| a novel pmoa lineage represented by the acidophilic methanotrophic bacterium methylocapsa acidiphila [correction of acidophila] b2. | a fragment of the functional gene pmoa, which encodes the active-site polypeptide of particulate methane monooxygenase (pmmo), was pcr-amplified from dna of the recently described acidophilic methanotrophic bacterium methylocapsa acidiphila [corrected] b2. this methanotroph was isolated from an acidic sphagnum peat bog and possesses a novel type iii arrangement of intracytoplasmic membranes. comparative sequence analysis revealed that the inferred peptide sequence of pmoa of methylocapsa acidiph ... | 2001 | 11797053 |
| methylocapsa acidiphila gen. nov., sp. nov., a novel methane-oxidizing and dinitrogen-fixing acidophilic bacterium from sphagnum bog. | a novel genus and species, methylocapsa acidiphila gen. nov., sp. nov., are proposed for a methane-oxidizing bacterium isolated from an acidic sphagnum peat bog. this bacterium, designated strain b2t, represents aerobic, gram-negative, colourless, non-motile, curved coccoids that form conglomerates covered by an extracellular polysaccharide matrix. the cells use methane and methanol as sole sources of carbon and energy and utilize the serine pathway for carbon assimilation. strain b2t is a moder ... | 2002 | 11837310 |
| identification of active methylotroph populations in an acidic forest soil by stable-isotope probing. | stable-isotope probing (sip) is a culture-independent technique that enables the isolation of dna from micro-organisms that are actively involved in a specific metabolic process. in this study, sip was used to characterize the active methylotroph populations in forest soil (ph 3.5) microcosms that were exposed to (13)ch(3)oh or (13)ch(4). distinct (13)c-labelled dna ((13)c-dna) fractions were resolved from total community dna by cscl density-gradient centrifugation. analysis of 16s rdna sequence ... | 2002 | 12177327 |
| quantitative detection of methanotrophs in soil by novel pmoa-targeted real-time pcr assays. | methane oxidation in soils is mostly accomplished by methanotrophic bacteria. little is known about the abundance of methanotrophs in soils, since quantification by cultivation and microscopic techniques is cumbersome. comparison of 16s ribosomal dna and pmoa (alpha subunit of the particulate methane monooxygenase) phylogenetic trees showed good correlation and revealed five distinct groups of methanotrophs within the alpha and gamma subclasses of proteobacteria: the methylococcus group, the met ... | 2003 | 12732507 |
| nifh and nifd phylogenies: an evolutionary basis for understanding nitrogen fixation capabilities of methanotrophic bacteria. | 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 diffe ... | 2004 | 15133093 |
| [an oligonucleotide primer system for amplification of the ribulose-1,5-bisphosphate carboxylase/oxygenase genes of bacteria of various taxonomic groups]. | based on the analysis of genbank nucleotide sequences of the cbbl and cbbm genes, coding for the large subunit of ribulose-1,5-bisphosphate carboxylase/oxygenase (rubpc), the key enzyme of the calvin cycle, a primer system was designed that allows about 800-bp-long fragments of these genes to be pcr-ampliflied in various photo- and chemotrophic bacteria. the efficiency of the designed primer system in detection of rubpc genes was demonstrated in pcr with dna of taxonomically diverse bacteria pos ... | 2004 | 15315232 |
| [inhibition of the growth and methane consumption in methylocapsa acidiphila by mineral salts]. | | 2004 | 15521186 |
| analysis of bacterial diversity in acidic pond water and compost after treatment of artificial acid mine drainage for metal removal. | the microbial population of a sludge amended leaf compost material utilized for treatment of artificial acid mine drainage was studied by culture-independent molecular methods. iron-rich and sulfurous wastewater (artificial acid mine drainage) was circulated through a column bioreactor for 16 months. after 12 months the column was inoculated with a mixed culture from an acidic pond receiving acid mine drainage from a tailings impoundment at a decommissioned site in kristineberg, north sweden. hy ... | 2005 | 15818559 |
