Bacterial Succession on Sinking Particles in the Ocean's Interior

Ecological succession leads to chemosynthesis in mats colonizing wood in sea water

(2016) Dimitri Kalenitchenko et al.   ISME Journal

Environmental Breviatea harbour mutualistic Arcobacter epibionts

(2016) Emmo Hamann et al.   NATURE

Plankton networks driving carbon export in the oligotrophic ocean

(2016) Lionel Guidi et al.   NATURE

Siderophore-based microbial adaptations to iron scarcity across the eastern Pacific Ocean

(2016) Rene M. Boiteau et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

CysK Plays a Role in Biofilm Formation and Colonization by Vibrio fischeri

(2015) Priyanka Singh et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Idiomarina aquatica sp. nov., a moderately halophilic bacterium isolated from salterns

(2015) María José León et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Complete genome of Kangiella geojedonensis KCTC 23420T, putative evidence for recent genome reduction in marine environments

(2015) Hanna Choe et al.   Marine Genomics

Towards an Integrative Morpho-molecular Classification of the Collodaria (Polycystinea, Radiolaria)

(2015) Tristan Biard et al.   PROTIST

Eukaryotic plankton diversity in the sunlit ocean

(2015) C. de Vargas et al.   SCIENCE

Microbial community structure and function on sinking particles in the North Pacific Subtropical Gyre

(2015) Kristina M. Fontanez et al.   Frontiers in Microbiology

Orione, a web-based framework for NGS analysis in microbiology

(2014) Gianmauro Cuccuru et al.   BIOINFORMATICS

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Comparative analysis of 16S rRNA signature sequences of the genus Idiomarina and Idiomarina woesei sp. nov., a novel marine bacterium isolated from the Andaman Sea

(2014) Abhijit Poddar et al.   RESEARCH IN MICROBIOLOGY

Lignocellulose-responsive bacteria in a southern California salt marsh identified by stable isotope probing

(2014) Lindsay E. Darjany et al.   Frontiers in Microbiology

QUAST: quality assessment tool for genome assemblies

(2013) Alexey Gurevich et al.   BIOINFORMATICS

Lineage specific gene family enrichment at the microscale in marine systems

(2013) Andrew E Allen et al.   CURRENT OPINION IN MICROBIOLOGY

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Insights into the phylogeny and coding potential of microbial dark matter

(2013) Christian Rinke et al.   NATURE

The carbohydrate-active enzymes database (CAZy) in 2013

(2013) Vincent Lombard et al.   NUCLEIC ACIDS RESEARCH

phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data

(2013) Paul J. McMurdie et al.   PLoS One

Proteomic and Transcriptomic Analyses of "Candidatus Pelagibacter ubique" Describe the First PII-Independent Response to Nitrogen Limitation in a Free-Living Alphaproteobacterium

(2013) D. P. Smith et al.   mBio

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

(2013) Rohit Ghai et al.   Scientific Reports

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

RobiNA: a user-friendly, integrated software solution for RNA-Seq-based transcriptomics

(2012) M. Lohse et al.   NUCLEIC ACIDS RESEARCH

Algicidal activity against Skeletonema costatum by marine bacteria isolated from a high frequency harmful algal blooms area in southern Chinese coast

(2012) Rongjun Shi et al.   WORLD JOURNAL OF MICROBIOLOGY & BIOTECHNOLOGY

Occurrence of Putative Virulence Genes in Arcobacter Species Isolated from Humans and Animals

(2011) L. Douidah et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

BMGE (Block Mapping and Gathering with Entropy): a new software for selection of phylogenetic informative regions from multiple sequence alignments

(2010) Alexis Criscuolo et al.   BMC EVOLUTIONARY BIOLOGY

Presence of typical and atypical virulence genes in vibrio isolates belonging to the Harveyi clade

(2010) H.A.D. Ruwandeepika et al.   JOURNAL OF APPLIED MICROBIOLOGY

Microbial production of recalcitrant dissolved organic matter: long-term carbon storage in the global ocean

(2010) Nianzhi Jiao et al.   NATURE REVIEWS MICROBIOLOGY

Microbial community transcriptomes reveal microbes and metabolic pathways associated with dissolved organic matter turnover in the sea

(2010) J. McCarren et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ecological consequences of bacterioplankton lifestyles: changes in concepts are needed

(2010) Hans-Peter Grossart   Environmental Microbiology Reports

Locked Chromophore Analogs Reveal That Photoactive Yellow Protein Regulates Biofilm Formation in the Deep Sea BacteriumIdiomarina loihiensis

(2009) Michael A. van der Horst et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Assembling the Marine Metagenome, One Cell at a Time

(2009) Tanja Woyke et al.   PLoS One

Complete genome sequence of Kangiella koreensis type strain (SW-125T)

(2009) Cliff Han et al.   Standards in Genomic Sciences

Proteorhodopsins: an array of physiological roles?

(2008) Jed A. Fuhrman et al.   NATURE REVIEWS MICROBIOLOGY

Particulate organic carbon fluxes to the ocean interior and factors controlling the biological pump: A synthesis of global sediment trap programs since 1983

(2008) Susumu Honjo et al.   PROGRESS IN OCEANOGRAPHY