Methylocapsa acidiphila gen. nov., sp. nov., a novel methane-oxidizing and dinitrogen-fixing acidophilic bacterium from Sphagnum bog.

Dedysh, Svetlana N.; Khmelenina, V. N.; Suzina, N. E.; Trotsenko, Yu. A.; Semrau, Jeremy D.; Liesack, Werner; Tiedje, James M.

doi:10.1099/00207713-52-1-251

Cited by 244 publications

(221 citation statements)

References 22 publications

Supporting

Mentioning

212

Contrasting

Order By: Relevance

“…Decreasing dissolved oxygen tension can enhance both growth and acetylene reduction activity of these MB. In contrast, Methylocapsa acidiphila is capable of exponential growth in liquid nitrogen-free media under both aerobic and microaerobic conditions (Dedysh et al, 2002). This growth capability of Methylocapsa acidiphila is very similar to that of Beijerinckia, which was one of the first bacteria described as being capable of fixing dinitrogen effectively (Alston, 1936;Starkey & De, 1939;Becking, 1999).…”

Section: Introductionmentioning

confidence: 82%

“…Currently recognized acidophilic methanotrophic bacteria (MB) are represented by two genera, Methylocella and Methylocapsa, which belong to the Alphaproteobacteria (Dedysh et al, 2000(Dedysh et al, , 2002. Similar to the traditionally known alphaproteobacterial MB, Methylosinus and Methylocystis, acidophilic MB utilize the serine pathway for carbon assimilation.…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

NifH and NifD phylogenies: an evolutionary basis for understanding nitrogen fixation capabilities of methanotrophic bacteria

2004

Self Cite

View full text Add to dashboard Cite

The ability to utilize dinitrogen as a nitrogen source is an important phenotypic trait in most currently known methanotrophic bacteria (MB). This trait is especially important for acidophilic MB, which inhabit acidic oligotrophic environments, highly depleted in available nitrogen compounds. Phylogenetically, acidophilic MB are most closely related to heterotrophic dinitrogen-fixing bacteria of the genus Beijerinckia. To further explore the phylogenetic linkage between these metabolically different organisms, the sequences of nifH and nifD gene fragments from acidophilic MB of the genera Methylocella and Methylocapsa, and from representatives of Beijerinckia, were determined. For reference, nifH and nifD sequences were also obtained from some type II MB of the alphaproteobacterial Methylosinus/Methylocystis group and from gammaproteobacterial type I MB. The trees constructed for the inferred amino acid sequences of nifH and nifD were highly congruent. The phylogenetic relationships among MB in the NifH and NifD trees also agreed well with the corresponding 16S rRNA-based phylogeny, except for two distinctive features. First, different methods used for phylogenetic analysis grouped the NifH and NifD sequences of strains of the gammaproteobacterial MB Methylococcus capsulatus within a clade mainly characterized by Alphaproteobacteria, including acidophilic MB and type II MB of the Methylosinus/Methylocystis group. From this and other genomic data from Methylococcus capsulatus Bath, it is proposed that an ancient event of lateral gene transfer was responsible for this aberrant branching. Second, the identity values of NifH and NifD sequences between Methylocapsa acidiphila B2 and representatives of Beijerinckia were clearly higher (98?5 and 96?6 %, respectively) than would be expected from their 16S rRNA-based relationships. Possibly, these two bacteria originated from a common acidophilic dinitrogen-fixing ancestor, and were subject to similar evolutionary pressure with regard to nitrogen acquisition. This interpretation is corroborated by the observation that, in contrast to most other diazotrophs, M. acidiphila B2 and Beijerinckia spp. are capable of active growth on nitrogen-free media under fully aerobic conditions.

show abstract

Section: Introductionmentioning

confidence: 82%

Section: Introductionmentioning

confidence: 99%

NifH and NifD phylogenies: an evolutionary basis for understanding nitrogen fixation capabilities of methanotrophic bacteria

2004

Self Cite

View full text Add to dashboard Cite

show abstract

“…The MOB community of peat bogs or acidic forest soils, for example, was restricted to members of type II MOB [39,40,43]. Besides, all known acidophilic isolates belong to the genera Methylocapsa and Methylocella, both type II MOB [9][10][11][12]. The MOB community capable of the consumption of atmospheric methane was studied in different forest and grassland soils and was found to exclude members of the type I group.…”

