ArticleJournal of bacteriology2004
Complete genome sequence of the genetically tractable hydrogenotrophic methanogen Methanococcus maripaludis.
Article in Journal of bacteriology, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 96 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
96 citing papers in PubMed, 218 citations in OpenAlex.
- Article
- In Vivo Enzyme Catalytic Rates in Formate-Growing Methanococcus maripaludis.Microbial biotechnology · 2026Article
- Functional conservation with mechanistic drift: AMP activation in the evolution of archaeal sugar kinases.Molecular biology and evolution · 2026Article
- Whole-cell modeling predicts alternative proteome allocation strategies in the archaeon Methanococcus maripaludis.Scientific reports · 2026Article
- Membrane changes during syntrophic interactions of an archaeal-bacterial coculture.BMC microbiology · 2025Article
- Evolution, structure and function of L-cysteine desulfidase, an enzyme involved in sulfur metabolism in the methanogenic archeon Methanococcus maripaludis.Communications biology · 2025Article
- From genes to Black Rust: genomic insights into corrosive methanogens.FEMS microbes · 2025Article
- Article
- Origin of biogeographically distinct ecotypes during laboratory evolution.Nature communications · 2024Article
- Functionally redundant formate dehydrogenases enable formate-dependent growth in Methanococcus maripaludis.The Journal of biological chemistry · 2024Article
- Expression of V-nitrogenase and Fe-nitrogenase inApplied and environmental microbiology · 2023Article
- Random transposon mutagenesis identifies genes essential for transformation in Methanococcus maripaludis.Molecular genetics and genomics : MGG · 2023Article
- Engineering nonphotosynthetic carbon fixation for production of bioplastics by methanogenic archaea.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- tRNAscan-SE 2.0: improved detection and functional classification of transfer RNA genes.Nucleic acids research · 2021Article
- The Oligosaccharyltransferase AglB Supports Surface-Associated Growth and Iron Oxidation in Methanococcus maripaludis.Applied and environmental microbiology · 2021Article
- Early response of methanogenic archaea to HMicrobial cell factories · 2021Article
- Review
- Using genome comparisons of wild-type and resistant mutants ofAccess microbiology · 2021Article
- Growth Coordination Between Butyrate-Oxidizing Syntrophs and Hydrogenotrophic Methanogens.Frontiers in microbiology · 2021Article
- Type IV-Like Pili Facilitate Transformation in Naturally Competent Archaea.Journal of bacteriology · 2020Article
36 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
31 authors at 8 institutions in 3 countries.
Funding
Abstract
The genome sequence of the genetically tractable, mesophilic, hydrogenotrophic methanogen Methanococcus maripaludis contains 1,722 protein-coding genes in a single circular chromosome of 1,661,137 bp. Of the protein-coding genes (open reading frames [ORFs]), 44% were assigned a function, 48% were conserved but had unknown or uncertain functions, and 7.5% (129 ORFs) were unique to M. maripaludis. Of the unique ORFs, 27 were confirmed to encode proteins by the mass spectrometric identification of unique peptides. Genes for most known functions and pathways were identified. For example, a full complement of hydrogenases and methanogenesis enzymes was identified, including eight selenocysteine-containing proteins, with each being paralogous to a cysteine-containing counterpart. At least 59 proteins were predicted to contain iron-sulfur centers, including ferredoxins, polyferredoxins, and subunits of enzymes with various redox functions. Unusual features included the absence of a Cdc6 homolog, implying a variation in replication initiation, and the presence of a bacterial-like RNase HI as well as an RNase HII typical of the Archaea. The presence of alanine dehydrogenase and alanine racemase, which are uniquely present among the Archaea, explained the ability of the organism to use L- and D-alanine as nitrogen sources. Features that contrasted with the related organism Methanocaldococcus jannaschii included the absence of inteins, even though close homologs of most intein-containing proteins were encoded. Although two-thirds of the ORFs had their highest Blastp hits in Methanocaldococcus jannaschii, lateral gene transfer or gene loss has apparently resulted in genes, which are often clustered, with top Blastp hits in more distantly related groups.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.