Calculation of total free energy yield as an alternative approach for predicting the importance of potential chemolithotrophic reactions in geothermal springs
|
journal
|
April 2012 |
The H 2 O 2 Stimulon in Saccharomyces cerevisiae
|
journal
|
August 1998 |
Archaeal and bacterial diversity in acidic to circumneutral hot springs in the Philippines
|
journal
|
May 2013 |
Genomic inference of the metabolism and evolution of the archaeal phylum Aigarchaeota
|
journal
|
July 2018 |
Principal Biogeochemical Factors Affecting the Speciation And Transport of Mercury through the terrestrial environment
|
journal
|
December 2004 |
RTK: efficient rarefaction analysis of large datasets
|
journal
|
April 2017 |
Evaluation method for the potential functionome harbored in the genome and metagenome
|
journal
|
January 2012 |
Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
|
journal
|
August 2017 |
KEGG: Kyoto Encyclopedia of Genes and Genomes
|
journal
|
January 2000 |
Development of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform
|
journal
|
June 2013 |
Adaptations to energy stress dictate the ecology and evolution of the Archaea
|
journal
|
March 2007 |
The bioenergetic basis for the decrease in metabolic diversity at increasing salt concentrations: implications for the functioning of salt lake ecosystems
|
journal
|
December 2001 |
Phylogenetic organization of bacterial activity
|
journal
|
March 2016 |
A Comprehensive Census of Microbial Diversity in Hot Springs of Tengchong, Yunnan Province China Using 16S rRNA Gene Pyrosequencing
|
journal
|
January 2013 |
Glycolytic strategy as a tradeoff between energy yield and protein cost
|
journal
|
April 2013 |
KEGG for integration and interpretation of large-scale molecular data sets
|
journal
|
November 2011 |
Uncultivated thermophiles: current status and spotlight on ‘Aigarchaeota’
|
journal
|
June 2015 |
Prodigal: prokaryotic gene recognition and translation initiation site identification
|
journal
|
March 2010 |
MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities
|
journal
|
January 2015 |
Microbial biogeography of 925 geothermal springs in New Zealand
|
journal
|
July 2018 |
A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life
|
journal
|
August 2018 |
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
|
journal
|
May 2015 |
Quantitative Microbial Ecology through Stable Isotope Probing
|
journal
|
August 2015 |
Nitrification expanded: discovery, physiology and genomics of a nitrite-oxidizing bacterium from the phylum Chloroflexi
|
journal
|
July 2012 |
Metabolic Network Fluxes in Heterotrophic Arabidopsis Cells: Stability of the Flux Distribution under Different Oxygenation Conditions
|
journal
|
July 2008 |
Humboldt’s spa: microbial diversity is controlled by temperature in geothermal environments
|
journal
|
January 2014 |
Coordinating Environmental Genomics and Geochemistry Reveals Metabolic Transitions in a Hot Spring Ecosystem
|
journal
|
June 2012 |
SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes
|
journal
|
May 2012 |
Tracking microbial interactions with NanoSIMS
|
journal
|
October 2016 |
MAPLE 2.3.0: an improved system for evaluating the functionomes of genomes and metagenomes
|
journal
|
May 2018 |
Using metabolic tracer techniques to assess the impact of tillage and straw management on microbial carbon use efficiency in soil
|
journal
|
November 2013 |
The carbohydrate-active enzymes database (CAZy) in 2013
|
journal
|
November 2013 |
An actin-based cytoskeleton in archaea: An archaeal cytoskeleton
|
journal
|
April 2011 |
Structure and function of the global ocean microbiome
|
journal
|
May 2015 |
Genomic Comparison of Two Family-Level Groups of the Uncultivated NAG1 Archaeal Lineage from Chemically and Geographically Disparate Hot Springs
|
journal
|
October 2017 |
Fructose 1,6-bisphosphate aldolase/phosphatase may be an ancestral gluconeogenic enzyme
|
journal
|
March 2010 |
COMPLETE-MFA: Complementary parallel labeling experiments technique for metabolic flux analysis
|
journal
|
November 2013 |
Probing carbon flux patterns through soil microbial metabolic networks using parallel position-specific tracer labeling
|
journal
|
January 2011 |
pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree
|
journal
|
October 2010 |
Data quality aware analysis of differential expression in RNA-seq with NOISeq R/Bioc package
|
journal
|
July 2015 |
Insights into the phylogeny and coding potential of microbial dark matter
|
journal
|
July 2013 |
Profile hidden Markov models
|
journal
|
October 1998 |
13C-based metabolic flux analysis
|
journal
|
May 2009 |
High carbon use efficiency in soil microbial communities is related to balanced growth, not storage compound synthesis
|
journal
|
October 2015 |
Dynamic rerouting of the carbohydrate flux is key to counteracting oxidative stress
|
journal
|
January 2007 |
Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies
|
journal
|
May 2017 |
Metabolic control of resistance of human epithelial cells to H2O2 and NO stresses
|
journal
|
June 2002 |
Photosynthate partitioning and fermentation in hot spring microbial mat communities.