Section: Discussionmentioning

confidence: 99%

“…The microbial conversion of methane into carbon dioxide was estimated to account for 30% to 90% in flooded rice fields [1,2], for 13% to 38% of the methane produced in temperate and subarctic peat soils [13], and for 15% to more than 90% of the diffusive methane flux in wetlands [36,47]. The group of MOB comprises the three families Methylococcaceae, Methylocystaceae, and Beijerinckiaceae [5,[9][10][11][12]. The only exception is Crenothrix polyspora, a filamentous, sheathed microorganism recently discovered to be methanotrophic [52].…”

Section: Introductionmentioning

confidence: 99%

“…Members of the Methylococcaceae are termed type I MOB and belong to the γ-subdivision of the Proteobacteria phylum. Members of the Methylocystaceae and Beijerinckiaceae are termed type II MOB and belong to the α-subdivision of the Proteobacteria phylum [10][11][12][13][14][15][16][17][18][19][20][21]. The diversity and composition of MOB have been investigated in several environments such as freshwater sediments [8,42], landfill soils [59], rice field soils [22,24], habitats with only atmospheric methane concentrations [29,33,35], and peat bogs with very low pH values [39,40].…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Diversity of Aerobic Methanotrophic Bacteria in a Permafrost Active Layer Soil of the Lena Delta, Siberia

et al. 2008

View full text Add to dashboard Cite

With this study, we present first data on the diversity of aerobic methanotrophic bacteria (MOB) in an Arctic permafrost active layer soil of the Lena Delta, Siberia. Applying denaturing gradient gel electrophoresis and cloning of 16S ribosomal ribonucleic acid (rRNA) and pmoA gene fragments of active layer samples, we found a general restriction of the methanotrophic diversity to sequences closely related to the genera Methylobacter and Methylosarcina, both type I MOB. In contrast, we revealed a distinct species-level diversity. Based on phylogenetic analysis of the 16S rRNA gene, two new clusters of MOB specific for the permafrost active layer soil of this study were found. In total, 8 out of 13 operational taxonomic units detected belong to these clusters. Members of these clusters were closely related to Methylobacter psychrophilus and Methylobacter tundripaludum, both isolated from Arctic environments. A dominance of MOB closely related to M. psychrophilus and M. tundripaludum was confirmed by an additional pmoA gene analysis. We used diversity indices such as the Shannon diversity index or the Chao1 richness estimator in order to compare the MOB community near the surface and near the permafrost table. We determined a similar diversity of the MOB community in both depths and suggest that it is not influenced by the extreme physical and geochemical gradients in the active layer.

show abstract

Methanotrophy in Extreme Environments

Dunfield

2009

Encyclopedia of Life Sciences

View full text Add to dashboard Cite

Methanotrophy is the ability of a few prokaryotes to grow on methane as a sole energy source. Aerobic methanotrophic bacteria are active in natural environments with pH values ranging from 1 to 11, temperatures ranging from 0 to 72°C and salinities up to 30%. In addition, anaerobic methanotrophs are found in permanently cold ocean sediments at temperatures down to −1°C, and in geothermally heated sediments at temperatures up to 90°C. Several extremophilic species of aerobic methanotrophs have been isolated and studied in pure culture, including thermophiles, psychrophiles, acidophiles, alkaliphiles and halophiles. The knowledge of methanotrophs and their ecology in extreme environments is summarized, with particular attention on bacteria with multiple extremophilic phenotypes that are found in acidic subarctic peatlands and in acidic geothermal springs. Key concepts Methane is oxidized by prokaryotes in diverse environments, including some with extreme temperatures, pH values and salinities. The ecology of extremophilic methanotrophs has been studied using cultivation‐independent molecular methods. Extremophilic aerobic methanotrophs have been isolated and studied in pure culture, but anaerobic methanotrophs have not yet been isolated. Some aerobic methanotrophs combine multiple extremophilic phenotypes. Biogeochemical and molecular ecology studies suggest that sulphate‐reducing methanotrophs are capable of living under a similar range of temperatures as are aerobic methanotrophs.

show abstract

Methylocapsa acidiphila gen. nov., sp. nov., a novel methane-oxidizing and dinitrogen-fixing acidophilic bacterium from Sphagnum bog.

Abstract: Methylocapsa acidiphila gen. nov., sp. nov., a novel methane-oxidizing and dinitrogen-fixing acidophilic bacterium from Sphagnum bog

Cited by 244 publications

References 22 publications

NifH and NifD phylogenies: an evolutionary basis for understanding nitrogen fixation capabilities of methanotrophic bacteria

NifH and NifD phylogenies: an evolutionary basis for understanding nitrogen fixation capabilities of methanotrophic bacteria

Diversity of Aerobic Methanotrophic Bacteria in a Permafrost Active Layer Soil of the Lena Delta, Siberia

Methanotrophy in Extreme Environments

Contact Info

Product

Resources

About