6
2020
Statut:
ppublish
Résumé
Marine bacteria and archaea play key roles in global biogeochemistry. To improve our understanding of this complex microbiome, we employed single-cell genomics and a randomized, hypothesis-agnostic cell selection strategy to recover 12,715 partial genomes from the tropical and subtropical euphotic ocean. A substantial fraction of known prokaryoplankton coding potential was recovered from a single, 0.4 mL ocean sample, which indicates that genomic information disperses effectively across the globe. Yet, we found each genome to be unique, implying limited clonality within prokaryoplankton populations. Light harvesting and secondary metabolite biosynthetic pathways were numerous across lineages, highlighting the value of single-cell genomics to advance the identification of ecological roles and biotechnology potential of uncultured microbial groups. This genome collection enabled functional annotation and genus-level taxonomic assignments for >80% of individual metagenome reads from the tropical and subtropical surface ocean, thus offering a model to improve reference genome databases for complex microbiomes.
Identifiants
pubmed: 31835036
pii: S0092-8674(19)31273-5
doi: 10.1016/j.cell.2019.11.017
pmc: PMC6919566
mid: NIHMS1545586
pii:
doi:
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
1623-1635.e11Subventions
Organisme : NIAID NIH HHS
ID : R21 AI134037
Pays : United States
Commentaires et corrections
Type : CommentIn
Informations de copyright
Copyright © 2019 Elsevier Inc. All rights reserved.
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