|
journal
|
January 1996 |
Insights into the evolution of Archaea and eukaryotic protein modifier systems revealed by the genome of a novel archaeal group
|
journal
|
December 2010 |
Effect of temperature on metabolic activity of intact microbial communities: Evidence for altered metabolic pathway activity but not for increased maintenance respiration and reduced carbon use efficiency
|
journal
|
October 2011 |
A thermodynamically based correlation for maintenance gibbs energy requirements in aerobic and anaerobic chemotrophic growth
|
journal
|
August 1993 |
Carbohydrate Metabolism in Archaea: Current Insights into Unusual Enzymes and Pathways and Their Regulation
|
journal
|
March 2014 |
Cultivation of a thermophilic ammonia oxidizing archaeon synthesizing crenarchaeol
|
journal
|
March 2008 |
KEGG: new perspectives on genomes, pathways, diseases and drugs
|
journal
|
November 2016 |
Differential expression in RNA-seq: A matter of depth
|
journal
|
September 2011 |
An automated system for evaluation of the potential functionome: MAPLE version 2.1.0
|
journal
|
July 2016 |
Stable isotope labeling confirms mixotrophic nature of streamer biofilm communities at alkaline hot springs
|
journal
|
February 2015 |
Diel metabolomics analysis of a hot spring chlorophototrophic microbial mat leads to new hypotheses of community member metabolisms
|
journal
|
April 2015 |
Genomic resolution of linkages in carbon, nitrogen, and sulfur cycling among widespread estuary sediment bacteria
|
journal
|
April 2015 |
Spatial and temporal variability of biomarkers and microbial diversity reveal metabolic and community flexibility in Streamer Biofilm Communities in the Lower Geyser Basin, Yellowstone National Park
|
journal
|
August 2013 |
Single-Cell-Genomics-Facilitated Read Binning of Candidate Phylum EM19 Genomes from Geothermal Spring Metagenomes
|
journal
|
December 2015 |
Community Microrespirometry and Molecular Analyses Reveal a Diverse Energy Economy in Great Boiling Spring and Sandy's Spring West in the U.S. Great Basin
|
journal
|
March 2013 |
A Greedy Algorithm for Aligning DNA Sequences
|
journal
|
February 2000 |
Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences
|
journal
|
August 2014 |
The SILVA and “All-species Living Tree Project (LTP)” taxonomic frameworks
|
journal
|
November 2013 |
Ammonia oxidation, denitrification and dissimilatory nitrate reduction to ammonium in two US Great Basin hot springs with abundant ammonia-oxidizing archaea: N-cycling in Great Basin hot springs
|
journal
|
June 2011 |
dbCAN: a web resource for automated carbohydrate-active enzyme annotation
|
journal
|
May 2012 |
Modeling soil metabolic processes using isotopologue pairs of position-specific 13C-labeled glucose and pyruvate
|
journal
|
September 2011 |
Synergy between 13C-metabolic flux analysis and flux balance analysis for understanding metabolic adaption to anaerobiosis in E. coli
|
journal
|
January 2011 |
Thermodynamic limits to microbial life at high salt concentrations: Thermodynamic limits to halophilic life
|
journal
|
November 2010 |
Formation and Fate of Fermentation Products in Hot Spring Cyanobacterial Mats
|
journal
|
January 1987 |
A Universal Framework for 13C Metabolic Flux Analysis
|
journal
|
July 2001 |
phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data
|
journal
|
April 2013 |
Detecting metabolic activities in single cells, with emphasis on nanoSIMS
|
journal
|
March 2012 |
Sediment microbial communities in Great Boiling Spring are controlled by temperature and distinct from water communities
|
journal
|
December 2012 |
Cultivation and characterization of thermophilic Nitrospira species from geothermal springs in the US Great Basin, China, and Armenia
|
journal
|
April 2013 |
Growth Temperature and Genome Size in Bacteria Are Negatively Correlated, Suggesting Genomic Streamlining During Thermal Adaptation
|
journal
|
April 2013 |
New insights into short-chain prenyltransferases: structural features, evolutionary history and potential for selective inhibition
|
journal
|
July 2009 |
