Microbial Diversity and Function in Shallow Subsurface Sediment and Oceanic Lithosphere of the Atlantis Massif

Genomic Evidence for Formate Metabolism by Chloroflexi as the Key to Unlocking Deep Carbon in Lost City Microbial Ecosystems

(2020) Julia M. McGonigle et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Habitability of the marine serpentinite subsurface: a case study of the Lost City hydrothermal field

(2020) Susan Q. Lang et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY A-MATHEMATICAL PHYSICAL AND ENGINEERING SCIENCES

A hydrogen-dependent geochemical analogue of primordial carbon and energy metabolism

(2020) Martina Preiner et al.   Nature Ecology & Evolution

Microbial Residents of the Atlantis Massif’s Shallow Serpentinite Subsurface

(2020) Shahrzad Motamedi et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Recycling and metabolic flexibility dictate life in the lower oceanic crust

(2020) Jiangtao Li et al.   NATURE

Small and mighty: adaptation of superphylum Patescibacteria to groundwater environment drives their genome simplicity

(2020) Renmao Tian et al.   Microbiome

Bacteria and archaea on Earth and their abundance in biofilms

(2019) Hans-Curt Flemming et al.   NATURE REVIEWS MICROBIOLOGY

Atmospheric carbon monoxide oxidation is a widespread mechanism supporting microbial survival

(2019) Paul R. F. Cordero et al.   ISME Journal

Predominance of Cand. Patescibacteria in Groundwater Is Caused by Their Preferential Mobilization From Soils and Flourishing Under Oligotrophic Conditions

(2019) Martina Herrmann et al.   Frontiers in Microbiology

Hydrostatic Pressure Helps to Cultivate an Original Anaerobic Bacterium From the Atlantis Massif Subseafloor (IODP Expedition 357): Petrocella atlantisensis gen. nov. sp. nov.

(2019) Marianne Quéméneur et al.   Frontiers in Microbiology

Controlling for Contaminants in Low-Biomass 16S rRNA Gene Sequencing Experiments

(2019) Lisa Karstens et al.   mSystems

Ecology of Subseafloor Crustal Biofilms

(2019) Gustavo A. Ramírez et al.   Frontiers in Microbiology

Bloom of a denitrifying methanotroph, “Candidatus Methylomirabilis limnetica”, in a deep stratified lake

(2018) Jon S. Graf et al.   ENVIRONMENTAL MICROBIOLOGY

Potential for primary productivity in a globally-distributed bacterial phototroph

(2018) E. D. Graham et al.   ISME Journal

A virus or more in (nearly) every cell: ubiquitous networks of virus–host interactions in extreme environments

(2018) Jacob H. Munson-McGee et al.   ISME Journal

Alteration heterogeneities in peridotites exhumed on the southern wall of the Atlantis Massif (IODP Expedition 357)

(2018) Stéphane Rouméjon et al.   JOURNAL OF PETROLOGY

Microbial decomposition of marine dissolved organic matter in cool oceanic crust

(2018) Sunita R. Shah Walter et al.   Nature Geoscience

Deeply-sourced formate fuels sulfate reducers but not methanogens at Lost City hydrothermal field

(2018) Susan Q. Lang et al.   Scientific Reports

Identification and Removal of Contaminant Sequences From Ribosomal Gene Databases: Lessons From the Census of Deep Life

(2018) Cody S. Sheik et al.   Frontiers in Microbiology

Low Energy Subsurface Environments as Extraterrestrial Analogs

(2018) Rose M. Jones et al.   Frontiers in Microbiology

Magmatism, serpentinization and life: Insights through drilling the Atlantis Massif (IODP Expedition 357)

(2018) Gretchen L. Früh-Green et al.   LITHOS

The biomass and biodiversity of the continental subsurface

(2018) C. Magnabosco et al.   Nature Geoscience

Methyl-compound use and slow growth characterize microbial life in 2-km-deep subseafloor coal and shale beds

(2017) Elizabeth Trembath-Reichert et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Viruses in the Oceanic Basement

(2017) Olivia D. Nigro et al.   mBio

Improved genome recovery and integrated cell-size analyses of individual uncultured microbial cells and viral particles

(2017) Ramunas Stepanauskas et al.   Nature Communications

Influence of Igneous Basement on Deep Sediment Microbial Diversity on the Eastern Juan de Fuca Ridge Flank

(2017) Jessica M. Labonté et al.   Frontiers in Microbiology

Slow Microbial Life in the Seabed

(2016) Bo Barker Jørgensen et al.   Annual Review of Marine Science

BlastKOALA and GhostKOALA: KEGG Tools for Functional Characterization of Genome and Metagenome Sequences

