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Growth Kinetics, Carbon Isotope Fractionation, and Gene Expression in the Hyperthermophile Methanocaldococcus jannaschii during Hydrogen-Limited Growth and Interspecies Hydrogen Transfer

https://doi.org/10.1128/aem.00180-19
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Nickel, cobalt, and molybdenum requirement for growth of Methanobacterium thermoautotrophicum
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Growth parameters (K s, ?max, Y s) of Methanobacterium thermoautotrophicum
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Methanococcus jannaschii sp. nov., an extremely thermophilic methanogen from a submarine hydrothermal vent
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Geochemical and microbiological evidence for a hydrogen-based, hyperthermophilic subsurface lithoautotrophic microbial ecosystem (HyperSLiME) beneath an active deep-sea hydrothermal field
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Multiobjective evolutionary algorithms to identify highly autocorrelated areas: the case of spatial distribution in financially compromised farms
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Microbial community structure analysis of produced water from a high-temperature North Sea oil-field
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Carbon isotope fractionation between dissolved bicarbonate and gaseous carbon dioxide
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Variability in microbial community and venting chemistry in a sediment-hosted backarc hydrothermal system: Impacts of subseafloor phase-separation
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Carbon and hydrogen isotope fractionation by moderately thermophilic methanogens 1 1Associate editor: N. E. Ostrom
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A study on the microbial community structure in oil reservoirs developed by water flooding
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Optimisation of growth conditions for continuous culture of the hyperthermophilic archaeon Thermococcus hydrothermalis and development of sulphur-free defined and minimal media
inferredcites →https://doi.org/10.1016/s0378-1097(01)00112-4openalex-snapshot
TRAM, a predicted RNA-binding domain, common to tRNA uracil methylation and adenine thiolation enzymes
inferredcites →https://doi.org/10.1038/ismej.2007.111openalex-snapshot
Thermodynamic constraints on methanogenic crude oil biodegradation
inferredcites →https://doi.org/10.1038/ismej.2012.60openalex-snapshot
Functional responses of methanogenic archaea to syntrophic growth
inferredcites →https://doi.org/10.1038/nrmicro1931openalex-snapshot
Methanogenic archaea: ecologically relevant differences in energy conservation
inferredcites →https://doi.org/10.1042/bj20021472openalex-snapshot
The unique features of glycolytic pathways in Archaea
inferredcites →https://doi.org/10.1073/pnas.0701157104openalex-snapshot
Functionally distinct genes regulated by hydrogen limitation and growth rate in methanogenic Archaea
inferredcites →https://doi.org/10.1073/pnas.1206632109openalex-snapshot
Hydrogen-limited growth of hyperthermophilic methanogens at deep-sea hydrothermal vents
inferredcites →https://doi.org/10.1073/pnas.97.21.11522openalex-snapshot
A novel p H 2 control on the expression of flagella in the hyperthermophilic strictly hydrogenotrophic methanarchaeaon Methanococcus jannaschii
inferredcites →https://doi.org/10.1074/jbc.m113.530725openalex-snapshot
Engineering Hydrogen Gas Production from Formate in a Hyperthermophile by Heterologous Production of an 18-Subunit Membrane-bound Complex
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Hydrogen production by hyperthermophilic and extremely thermophilic bacteria and archaea: mechanisms for reductant disposal
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STAR: ultrafast universal RNA-seq aligner
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featureCounts: an efficient general purpose program for assigning sequence reads to genomic features
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Thermococcus paralvinellae sp. nov. and Thermococcus cleftensis sp. nov. of hyperthermophilic heterotrophs from deep-sea hydrothermal vents
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DEBrowser: Interactive Differential Expression Analysis and Visualization Tool for Count Data
inferredcites →https://doi.org/10.1111/1462-2920.12181openalex-snapshot
The microbial communities in two apparently physically separated deep subsurface oil reservoirs show extensive DNA sequence similarities
inferredcites →https://doi.org/10.1111/1462-2920.13173openalex-snapshot
Subseafloor microbial communities in hydrogen‐rich vent fluids from hydrothermal systems along the M id‐ C ayman R ise
inferredcites →https://doi.org/10.1111/1462-2920.14011openalex-snapshot
Spatially distinct, temporally stable microbial populations mediate biogeochemical cycling at and below the seafloor in hydrothermal vent fluids
