2014
DOI: 10.1371/journal.pone.0097338
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Core Microbial Functional Activities in Ocean Environments Revealed by Global Metagenomic Profiling Analyses

Abstract: Metagenomics-based functional profiling analysis is an effective means of gaining deeper insight into the composition of marine microbial populations and developing a better understanding of the interplay between the functional genome content of microbial communities and abiotic factors. Here we present a comprehensive analysis of 24 datasets covering surface and depth-related environments at 11 sites around the world's oceans. The complete datasets comprises approximately 12 million sequences, totaling 5,358 … Show more

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Cited by 19 publications
(27 citation statements)
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“…At ATII, samples were collected from the overlying water column from depths of 50, 200, 700, and 1500 m (Siam et al, 2012; Ferreira et al, 2014). The samples from the ATII overlying water column were used for the subtraction of common reads from the different brine/interface layers.…”
Section: Methodsmentioning
confidence: 99%
“…At ATII, samples were collected from the overlying water column from depths of 50, 200, 700, and 1500 m (Siam et al, 2012; Ferreira et al, 2014). The samples from the ATII overlying water column were used for the subtraction of common reads from the different brine/interface layers.…”
Section: Methodsmentioning
confidence: 99%
“…Several studies have assessed the differences in microbial community composition and functionality between different layers of the water col-umn (Ghiglione et al 2007, Tamburini et al 2009, Korlević et al 2015. In meta genomic surveys from oligotrophic stratified environments, including the northwest Pacific Ocean and the Sargasso, Mediterranean, and Red Seas, Pro chlorococcus, Verrucomicrobiales, Flexibacteraceae, Euryarchaeota, and Gamma-, Delta-, and Alphaproteobaceria dominated surface-water microbial pop ulations (DeLong et al 2006, Ferreira et al 2014, Thompson et al 2017. The dominant metabolic path ways in surface waters (based on sequence similarity searches of metagenome sequences against protein data bases) included chlorophyll and caro tenoid biosynthesis, carbon fixation, light-induced DN A repair, oxidative stress responses, nitrogen and phosphate metabolism, and vitamin B6 metabolism (DeLong et al 2006, Ferreira et al 2014, Thompson et al 2017.…”
Section: Introductionmentioning
confidence: 99%
“…In meta genomic surveys from oligotrophic stratified environments, including the northwest Pacific Ocean and the Sargasso, Mediterranean, and Red Seas, Pro chlorococcus, Verrucomicrobiales, Flexibacteraceae, Euryarchaeota, and Gamma-, Delta-, and Alphaproteobaceria dominated surface-water microbial pop ulations (DeLong et al 2006, Ferreira et al 2014, Thompson et al 2017. The dominant metabolic path ways in surface waters (based on sequence similarity searches of metagenome sequences against protein data bases) included chlorophyll and caro tenoid biosynthesis, carbon fixation, light-induced DN A repair, oxidative stress responses, nitrogen and phosphate metabolism, and vitamin B6 metabolism (DeLong et al 2006, Ferreira et al 2014, Thompson et al 2017. At aphotic depths, representatives from Deferribacteres, Planctomycetaceae, Acidobacteriales, Gemmatamonadaceae, Nitrospina, Alteromonadaeceae, andThaumarchaeota prevailed (DeLong et al 2006, Ferreira et al 2014), while characteristic metabolic functions included protein folding and export, glyoxylate and dicarboxylate metabolism, thiamine metabolism, methane oxidation, selenocysteine metabolism and terpenoid biosynthesis, and sulfate assimilation and metabolism (DeLong et al 2006, Ferreira et al 2014.…”
Section: Introductionmentioning
confidence: 99%
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