(2016) Minoru Kanehisa et al.   JOURNAL OF MOLECULAR BIOLOGY

DADA2: High-resolution sample inference from Illumina amplicon data

(2016) Benjamin J Callahan et al.   NATURE METHODS

IMG/M: integrated genome and metagenome comparative data analysis system

(2016) I-Min A. Chen et al.   NUCLEIC ACIDS RESEARCH

A distinct and active bacterial community in cold oxygenated fluids circulating beneath the western flank of the Mid-Atlantic ridge

(2016) Julie L. Meyer et al.   Scientific Reports

The physiology and habitat of the last universal common ancestor

(2016) Madeline C. Weiss et al.   Nature Microbiology

Aquifer environment selects for microbial species cohorts in sediment and groundwater

(2015) Laura A Hug et al.   ISME Journal

A metagenomic window into carbon metabolism at 3 km depth in Precambrian continental crust

(2015) Cara Magnabosco et al.   ISME Journal

Carbon fixation by basalt-hosted microbial communities

(2015) Beth N. Orcutt et al.   Frontiers in Microbiology

A modular method for the extraction of DNA and RNA, and the separation of DNA pools from diverse environmental sample types

(2015) Mark A. Lever et al.   Frontiers in Microbiology

VirSorter: mining viral signal from microbial genomic data

(2015) Simon Roux et al.   PeerJ

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

Comparison of Bacterial Diversity in Azorean and Hawai'ian Lava Cave Microbial Mats

(2014) Jennifer J. Marshall Hathaway et al.   GEOMICROBIOLOGY JOURNAL

Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences

(2014) Pablo Yarza et al.   NATURE REVIEWS MICROBIOLOGY

Incomplete Wood-Ljungdahl pathway facilitates one-carbon metabolism in organohalide-respiring Dehalococcoides mccartyi

(2014) W.-Q. Zhuang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Bacterial formate hydrogenlyase complex

(2014) J. S. McDowall et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phylogenetic diversity of microorganisms in subseafloor crustal fluids from Holes 1025C and 1026B along the Juan de Fuca Ridge flank

(2014) Sean P. Jungbluth et al.   Frontiers in Microbiology

Development of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform

(2013) James J. Kozich et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

An improved cell separation technique for marine subsurface sediments: applications for high-throughput analysis using flow cytometry and cell sorting

(2013) Yuki Morono et al.   ENVIRONMENTAL MICROBIOLOGY

Isolation and characterization of humic substances-degrading bacteria from the subarctic Alaska grasslands

(2013) Ha Ju Park et al.   JOURNAL OF BASIC MICROBIOLOGY

Serpentinization, Carbon, and Deep Life

(2013) M. O. Schrenk et al.   Reviews in Mineralogy & Geochemistry

Microbial activity in the marine deep biosphere: progress and prospects

(2013) Beth N. Orcutt et al.   Frontiers in Microbiology

Microbial diversity within basement fluids of the sediment-buried Juan de Fuca Ridge flank

(2012) Sean P Jungbluth et al.   ISME Journal

Metagenomic Evidence for H2 Oxidation and H2 Production by Serpentinite-Hosted Subsurface Microbial Communities

(2012) William J. Brazelton et al.   Frontiers in Microbiology

Vertical stratification of subsurface microbial community composition across geological formations at the Hanford Site

(2011) Xueju Lin et al.   ENVIRONMENTAL MICROBIOLOGY

New cell extraction procedure applied to deep subsurface sediments

(2011) Jens Kallmeyer et al.   LIMNOLOGY AND OCEANOGRAPHY-METHODS

Physiological Differentiation within a Single-Species Biofilm Fueled by Serpentinization

(2011) W. J. Brazelton et al.   mBio

Serpentinization as a source of energy at the origin of life

(2010) M. J. RUSSELL et al.   Geobiology

Tapping the Subsurface Ocean Crust Biosphere: Low Biomass and Drilling-Related Contamination Calls for Improved Quality Controls

(2010) Cara M. Santelli et al.   GEOMICROBIOLOGY JOURNAL

Multiple displacement amplification compromises quantitative analysis of metagenomes

(2010) Suzan Yilmaz et al.   NATURE METHODS

First Investigation of the Microbiology of the Deepest Layer of Ocean Crust

(2010) Olivia U. Mason et al.   PLoS One

Metagenomic Comparison of Two Thiomicrospira Lineages Inhabiting Contrasting Deep-Sea Hydrothermal Environments

(2010) William J. Brazelton et al.   PLoS One

Archaea and bacteria with surprising microdiversity show shifts in dominance over 1,000-year time scales in hydrothermal chimneys

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

Elevated concentrations of formate, acetate and dissolved organic carbon found at the Lost City hydrothermal field

(2009) Susan Q. Lang et al.   GEOCHIMICA ET COSMOCHIMICA ACTA

Abiogenic Hydrocarbon Production at Lost City Hydrothermal Field

(2008) G. Proskurowski et al.   SCIENCE