inferredcites →https://doi.org/10.1111/1462-2920.14022openalex-snapshot
Formate hydrogenlyase and formate secretion ameliorate H 2 inhibition in the hyperthermophilic archaeon Thermococcus paralvinellae
inferredcites →https://doi.org/10.1111/1574-6976.12019openalex-snapshot
Microbial syntrophy: interaction for the common good
inferredcites →https://doi.org/10.1111/1758-2229.12065openalex-snapshot
Growth kinetics and energetics of a deep‐sea hyperthermophilic methanogen under varying environmental conditions
inferredcites →https://doi.org/10.1111/j.1365-2486.2005.01076.xopenalex-snapshot
Variation of carbon isotope fractionation in hydrogenotrophic methanogenic microbial cultures and environmental samples at different energy status
inferredcites →https://doi.org/10.1111/j.1462-2920.2006.01211.xopenalex-snapshot
Evidence for hydrothermal Archaea within the basaltic flanks of the East Pacific Rise
inferredcites →https://doi.org/10.1111/j.1462-2920.2011.02463.xopenalex-snapshot
Microbial community structure of hydrothermal deposits from geochemically different vent fields along the Mid‐Atlantic Ridge
inferredcites →https://doi.org/10.1111/j.1462-2920.2012.02721.xopenalex-snapshot
Involvement of thermophilic archaea in the biocorrosion of oil pipelines
inferredcites →https://doi.org/10.1111/j.1758-2229.2011.00279.xopenalex-snapshot
High coverage sequencing of DNA from microorganisms living in an oil reservoir 2.5 kilometres subsurface
inferredcites →https://doi.org/10.1128/aem.36.5.752-754.1978openalex-snapshot
Improved identification of methanogenic bacteria by fluorescence microscopy
inferredcites →https://doi.org/10.1128/aem.62.12.4478-4485.1996openalex-snapshot
Growth Physiology of the Hyperthermophilic Archaeon Thermococcus litoralis: Development of a Sulfur-Free Defined Medium, Characterization of an Exopolysaccharide, and Evidence of Biofilm Formation
inferredcites →https://doi.org/10.1128/aem.66.2.700-711.2000openalex-snapshot
Culture-Dependent and Culture-Independent Characterization of Microbial Assemblages Associated with High-Temperature Petroleum Reservoirs
inferredcites →https://doi.org/10.1128/aem.68.3.1173-1179.2002openalex-snapshot
Differential Expression of Methanogenesis Genes of Methanothermobacter thermoautotrophicus (Formerly Methanobacterium thermoautotrophicum ) in Pure Culture and in Cocultures with Fatty Acid-Oxidizing Syntrophs
inferredcites →https://doi.org/10.1128/aem.69.10.6143-6151.2003openalex-snapshot
Radioisotopic, Culture-Based, and Oligonucleotide Microchip Analyses of Thermophilic Microbial Communities in a Continental High-Temperature Petroleum Reservoir
inferredcites →https://doi.org/10.1128/jb.02141-12openalex-snapshot
Effects of H 2 and Formate on Growth Yield and Regulation of Methanogenesis in Methanococcus maripaludis
inferredcites →https://doi.org/10.1128/jb.179.3.889-898.1997openalex-snapshot
Hydrogen regulation of growth, growth yields, and methane gene transcription in Methanobacterium thermoautotrophicum deltaH
inferredcites →https://doi.org/10.1130/g38601.1openalex-snapshot
Temperature and volume of global marine sediments
inferredcites →https://doi.org/10.1134/s0026261706010115openalex-snapshot
Phylogenetic diversity and activity of anaerobic microorganisms of high-temperature horizons of the Dagang oil field (P. R. China)
inferredcites →https://doi.org/10.1186/gb-2010-11-10-r106openalex-snapshot
Differential expression analysis for sequence count data
inferredcites →https://doi.org/10.1186/gb-2010-11-8-r86openalex-snapshot
Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences
inferredcites →https://doi.org/10.1186/s12864-018-5362-xopenalex-snapshot
DEBrowser: interactive differential expression analysis and visualization tool for count data
inferredcites →https://doi.org/10.1186/s40645-016-0088-3openalex-snapshot
Hydrogen and carbon isotope systematics in hydrogenotrophic methanogenesis under H2-limited and H2-enriched conditions: implications for the origin of methane and its isotopic diagnosis
inferredcites →https://doi.org/10.1214/16-aoas920openalex-snapshot
Robust hyperparameter estimation protects against hypervariable genes and improves power to detect differential expression
inferredcites →https://doi.org/10.1371/journal.pone.0024309openalex-snapshot
Comparative Proteomic Analysis of Methanothermobacter themautotrophicus ΔH in Pure Culture and in Co-Culture with a Butyrate-Oxidizing Bacterium
inferredcites →https://doi.org/10.3389/fmicb.2015.00615openalex-snapshot
The complex relationship between microbial growth rate and yield and its implications for ecosystem processes
inferredcites →https://doi.org/10.3389/fmicb.2016.00167openalex-snapshot
Hydrogen Production and Enzyme Activities in the Hyperthermophile Thermococcus paralvinellae Grown on Maltose, Tryptone, and Agricultural Waste
inferredcites →https://doi.org/10.3389/fmicb.2016.01240openalex-snapshot
