The Dark Side of the Mushroom Spring Microbial Mat: Life in the Shadow of Chlorophototrophs. II. Metabolic Functions of Abundant Community Members Predicted from Metagenomic Analyses

In SituHydrogen Dynamics in a Hot Spring Microbial Mat during a Diel Cycle

(2016) Niels Peter Revsbech et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The Origin of Life in Alkaline Hydrothermal Vents

(2016) Victor Sojo et al.   ASTROBIOLOGY

Caldimicrobium thiodismutans sp. nov., a sulfur-disproportionating bacterium isolated from a hot spring, and emended description of the genus Caldimicrobium

(2016) Hisaya Kojima et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Characterization and Genome Analysis of the First Facultatively Alkaliphilic Thermodesulfovibrio Isolated from the Deep Terrestrial Subsurface

(2016) Yulia A. Frank et al.   Frontiers in Microbiology

The Dark Side of the Mushroom Spring Microbial Mat: Life in the Shadow of Chlorophototrophs. I. Microbial Diversity Based on 16S rRNA Gene Amplicons and Metagenomic Sequencing

(2016) Vera Thiel et al.   Frontiers in Microbiology

The physiology and habitat of the last universal common ancestor

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

JSpeciesWS: a web server for prokaryotic species circumscription based on pairwise genome comparison

(2015) Michael Richter et al.   BIOINFORMATICS

CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes

(2015) Donovan H. Parks et al.   GENOME RESEARCH

Chloracidobacterium thermophilum gen. nov., sp. nov.: an anoxygenic microaerophilic chlorophotoheterotrophic acidobacterium

(2015) M. Tank et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Proteorhodopsin light-enhanced growth linked to vitamin-B1 acquisition in marine Flavobacteria

(2015) Laura Gómez-Consarnau et al.   ISME Journal

Characterization of an Unconventional Rhodopsin from the Freshwater Actinobacterium Rhodoluna lacicola

(2015) J. L. Keffer et al.   JOURNAL OF BACTERIOLOGY

Diel metabolomics analysis of a hot spring chlorophototrophic microbial mat leads to new hypotheses of community member metabolisms

(2015) Young-Mo Kim et al.   Frontiers in Microbiology

Microsensor measurements of hydrogen gas dynamics in cyanobacterial microbial mats

(2015) Michael Nielsen et al.   Frontiers in Microbiology

The molecular dimension of microbial species: 2. Synechococcus strains representative of putative ecotypes inhabiting different depths in the Mushroom Spring microbial mat exhibit different adaptive and acclimative responses to light

(2015) Shane Nowack et al.   Frontiers in Microbiology

The molecular dimension of microbial species: 1. Ecological distinctions among, and homogeneity within, putative ecotypes of Synechococcus inhabiting the cyanobacterial mat of Mushroom Spring, Yellowstone National Park

(2015) Eric D. Becraft et al.   Frontiers in Microbiology

Nutrient requirements and growth physiology of the photoheterotrophic Acidobacterium, Chloracidobacterium thermophilum

(2015) Marcus Tank et al.   Frontiers in Microbiology

The molecular dimension of microbial species: 3. Comparative genomics of Synechococcus strains with different light responses and in situ diel transcription patterns of associated putative ecotypes in the Mushroom Spring microbial mat

(2015) Millie T. Olsen et al.   Frontiers in Microbiology

Genomic resolution of linkages in carbon, nitrogen, and sulfur cycling among widespread estuary sediment bacteria

(2015) Brett J Baker et al.   Microbiome

Chemolithotrophic growth of the aerobic hyperthermophilic bacteriumThermocrinis ruberOC 14/7/2 on monothioarsenate and arsenite

(2014) Cornelia Härtig et al.   FEMS MICROBIOLOGY ECOLOGY

Phylogenetic and environmental diversity of DsrAB-type dissimilatory (bi)sulfite reductases

(2014) Albert Leopold Müller et al.   ISME Journal

CDD: NCBI's conserved domain database

(2014) Aron Marchler-Bauer et al.   NUCLEIC ACIDS RESEARCH

Cyanobacterial Light-Driven Proton Pump, Gloeobacter Rhodopsin: Complementarity between Rhodopsin-Based Energy Production and Photosynthesis

(2014) Ah Reum Choi et al.   PLoS One

AmphoraNet: The webserver implementation of the AMPHORA2 metagenomic workflow suite

(2013) Csaba Kerepesi et al.   GENE

Temporal metatranscriptomic patterning in phototrophic Chloroflexi inhabiting a microbial mat in a geothermal spring

(2013) Christian G Klatt et al.   ISME Journal

The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST)

(2013) Ross Overbeek et al.   NUCLEIC ACIDS RESEARCH

Single-cell and metagenomic analyses indicate a fermentative and saccharolytic lifestyle for members of the OP9 lineage