Microbiology and geochemistry of great boiling and mud hot springs in the United States Great Basin
|
journal
|
February 2009 |
In situ analysis of nitrogen fixation and metabolic switching in unicellular thermophilic cyanobacteria inhabiting hot spring microbial mats
|
journal
|
February 2006 |
Thermoflexus hugenholtzii gen. nov., sp. nov., a thermophilic, microaerophilic, filamentous bacterium representing a novel class in the Chloroflexi, Thermoflexia classis nov., and description of Thermoflexaceae fam. nov. and Thermoflexales ord. nov.
|
journal
|
March 2014 |
Accelerated microbial turnover but constant growth efficiency with warming in soil
|
journal
|
September 2014 |
Accelerated Profile HMM Searches
|
journal
|
October 2011 |
The standard operating procedure of the DOE-JGI Metagenome Annotation Pipeline (MAP v.4)
|
journal
|
February 2016 |
Database indexing for production MegaBLAST searches
|
journal
|
June 2008 |
Single-cell and metagenomic analyses indicate a fermentative and saccharolytic lifestyle for members of the OP9 lineage
|
journal
|
May 2013 |
Global metagenomic survey reveals a new bacterial candidate phylum in geothermal springs
|
journal
|
January 2016 |
BLAST+: architecture and applications
|
journal
|
January 2009 |
Temporal metatranscriptomic patterning in phototrophic Chloroflexi inhabiting a microbial mat in a geothermal spring
|
journal
|
April 2013 |
High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries
|
journal
|
November 2018 |
Moderately thermophilic nitrifying bacteria from a hot spring of the Baikal rift zone
|
journal
|
October 2005 |
The transition to microbial photosynthesis in hot spring ecosystems
|
journal
|
January 2011 |
Modeling the Habitat Range of Phototrophs in Yellowstone National Park: Toward the Development of a Comprehensive Fitness Landscape
|
journal
|
January 2012 |
Integration of Metagenomic and Stable Carbon Isotope Evidence Reveals the Extent and Mechanisms of Carbon Dioxide Fixation in High-Temperature Microbial Communities
|
journal
|
February 2017 |
IMG/M v.5.0: an integrated data management and comparative analysis system for microbial genomes and microbiomes
|
journal
|
October 2018 |
Temperature dependence of metabolic rates for microbial growth, maintenance, and survival
|
journal
|
March 2004 |
A Deeply Branching Thermophilic Bacterium with an Ancient Acetyl-CoA Pathway Dominates a Subsurface Ecosystem
|
journal
|
January 2012 |
Life at High Temperatures: Evolutionary, ecological, and biochemical significance of organisms living in hot springs is discussed
|
journal
|
November 1967 |
Ecophysiology of an uncultivated lineage of Aigarchaeota from an oxic, hot spring filamentous ‘streamer’ community
|
journal
|
July 2015 |
NCBI BLAST+ integrated into Galaxy
|
journal
|
August 2015 |
A thermodynamically based correlation for maintenance gibbs energy requirements in aerobic and anaerobic chemotrophic growth
|
journal
|
August 1993 |
Bacteroides humanifaecis sp. nov., isolated from faeces of healthy Korean
|
journal
|
June 2022 |
Salinimonas marina sp. nov. Isolated from Jeju Island Marine Sediment
|
journal
|
June 2021 |
Evidence for an association of interferon gene variants with sudden infant death syndrome
|
journal
|
January 2019 |
Microbiology and geochemistry of great boiling and mud hot springs in the United States Great Basin
|
journal
|
February 2009 |
Principal Biogeochemical Factors Affecting the Speciation And Transport of Mercury through the terrestrial environment
|
journal
|
December 2004 |
Biosorption of Cr(VI) by Halomonas sp. DK4, a halotolerant bacterium isolated from chrome electroplating sludge
|
journal
|
July 2019 |
Tracking microbial interactions with NanoSIMS
|
journal
|
October 2016 |
Moderately thermophilic nitrifying bacteria from a hot spring of the Baikal rift zone
|
journal
|
October 2005 |
Uncultivated thermophiles: current status and spotlight on ‘Aigarchaeota’
|
journal
|
June 2015 |
Probing carbon flux patterns through soil microbial metabolic networks using parallel position-specific tracer labeling
|
journal
|
January 2011 |
Modeling soil metabolic processes using isotopologue pairs of position-specific 13C-labeled glucose and pyruvate