| first genome data from uncultured upland soil cluster alpha methanotrophs provide further evidence for a close phylogenetic relationship to methylocapsa acidiphila b2 and for high-affinity methanotrophy involving particulate methane monooxygenase. | members of upland soil cluster alpha (usc alpha) are assumed to be methanotrophic bacteria (mb) adapted to the trace level of atmospheric methane. so far, these mb have eluded all cultivation attempts. while the 16s rrna phylogeny of usc alpha members is still not known, phylogenies constructed for the active-site polypeptide (encoded by pmoa) of particulate methane monooxygenase (pmmo) placed usc alpha next to the alphaproteobacterial methylocapsa acidiphila b2. to assess whether the pmoa tree ... | 2005 | 16269789 |
| methylovirgula ligni gen. nov., sp. nov., an obligately acidophilic, facultatively methylotrophic bacterium with a highly divergent mxaf gene. | two strains of gram-negative, aerobic, non-pigmented, non-motile, rod-shaped bacteria were isolated from beechwood blocks during decay by the white-rot fungus hypholoma fasciculare and were designated strains bw863(t) and bw872. they are capable of methylotrophic growth and assimilate carbon via the ribulose-bisphosphate pathway. in addition to methanol, the novel isolates utilized ethanol, pyruvate and malate. strains bw863(t) and bw872 are obligately acidophilic, mesophilic organisms capable o ... | 2009 | 19622650 |
| methylocapsa aurea sp. nov., a facultative methanotroph possessing a particulate methane monooxygenase, and emended description of the genus methylocapsa. | an aerobic, methanotrophic bacterium, designated kyg(t), was isolated from a forest soil in germany. cells of strain kyg(t) were gram-negative, non-motile, slightly curved rods that multiplied by binary fission and produced yellow colonies. the cells contained intracellular granules of poly-β-hydroxybutyrate at each cell pole, a particulate methane monooxygenase (pmmo) and stacks of intracytoplasmic membranes (icms) packed in parallel along one side of the cell envelope. strain kyg(t) grew at ph ... | 2010 | 20061505 |
| facultative and obligate methanotrophs how to identify and differentiate them. | aerobic methanotrophs are metabolically unique bacteria that are able to utilize methane and some other c1-compounds as sole sources of carbon and energy. a defining characteristic of these organisms is the use of methane monooxygenase (mmo) enzymes to catalyze the oxidation of methane to methanol. for a long time, all methanotrophs were considered to be obligately methylotrophic, that is, unable to grow on compounds containing c-c bonds. this notion has recently been revised. some members of th ... | 2011 | 21419913 |
| [analysis of phylogenetic criteria for estimation of the rank of taxa in methane-oxidizing bacteria]. | to determine a possibility of application of phylogenetic criteria for estimating the taxa rank, the intra- and interspecies, as well as intergeneric relatedness of methanotrophs on the basis of 16s rrna gene sequences was estimated. we used sequences of 16s rrna genes of the studied isolates of obligate methanotrophs which have been deposited in ucm (ukrainian collection of microorganisms), and of type strains of other obligate methanotrophs species (from genbank database). it is shown, that th ... | 2011 | 21598653 |
| facultative methanotrophy: false leads, true results, and suggestions for future research. | methanotrophs are a group of phylogenetically diverse microorganisms characterized by their ability to utilize methane as their sole source of carbon and energy. early studies suggested that growth on methane could be stimulated with the addition of some small organic acids, but initial efforts to find facultative methanotrophs, i.e., methanotrophs able to utilize compounds with carbon-carbon bonds as sole growth substrates were inconclusive. recently, however, facultative methanotrophs in the g ... | 2011 | 21599728 |
