The green impact: bacterioplankton response toward a phytoplankton spring bloom in the southern North Sea assessed by comparative metagenomic and metatranscriptomic approaches

Heterotrophic bacterial responses to the winter–spring phytoplankton bloom in open waters of the NW Mediterranean

(2015) Ana Gomes et al.   DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS

Bacterial community dynamics during polysaccharide degradation at contrasting sites in the Southern and Atlantic Oceans

(2015) Matthias Wietz et al.   ENVIRONMENTAL MICROBIOLOGY

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

(2015) Anna Kopf et al.   Marine Genomics

UProC: tools for ultra-fast protein domain classification

(2014) Peter Meinicke   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Nutrients drive transcriptional changes that maintain metabolic homeostasis but alter genome architecture in Microcystis

(2014) Morgan M Steffen et al.   ISME Journal

Diversity and activity of marine bacterioplankton during a diatom bloom in the North Sea assessed by total RNA and pyrotag sequencing

(2014) Anna Klindworth et al.   Marine Genomics

Diversity of bacterial community during spring phytoplankton blooms in the central Yellow Sea

(2013) Min Liu et al.   CANADIAN JOURNAL OF MICROBIOLOGY

Impact of a phytoplankton bloom on the diversity of the active bacterial community in the southern North Sea as revealed by metatranscriptomic approaches

(2013) Bernd Wemheuer et al.   FEMS MICROBIOLOGY ECOLOGY

Planktomarina temperata gen. nov., sp. nov., belonging to the globally distributed RCA cluster of the marine Roseobacter clade, isolated from the German Wadden Sea

(2013) H.-A. Giebel et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Evaluating rRNA as an indicator of microbial activity in environmental communities: limitations and uses

(2013) Steven J Blazewicz et al.   ISME Journal

Poles Apart: Arctic and Antarctic Octadecabacter strains Share High Genome Plasticity and a New Type of Xanthorhodopsin

(2013) John Vollmers et al.   PLoS One

Microbial Diversity and Biochemical Potential Encoded by Thermal Spring Metagenomes Derived from the Kamchatka Peninsula

(2013) Bernd Wemheuer et al.   ARCHAEA-AN INTERNATIONAL MICROBIOLOGICAL JOURNAL

SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data

(2012) Evguenia Kopylova et al.   BIOINFORMATICS

Bacterial diversity, community structure and potential growth rates along an estuarine salinity gradient

(2012) Barbara J Campbell et al.   ISME Journal

Expression patterns reveal niche diversification in a marine microbial assemblage

(2012) Scott M Gifford et al.   ISME Journal

Growth and succession patterns of major phylogenetic groups of marine bacteria during a mesocosm diatom bloom

(2012) Yuya Tada et al.   JOURNAL OF OCEANOGRAPHY

Fast, accurate error-correction of amplicon pyrosequences using Acacia

(2012) Lauren Bragg et al.   NATURE METHODS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

MetaVelvet: an extension of Velvet assembler to de novo metagenome assembly from short sequence reads

(2012) Toshiaki Namiki et al.   NUCLEIC ACIDS RESEARCH

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Substrate-Controlled Succession of Marine Bacterioplankton Populations Induced by a Phytoplankton Bloom

(2012) H. Teeling et al.   SCIENCE

RNA-Based Assessment of Diversity and Composition of Active Archaeal Communities in the German Bight

(2012) Bernd Wemheuer et al.   ARCHAEA-AN INTERNATIONAL MICROBIOLOGICAL JOURNAL

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

IMG: the integrated microbial genomes database and comparative analysis system

(2011) V. M. Markowitz et al.   NUCLEIC ACIDS RESEARCH

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Prodigal: prokaryotic gene recognition and translation initiation site identification

(2010) Doug Hyatt et al.   BMC BIOINFORMATICS

Distribution of Roseobacter RCA and SAR11 lineages in the North Sea and characteristics of an abundant RCA isolate

(2010) Helge-Ansgar Giebel et al.   ISME Journal

Distinct flavobacterial communities in contrasting water masses of the North Atlantic Ocean

(2010) Paola R Gómez-Pereira et al.   ISME Journal

Resilience of North Sea phytoplankton spring bloom dynamics: An analysis of long-term data at Helgoland Roads

(2010) Karen Helen Wiltshire et al.   LIMNOLOGY AND OCEANOGRAPHY

Transposases are the most abundant, most ubiquitous genes in nature

(2010) Ramy K. Aziz et al.   NUCLEIC ACIDS RESEARCH

Temporal changes of major bacterial groups and bacterial heterotrophic activity during a Phaeocystis globosa bloom in the eastern English Channel

(2009) D Lamy et al.   AQUATIC MICROBIAL ECOLOGY

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Helgoland Roads, North Sea: 45 Years of Change

(2009) Karen Helen Wiltshire et al.   Estuaries and Coasts

Major differences of bacterial diversity and activity inside and outside of a natural iron-fertilized phytoplankton bloom in the Southern Ocean

(2008) Nyree J. West et al.   ENVIRONMENTAL MICROBIOLOGY

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH