ArticleBMC genomics2019
Complete genome sequence analysis of the thermoacidophilic verrucomicrobial methanotroph "Candidatus Methylacidiphilum kamchatkense" strain Kam1 and comparison with its closest relatives.
Article in BMC genomics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- Ammonia monooxygenase: a work in progress.Chemical science · 2026Review
- Linking microbes toFrontiers in microbiology · 2026Article
- Response and adaptation of verrucomicrobial methanotrophs to heat and acidity.Archives of microbiology · 2025Article
- Direct Methane Oxidation by Copper- and Iron-Dependent Methane Monooxygenases.Chemical reviews · 2024Review
- Genome-scale flux balance analysis reveals redox trade-offs in the metabolism of the thermoacidophileFrontiers in systems biology · 2024Article
- Product analog binding identifies the copper active site of particulate methane monooxygenase.Nature catalysis · 2023Article
- Spatial and temporal dynamics at an actively silicifying hydrothermal system.Frontiers in microbiology · 2023Article
- Transcription regulation strategies in methylotrophs: progress and challenges.Bioresources and bioprocessing · 2022Review
- Boosting the acetol production in methanotrophic biocatalyst Methylomonas sp. DH-1 by the coupling activity of heteroexpressed novel protein PmoD with endogenous particulate methane monooxygenase.Biotechnology for biofuels and bioproducts · 2022Article
- Article
- Genome-guided prediction of acid resistance mechanisms in acidophilic methanotrophs of phylogenetically deep-rooted Verrucomicrobia isolated from geothermal environments.Frontiers in microbiology · 2022Article
- Verrucomicrobial methanotrophs: ecophysiology of metabolically versatile acidophiles.FEMS microbiology reviews · 2021Review
- Phylogeny of Nitrogenase Structural and Assembly Components Reveals New Insights into the Origin and Distribution of Nitrogen Fixation across Bacteria and Archaea.Microorganisms · 2021Article
- Biochemistry of aerobic biological methane oxidation.Chemical Society reviews · 2021Review
- Growth on Formic Acid Is Dependent on Intracellular pH Homeostasis for the Thermoacidophilic MethanotrophFrontiers in microbiology · 2021Article
- Draft Genome Sequences of Two Acidophilic, Mesophilic Verrucomicrobial Methanotrophs Contain Only OneMicrobiology resource announcements · 2020Article
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4 authors.
Funding
Abstract
backgroundThe candidate genus "Methylacidiphilum" comprises thermoacidophilic aerobic methane oxidizers belonging to the Verrucomicrobia phylum. These are the first described non-proteobacterial aerobic methane oxidizers. The genes pmoCAB, encoding the particulate methane monooxygenase do not originate from horizontal gene transfer from proteobacteria. Instead, the "Ca. Methylacidiphilum" and the sister genus "Ca. Methylacidimicrobium" represent a novel and hitherto understudied evolutionary lineage of aerobic methane oxidizers. Obtaining and comparing the full genome sequences is an important step towards understanding the evolution and physiology of this novel group of organisms.
resultsHere we present the closed genome of "Ca. Methylacidiphilum kamchatkense" strain Kam1 and a comparison with the genomes of its two closest relatives "Ca. Methylacidiphilum fumariolicum" strain SolV and "Ca. Methylacidiphilum infernorum" strain V4. The genome consists of a single 2,2 Mbp chromosome with 2119 predicted protein coding sequences. Genome analysis showed that the majority of the genes connected with metabolic traits described for one member of "Ca. Methylacidiphilum" is conserved between all three genomes. All three strains encode class I CRISPR-cas systems. The average nucleotide identity between "Ca. M. kamchatkense" strain Kam1 and strains SolV and V4 is ≤95% showing that they should be regarded as separate species. Whole genome comparison revealed a high degree of synteny between the genomes of strains Kam1 and SolV. In contrast, comparison of the genomes of strains Kam1 and V4 revealed a number of rearrangements. There are large differences in the numbers of transposable elements found in the genomes of the three strains with 12, 37 and 80 transposable elements in the genomes of strains Kam1, V4 and SolV respectively. Genomic rearrangements and the activity of transposable elements explain much of the genomic differences between strains. For example, a type 1h uptake hydrogenase is conserved between strains Kam1 and SolV but seems to have been lost from strain V4 due to genomic rearrangements.
conclusionsComparing three closed genomes of "Ca. Methylacidiphilum" spp. has given new insights into the evolution of these organisms and revealed large differences in numbers of transposable elements between strains, the activity of these explains much of the genomic differences between strains.
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