Polymetallic nodules, sediments, and deep waters in the equatorial North Pacific exhibit highly diverse and distinct bacterial, archaeal, and microeukaryotic communities

Diversity and Biogeography of Bathyal and Abyssal Seafloor Bacteria

(2016) Christina Bienhold et al.   PLoS One

Minor revision to V4 region SSU rRNA 806R gene primer greatly increases detection of SAR11 bacterioplankton

(2015) A Apprill et al.   AQUATIC MICROBIAL ECOLOGY

Every base matters: assessing small subunit rRNA primers for marine microbiomes with mock communities, time series and global field samples

(2015) Alma E. Parada et al.   ENVIRONMENTAL MICROBIOLOGY

Manganese-Cycling Microbial Communities Inside Deep-Sea Manganese Nodules

(2015) Marco Blöthe et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Eukaryotic plankton diversity in the sunlit ocean

(2015) C. de Vargas et al.   SCIENCE

Managing mining of the deep seabed

(2015) L. M. Wedding et al.   SCIENCE

Response of Bacterioplankton Communities to Cadmium Exposure in Coastal Water Microcosms with High Temporal Variability

(2014) Kai Wang et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The Earth Microbiome project: successes and aspirations

(2014) Jack A Gilbert et al.   BMC BIOLOGY

Impact of depositional and biogeochemical processes on small scale variations in nodule abundance in the Clarion‐Clipperton Fracture Zone

(2014) K. Mewes et al.   DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS

The influence of suboxic diagenesis on the formation of manganese nodules in the Clarion Clipperton nodule belt of the Pacific Ocean

(2014) Anna V. Wegorzewski et al.   MARINE GEOLOGY

A comparison of microbial communities in deep-sea polymetallic nodules and the surrounding sediments in the Pacific Ocean

(2013) Yue-Hong Wu et al.   DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS

Genomic properties of Marine Group A bacteria indicate a role in the marine sulfur cycle

(2013) Jody J Wright et al.   ISME Journal

The SILVA and “All-species Living Tree Project (LTP)” taxonomic frameworks

(2013) Pelin Yilmaz et al.   NUCLEIC ACIDS RESEARCH

Microbial communities associated with ferromanganese nodules and the surrounding sediments

(2013) Benjamin J. Tully et al.   Frontiers in Microbiology

Diversity and population structure of Marine Group A bacteria in the Northeast subarctic Pacific Ocean

(2012) Elke Allers et al.   ISME Journal

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms

(2012) J Gregory Caporaso et al.   ISME Journal

The Revised Classification of Eukaryotes

(2012) Sina M. Adl et al.   JOURNAL OF EUKARYOTIC MICROBIOLOGY

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

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Microbial oceanography of anoxic oxygen minimum zones

(2012) O. Ulloa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Microbial diversity in deep-sea sediment from the cobalt-rich crust deposit region in the Pacific Ocean

(2011) Li Liao et al.   FEMS MICROBIOLOGY ECOLOGY

Impact of training sets on classification of high-throughput bacterial 16s rRNA gene surveys

(2011) Jeffrey J Werner et al.   ISME Journal

An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea

(2011) Daniel McDonald et al.   ISME Journal

Microbial Ecology of the Dark Ocean above, at, and below the Seafloor

(2011) B. N. Orcutt et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Eukaryotic Richness in the Abyss: Insights from Pyrotag Sequencing

(2011) Jan Pawlowski et al.   PLoS One

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Dissolved organic carbon export and subsequent remineralization in the mesopelagic and bathypelagic realms of the North Atlantic basin

(2010) Craig A. Carlson et al.   DEEP-SEA RESEARCH PART II-TOPICAL STUDIES IN OCEANOGRAPHY

UniFrac: an effective distance metric for microbial community comparison

(2010) Catherine Lozupone et al.   ISME Journal

Bacterial diversity in the sediment from polymetallic nodule fields of the Clarion-Clipperton Fracture Zone

(2010) Chun-Sheng Wang et al.   JOURNAL OF MICROBIOLOGY

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

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

Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample

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

Sediment-associated microdiversity within the Marine Group I Crenarchaeota

(2010) Alan M. Durbin et al.   Environmental Microbiology Reports

Infernal 1.0: inference of RNA alignments

(2009) E. P. Nawrocki et al.   BIOINFORMATICS

PyNAST: a flexible tool for aligning sequences to a template alignment

(2009) J. G. Caporaso et al.   BIOINFORMATICS

Bacterial diversity and biogeography in deep-sea surface sediments of the South Atlantic Ocean

(2009) Regina Schauer et al.   ISME Journal

A Method for Studying Protistan Diversity Using Massively Parallel Sequencing of V9 Hypervariable Regions of Small-Subunit Ribosomal RNA Genes

(2009) Linda A. Amaral-Zettler et al.   PLoS One

The genomic basis of trophic strategy in marine bacteria

(2009) F. M. Lauro et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phylogenetic diversity of cyanobacterialnarBgenes from various marine habitats

(2008) Ryan W. Paerl et al.   ENVIRONMENTAL MICROBIOLOGY

Bacterial diversity in the oxygen minimum zone of the eastern tropical South Pacific

(2008) Heike Stevens et al.   ENVIRONMENTAL MICROBIOLOGY

Widespread occurrence and genetic diversity of marine parasitoids belonging toSyndiniales(Alveolata)

(2008) L. Guillou et al.   ENVIRONMENTAL MICROBIOLOGY

Pan-oceanic distribution of new highly diverse clades of deep-sea diplonemids

(2008) Enrique Lara et al.   ENVIRONMENTAL MICROBIOLOGY

Biogenic Origin of Polymetallic Nodules from the Clarion-Clipperton Zone in the Eastern Pacific Ocean: Electron Microscopic and EDX Evidence

(2008) Xiaohong Wang et al.   MARINE BIOTECHNOLOGY

Abyssal food limitation, ecosystem structure and climate change

(2008) C SMITH et al.   TRENDS IN ECOLOGY & EVOLUTION