|
journal
|
September 2011 |
Effect of temperature on metabolic activity of intact microbial communities: Evidence for altered metabolic pathway activity but not for increased maintenance respiration and reduced carbon use efficiency
|
journal
|
October 2011 |
Using metabolic tracer techniques to assess the impact of tillage and straw management on microbial carbon use efficiency in soil
|
journal
|
November 2013 |
High carbon use efficiency in soil microbial communities is related to balanced growth, not storage compound synthesis
|
journal
|
October 2015 |
Synergy between 13C-metabolic flux analysis and flux balance analysis for understanding metabolic adaption to anaerobiosis in E. coli
|
journal
|
January 2011 |
COMPLETE-MFA: Complementary parallel labeling experiments technique for metabolic flux analysis
|
journal
|
November 2013 |
Humboldt’s spa: microbial diversity is controlled by temperature in geothermal environments
|
journal
|
January 2014 |
Temporal metatranscriptomic patterning in phototrophic Chloroflexi inhabiting a microbial mat in a geothermal spring
|
journal
|
April 2013 |
Ecophysiology of an uncultivated lineage of Aigarchaeota from an oxic, hot spring filamentous ‘streamer’ community
|
journal
|
July 2015 |
Phylogenetic organization of bacterial activity
|
journal
|
March 2016 |
Fructose 1,6-bisphosphate aldolase/phosphatase may be an ancestral gluconeogenic enzyme
|
journal
|
March 2010 |
Insights into the phylogeny and coding potential of microbial dark matter
|
journal
|
July 2013 |
Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
|
journal
|
August 2017 |
Accelerated microbial turnover but constant growth efficiency with warming in soil
|
journal
|
September 2014 |
Global metagenomic survey reveals a new bacterial candidate phylum in geothermal springs
|
journal
|
January 2016 |
13C-based metabolic flux analysis
|
journal
|
May 2009 |
Adaptations to energy stress dictate the ecology and evolution of the Archaea
|
journal
|
March 2007 |
Genomic inference of the metabolism and evolution of the archaeal phylum Aigarchaeota
|
journal
|
July 2018 |
High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries
|
journal
|
November 2018 |
Red versus green leaves: transcriptomic comparison of foliar senescence between two Prunus cerasifera genotypes
|
journal
|
February 2020 |
Metabolic control of resistance of human epithelial cells to H2O2 and NO stresses
|
journal
|
June 2002 |
Temperature dependence of metabolic rates for microbial growth, maintenance, and survival
|
journal
|
March 2004 |
In situ analysis of nitrogen fixation and metabolic switching in unicellular thermophilic cyanobacteria inhabiting hot spring microbial mats
|
journal
|
February 2006 |
MAPLE 2.3.0: an improved system for evaluating the functionomes of genomes and metagenomes
|
journal
|
May 2018 |
Profile hidden Markov models
|
journal
|
October 1998 |
Database indexing for production MegaBLAST searches
|
journal
|
June 2008 |
SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes
|
journal
|
May 2012 |
RTK: efficient rarefaction analysis of large datasets
|
journal
|
April 2017 |
An automated system for evaluation of the potential functionome: MAPLE version 2.1.0
|
journal
|
July 2016 |
Growth Temperature and Genome Size in Bacteria Are Negatively Correlated, Suggesting Genomic Streamlining During Thermal Adaptation
|
journal
|
April 2013 |
KEGG for integration and interpretation of large-scale molecular data sets
|
journal
|
November 2011 |
The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
|
journal
|
November 2012 |
dbCAN: a web resource for automated carbohydrate-active enzyme annotation
|
journal
|
May 2012 |
IMG/M v.5.0: an integrated data management and comparative analysis system for microbial genomes and microbiomes
|
journal
|
October 2018 |
Thermoflexus hugenholtzii gen. nov., sp. nov., a thermophilic, microaerophilic, filamentous bacterium representing a novel class in the Chloroflexi, Thermoflexia classis nov., and description of Thermoflexaceae fam. nov. and Thermoflexales ord. nov.
