Characterization of key bacterial species in the Daphnia magna microbiota using shotgun metagenomics
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Title
Characterization of key bacterial species in the Daphnia magna microbiota using shotgun metagenomics
Authors
Keywords
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Journal
Scientific Reports
Volume 10, Issue 1, Pages -
Publisher
Springer Science and Business Media LLC
Online
2020-01-20
DOI
10.1038/s41598-019-57367-x
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- (2019) Pierre-Alain Chaumeil et al. BIOINFORMATICS
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- (2017) Vitor C. Piro et al. Microbiome
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- (2016) Ravi Ranjan et al. BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
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- (2016) Kirstie McLoughlin et al. Cell Host & Microbe
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- (2016) Annika Wahlström et al. Cell Metabolism
- BlastKOALA and GhostKOALA: KEGG Tools for Functional Characterization of Genome and Metagenome Sequences
- (2016) Minoru Kanehisa et al. JOURNAL OF MOLECULAR BIOLOGY
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- (2015) A. Murat Eren et al. PeerJ
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- (2014) Andrew K. Benson et al. APPLIED AND ENVIRONMENTAL MICROBIOLOGY
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- (2014) Anthony M. Bolger et al. BIOINFORMATICS
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- (2014) Derrick E Wood et al. GENOME BIOLOGY
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