Metatranscriptome of marine bacterioplankton during winter time in the North Sea assessed by total RNA sequencing

Anna Kopf; Ivaylo Kostadinov; Antje Wichels; Christian Quast; Frank Oliver Glöckner

doi:10.1016/j.margen.2014.11.001

Metatranscriptome of marine bacterioplankton during winter time in the North Sea assessed by total RNA sequencing

Mar Genomics. 2015 Feb:19:45-6. doi: 10.1016/j.margen.2014.11.001. Epub 2014 Nov 15.

Authors

Anna Kopf¹, Ivaylo Kostadinov², Antje Wichels³, Christian Quast⁴, Frank Oliver Glöckner⁵

Affiliations

¹ Max Planck Institute for Marine Microbiology, Microbial Genomics and Bioinformatics Research Group, Celsiusstraße 1, 28359 Bremen, Germany; Jacobs University gGmbH Bremen, School of Engineering and Sciences, Campus ring 1, 28759 Bremen, Germany. Electronic address: [email protected].
² Jacobs University gGmbH Bremen, School of Engineering and Sciences, Campus ring 1, 28759 Bremen, Germany. Electronic address: [email protected].
³ Alfred-Wegener-Institut Helmholtz-Zentrum für Polar- und Meeresforschung, Biologische Anstalt Helgoland, Kurpromenade 201, 27498 Helgoland, Germany.
⁴ Max Planck Institute for Marine Microbiology, Microbial Genomics and Bioinformatics Research Group, Celsiusstraße 1, 28359 Bremen, Germany.
⁵ Max Planck Institute for Marine Microbiology, Microbial Genomics and Bioinformatics Research Group, Celsiusstraße 1, 28359 Bremen, Germany; Jacobs University gGmbH Bremen, School of Engineering and Sciences, Campus ring 1, 28759 Bremen, Germany.

PMID: 25479944
DOI: 10.1016/j.margen.2014.11.001

Abstract

Marine metatranscriptome data was generated as part of a study investigating the bacterioplankton communities towards the end of a diatom-dominated spring phytoplankton bloom. This genomic resource article reports a metatranscriptomic dataset from amidst the winter time prior to the occurrence of the spring diatom bloom. Up to 58% of all sequences could be assigned to predicted genes. Taxonomic analysis based on expressed 16S ribosomal RNA genes identified Alphaproteobacteria and Gammaproteobacteria as the most active community members.

Keywords: Bacterioplankton; CAZymes; Membrane transporter; Metatranscriptomics; Proteorhodopsin; TonB.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Bacteria / genetics*
Bacteria / metabolism
Base Sequence
Eutrophication*
Molecular Sequence Data
North Sea
Plankton / genetics*
Plankton / metabolism
RNA, Ribosomal, 16S / genetics
Seasons*
Sequence Analysis, RNA
Transcriptome*

Substances

RNA, Ribosomal, 16S