|
journal
|
September 2014 |
Differential expression in RNA-seq: A matter of depth
|
journal
|
September 2011 |
Metabolic Network Fluxes in Heterotrophic Arabidopsis Cells: Stability of the Flux Distribution under Different Oxygenation Conditions
|
journal
|
July 2008 |
Cultivation and characterization of thermophilic Nitrospira species from geothermal springs in the US Great Basin, China, and Armenia
|
journal
|
April 2013 |
Archaeal and bacterial diversity in acidic to circumneutral hot springs in the Philippines
|
journal
|
May 2013 |
Cultivation of a thermophilic ammonia oxidizing archaeon synthesizing crenarchaeol
|
journal
|
March 2008 |
Ammonia oxidation, denitrification and dissimilatory nitrate reduction to ammonium in two US Great Basin hot springs with abundant ammonia-oxidizing archaea: N-cycling in Great Basin hot springs
|
journal
|
June 2011 |
Structure and function of the global ocean microbiome
|
journal
|
May 2015 |
Functional-Genomics-Based Identification and Characterization of Open Reading Frames Encoding α-Glucoside-Processing Enzymes in the Hyperthermophilic Archaeon Pyrococcus furiosus
|
journal
|
December 2007 |
Oxygen- and Glucose-Dependent Regulation of Central Carbon Metabolism in Pichia anomala
|
journal
|
October 2004 |
Network Identification and Flux Quantification in the Central Metabolism of Saccharomyces cerevisiae under Different Conditions of Glucose Repression
|
journal
|
February 2001 |
BLAST+: architecture and applications
|
journal
|
January 2009 |
Prodigal: prokaryotic gene recognition and translation initiation site identification
|
journal
|
March 2010 |
Evaluation method for the potential functionome harbored in the genome and metagenome
|
journal
|
January 2012 |
Genomic resolution of linkages in carbon, nitrogen, and sulfur cycling among widespread estuary sediment bacteria
|
journal
|
April 2015 |
Accelerated Profile HMM Searches
|
journal
|
October 2011 |
Coordinating Environmental Genomics and Geochemistry Reveals Metabolic Transitions in a Hot Spring Ecosystem
|
journal
|
June 2012 |
A Comprehensive Census of Microbial Diversity in Hot Springs of Tengchong, Yunnan Province China Using 16S rRNA Gene Pyrosequencing
|
journal
|
January 2013 |
Stable isotope labeling confirms mixotrophic nature of streamer biofilm communities at alkaline hot springs
|
journal
|
February 2015 |
Diel metabolomics analysis of a hot spring chlorophototrophic microbial mat leads to new hypotheses of community member metabolisms
|
journal
|
April 2015 |
Integration of Metagenomic and Stable Carbon Isotope Evidence Reveals the Extent and Mechanisms of Carbon Dioxide Fixation in High-Temperature Microbial Communities
|
journal
|
February 2017 |
Genomic Comparison of Two Family-Level Groups of the Uncultivated NAG1 Archaeal Lineage from Chemically and Geographically Disparate Hot Springs
|
journal
|
October 2017 |
pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree
|
preprint
|
January 2010 |
MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities
|
journal
|
January 2015 |
MAPLE 2.3.0: an improved system for evaluating the functionomes of genomes and metagenomes
|
dataset
|
January 2018 |