Metagenomics uncovers a new group of low GC and ultra-small marine Actinobacteria

FactoMineR: AnRPackage for Multivariate Analysis

(2015) Sébastien Lê et al.   Journal of Statistical Software

Genomics and Physiology of a Marine Flavobacterium Encoding a Proteorhodopsin and a Xanthorhodopsin-Like Protein

(2013) Thomas Riedel et al.   PLoS One

Basin-scale patterns in the abundance of SAR11 subclades, marine Actinobacteria (OM1), members of the Roseobacter clade and OCS116 in the South Atlantic

(2012) Robert M. Morris et al.   ENVIRONMENTAL MICROBIOLOGY

Genome Sequence of "Candidatus Aquiluna" sp. Strain IMCC13023, a Marine Member of the Actinobacteria Isolated from an Arctic Fjord

(2012) I. Kang et al.   JOURNAL OF BACTERIOLOGY

Untangling Genomes from Metagenomes: Revealing an Uncultured Class of Marine Euryarchaeota

(2012) V. Iverson et al.   SCIENCE

Metagenomes of Mediterranean Coastal Lagoons

(2012) Rohit Ghai et al.   Scientific Reports

Aligning short reads to reference alignments and trees

(2011) Simon A. Berger et al.   BIOINFORMATICS

Seasonal bloom dynamics and ecophysiology of the freshwater sister clade of SAR11 bacteria ‘that rule the waves’ (LD12)

(2011) Michaela M Salcher et al.   ISME Journal

Spatiotemporal distribution and activity patterns of bacteria from three phylogenetic groups in an oligomesotrophic lake

(2011) Michaela M. Salcher et al.   LIMNOLOGY AND OCEANOGRAPHY

A Guide to the Natural History of Freshwater Lake Bacteria

(2011) R. J. Newton et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Energy Starved Candidatus Pelagibacter Ubique Substitutes Light-Mediated ATP Production for Endogenous Carbon Respiration

(2011) Laura Steindler et al.   PLoS One

Going Deeper: Metagenome of a Hadopelagic Microbial Community

(2011) Emiley A. Eloe et al.   PLoS One

Metagenomics of the Water Column in the Pristine Upper Course of the Amazon River

(2011) Rohit Ghai et al.   PLoS One

Breaking a paradigm: cosmopolitan and abundant freshwater actinobacteria are low GC

(2011) Rohit Ghai et al.   Environmental Microbiology Reports

New Abundant Microbial Groups in Aquatic Hypersaline Environments

(2011) Rohit Ghai et al.   Scientific Reports

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

Metagenome of the Mediterranean deep chlorophyll maximum studied by direct and fosmid library 454 pyrosequencing

(2010) Rohit Ghai et al.   ISME Journal

CDD: a Conserved Domain Database for the functional annotation of proteins

(2010) A. Marchler-Bauer et al.   NUCLEIC ACIDS RESEARCH

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

Ecosystem-specific selection pressures revealed through comparative population genomics

(2010) M. L. Coleman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identification of ribosomal RNA genes in metagenomic fragments

(2009) Ying Huang et al.   BIOINFORMATICS

Description of seven candidate species affiliated with the phylum Actinobacteria, representing planktonic freshwater bacteria

(2009) M. W. Hahn   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Seasonality and vertical structure of microbial communities in an ocean gyre

(2009) Alexander H Treusch et al.   ISME Journal

Ecological Genomics of Marine Picocyanobacteria

(2009) D. J. Scanlan et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Actinorhodopsins: proteorhodopsin-like gene sequences found predominantly in non-marine environments

(2008) Adrian K. Sharma et al.   ENVIRONMENTAL MICROBIOLOGY

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

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

The Ribosomal Database Project: improved alignments and new tools for rRNA analysis

(2008) J. R. Cole et al.   NUCLEIC ACIDS RESEARCH