(2013) Jeremy A. Dodsworth et al.   Nature Communications

Community Structure and Function of High-Temperature Chlorophototrophic Microbial Mats Inhabiting Diverse Geothermal Environments

(2013) Christian G. Klatt et al.   Frontiers in Microbiology

Identification and Distribution of High-Abundance Proteins in the Octopus Spring Microbial Mat Community

(2012) Courtney S. Schaffert et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

‘Candidatus Thermochlorobacter aerophilum:’ an aerobic chlorophotoheterotrophic member of the phylum Chlorobi defined by metagenomics and metatranscriptomics

(2012) Zhenfeng Liu et al.   ISME Journal

Diversification of Bacterial Community Composition along a Temperature Gradient at a Thermal Spring

(2012) R. Craig Everroad et al.   MICROBES AND ENVIRONMENTS

The Emergence and Early Evolution of Biological Carbon-Fixation

(2012) Rogier Braakman et al.   PLoS Computational Biology

Widespread Occurrence of Two Carbon Fixation Pathways in Tubeworm Endosymbionts: Lessons from Hydrothermal Vent Associated Tubeworms from the Mediterranean Sea

(2012) Vera Thiel et al.   Frontiers in Microbiology

Fine-Scale Distribution Patterns of Synechococcus Ecological Diversity in Microbial Mats of Mushroom Spring, Yellowstone National Park

(2011) Eric D. Becraft et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Coassimilation of Organic Substrates via the Autotrophic 3-Hydroxypropionate Bi-Cycle in Chloroflexus aurantiacus

(2011) Jan Zarzycki et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Complete genome of Candidatus Chloracidobacterium thermophilum, a chlorophyll-based photoheterotroph belonging to the phylum Acidobacteria

(2011) Amaya M. Garcia Costas et al.   ENVIRONMENTAL MICROBIOLOGY

Community ecology of hot spring cyanobacterial mats: predominant populations and their functional potential

(2011) Christian G Klatt et al.   ISME Journal

Metatranscriptomic analyses of chlorophototrophs of a hot-spring microbial mat

(2011) Zhenfeng Liu et al.   ISME Journal

Identification of the Bacteriochlorophylls, Carotenoids, Quinones, Lipids, and Hopanoids of "Candidatus Chloracidobacterium thermophilum"

(2011) A. M. Garcia Costas et al.   JOURNAL OF BACTERIOLOGY

Carbon Metabolic Pathways in Phototrophic Bacteria and Their Broader Evolutionary Implications

(2011) Kuo-Hsiang Tang et al.   Frontiers in Microbiology

Beyond the Calvin Cycle: Autotrophic Carbon Fixation in the Ocean

(2010) Michael Hügler et al.   Annual Review of Marine Science

Alternative Pathways of Carbon Dioxide Fixation: Insights into the Early Evolution of Life?

(2010) Georg Fuchs   Annual Review of Microbiology

Identification of a Novel Class of Membrane-Bound [NiFe]-Hydrogenases in Thermococcus onnurineus NA1 by In Silico Analysis

(2010) J. K. Lim et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Cultivation and Genomic, Nutritional, and Lipid Biomarker Characterization of Roseiflexus Strains Closely Related to Predominant In Situ Populations Inhabiting Yellowstone Hot Spring Microbial Mats

(2010) M. T. J. van der Meer et al.   JOURNAL OF BACTERIOLOGY

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

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

The Evolution and Function of Carotenoid Hydroxylases in Arabidopsis

(2009) Joonyul Kim et al.   PLANT AND CELL PHYSIOLOGY

Identifying the missing steps of the autotrophic 3-hydroxypropionate CO2fixation cycle inChloroflexus aurantiacus

(2009) Jan Zarzycki et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Community-wide analysis of microbial genome sequence signatures

(2009) Gregory J Dick et al.   GENOME BIOLOGY

Xanthorhodopsin: A bacteriorhodopsin-like proton pump with a carotenoid antenna

(2008) Janos K. Lanyi et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

Acetogenesis and the Wood–Ljungdahl pathway of CO2 fixation

(2008) Stephen W. Ragsdale et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

The RAST Server: Rapid Annotations using Subsystems Technology

(2008) Ramy K Aziz et al.   BMC GENOMICS

Regulation of nif gene expression and the energetics of N2 fixation over the diel cycle in a hot spring microbial mat

(2008) Anne-Soisig Steunou et al.   ISME Journal

Sulfidogenesis under extremely haloalkaline conditions by Desulfonatronospira thiodismutans gen. nov., sp. nov., and Desulfonatronospira delicata sp. nov. - a novel lineage of Deltaproteobacteria from hypersaline soda lakes

(2008) D. Yu. Sorokin et al.   MICROBIOLOGY-SGM

CDD: specific functional annotation with the Conserved Domain Database

(2008) A. Marchler-Bauer et al.   NUCLEIC ACIDS RESEARCH