Hydrogen Limitation and Syntrophic Growth among Natural Assemblages of Thermophilic Methanogens at Deep-sea Hydrothermal Vents
inferredcites →https://doi.org/10.3389/fmicb.2017.01573openalex-snapshot
Effect of Thermophilic Nitrate Reduction on Sulfide Production in High Temperature Oil Reservoir Samples
inferredcites →https://doi.org/10.4137/mbi.s8516openalex-snapshot
Positive, Neutral and Negative Interactions in Cocultures between Pyrococcus furiosus and Different Methanogenic Archaea
inferredcites →https://doi.org/10.5670/oceanog.2012.18openalex-snapshot
Biogeochemical Processes at Hydrothermal Vents: Microbes and Minerals, Bioenergetics, and Carbon Fluxes

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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Bioenergetic characterization of hyperthermophilic archaean Methanocaldococcus sp. FS406-22
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Recognizing the pathways of microbial methanogenesis through methane isotopologues in the subsurface biosphere
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Lower hydrogen flux leads to larger carbon isotopic fractionation of methane and biomarkers during hydrogenotrophic methanogenesis
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Theoretical estimates of equilibrium carbon and hydrogen isotope effects in microbial methane production and anaerobic oxidation of methane
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Rate limits and isotopologue fractionations for microbial methanogenesis examined with combined pathway protein cost and isotopologue flow network models
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Estimating microbial growth and hydrogen consumption in hydrogen storage in porous media
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Histone variants in archaea – An undiscovered country
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Deep-learning dive into the antimicrobial potential of Archaea
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In Situ Enhancement and Isotopic Labeling of Biogenic Coalbed Methane
inferred← citeshttps://doi.org/10.1038/s41396-019-0382-3openalex-snapshot
Fluid geochemistry, local hydrology, and metabolic activity define methanogen community size and composition in deep-sea hydrothermal vents
inferred← citeshttps://doi.org/10.1038/s41396-021-00971-5openalex-snapshot
The curious consistency of carbon biosignatures over billions of years of Earth-life coevolution
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Reprogramming the metabolism of an acetogenic bacterium to homoformatogenesis
inferred← citeshttps://doi.org/10.1038/s41396-023-01472-3openalex-snapshot
Mcr-dependent methanogenesis in Archaeoglobaceae enriched from a terrestrial hot spring
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Simulated early Earth geochemistry fuels a hydrogen-dependent primordial metabolism
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Dominance of in situ produced particulate organic carbon in a subtropical reservoir inferred from carbon stable isotopes
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Influence of sulfide on diazotrophic growth of the methanogen Methanococcus maripaludis and its implications for the origin of nitrogenase
inferred← citeshttps://doi.org/10.1093/femsmc/xtab002openalex-snapshot
A comprehensive history of motility and Archaellation in Archaea
inferred← citeshttps://doi.org/10.1099/ijsem.0.007098openalex-snapshot
Methanothermococcus jasoni sp. nov., a novel thermophilic methanogen from subseafloor hydrothermal vent fluids of Axial Seamount, Juan de Fuca Ridge
inferred← citeshttps://doi.org/10.1126/sciadv.abm5713openalex-snapshot
Controls on the isotopic composition of microbial methane
inferred← citeshttps://doi.org/10.1128/aem.00292-24openalex-snapshot
Non-thermodynamic factors affect competition between thermophilic chemolithoautotrophs from deep-sea hydrothermal vents
inferred← citeshttps://doi.org/10.1128/aem.00664-26openalex-snapshot
Methanol-specific methyltransferase isozymes have large carbon kinetic isotope effects that impact methane isotopic signatures
inferred← citeshttps://doi.org/10.1128/aem.00849-20openalex-snapshot
Large Hydrogen Isotope Fractionation Distinguishes Nitrogenase-Derived Methane from Other Methane Sources
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Key role of hydrogen in regulating hydrogenases and the reductive TCA cycle in a thermophilic, autotrophic sulfur-reducing bacterium
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Method for automated high performance closed batch cultivation of gas-utilizing methanogens
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Formate and hydrogen in hydrothermal vents and their use by extremely thermophilic methanogens and heterotrophs
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Bio-production d’H2 à haute température chez des modèles de Thermococcales : bases pour des solutions de haute pression optimisées (HPBioHyd)
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