| active methanotrophs in two contrasting north american peatland ecosystems revealed using dna-sip. | the active methanotroph community was investigated in two contrasting north american peatlands, a nutrient-rich sedge fen and nutrient-poor sphagnum bog using in vitro incubations and (13)c-dna stable-isotope probing (sip) to measure methane (ch(4)) oxidation rates and label active microbes followed by fingerprinting and sequencing of bacterial and archaeal 16s rdna and methane monooxygenase (pmoa and mmox) genes. rates of ch(4) oxidation were slightly, but significantly, faster in the bog and m ... | 2011 | 21728037 |
| [methanotrophic bacteria of acid sphagnum bogs]. | acid sphagnum bogs cover a considerable part of the territory of russia and are an important natural source of biogenic methane, which is formed in their anaerobic layers. a considerable portion of this methane is consumed in the aerobic part of the bog profile by acidophilic methanotrophic bacteria, which comprise the methane filter of sphagnum bogs and decrease ch4 emission to the atmosphere. for a long time, these bacteria escaped isolation, which became possible only after the elucidation of ... | 2002 | 12526194 |
| methyloferula stellata gen. nov., sp. nov., an acidophilic, obligately methanotrophic bacterium possessing only a soluble methane monooxygenase. | two strains of aerobic methanotrophic bacteria, ar4(t) and sop9, were isolated from acidic (ph 3.8-4.0) sphagnum peat bogs in russia. another phenotypically similar isolate, strain lay, was obtained from an acidic (ph 4.0) forest soil in germany. cells of these strains are gram-negative, non-pigmented, non-motile, thin rods that multiply by irregular cell division and form rosettes or amorphous cell conglomerates. similar to methylocella spp., strains ar4(t), sop9 and lay possess only a soluble ... | 2010 | 21097638 |
| complete genome sequence of beijerinckia indica subsp. indica. | beijerinckia indica subsp. indica is an aerobic, acidophilic, exopolysaccharide-producing, n(2)-fixing soil bacterium. it is a generalist chemoorganotroph that is phylogenetically closely related to facultative and obligate methanotrophs of the genera methylocella and methylocapsa. here we report the full genome sequence of this bacterium. | 2010 | 20601475 |
| differential detection of type ii methanotrophic bacteria in acidic peatlands using newly developed 16s rrna-targeted fluorescent oligonucleotide probes. | abstract based on an extensive 16s rrna sequence database for type ii methanotrophic bacteria, a set of 16s rrna-targeted oligonucleotide probes was developed for differential detection of specific phylogenetic groups of these bacteria by fluorescence in situ hybridisation (fish). this set of oligonucleotides included a genus-specific probe for methylocystis (mcyst-1432) and three species-specific probes for methylosinus sporium (msins-647), methylosinus trichosporium (msint-1268) and the recent ... | 2003 | 19719661 |
| activity and community structure of methane-oxidising bacteria in a wet meadow soil. | the structure and activity of the methane-oxidising microbial community in a wet meadow soil in germany were investigated using biogeochemical, cultivation, and molecular fingerprinting techniques. both methane from the atmosphere and methane produced in anaerobic subsurface soil were oxidised. the specific affinity (first-order rate constant) for methane consumption was highest in the top 20 cm of soil and the apparent half-saturation constant was 137-300 nm ch(4), a value intermediate to measu ... | 2002 | 19709259 |
| revealing the uncultivated majority: combining dna stable-isotope probing, multiple displacement amplification and metagenomic analyses of uncultivated methylocystis in acidic peatlands. | peatlands represent an enormous carbon reservoir and have a potential impact on the global climate because of the active methanogenesis and methanotrophy in these soils. uncultivated methanotrophs from seven european peatlands were studied using a combination of molecular methods. screening for methanotroph diversity using a particulate methane monooxygenase-based diagnostic gene array revealed that methylocystis-related species were dominant in six of the seven peatlands studied. the abundance ... | 2008 | 18631364 |
| diversity of the active methanotrophic community in acidic peatlands as assessed by mrna and sip-plfa analyses. | the active methanotroph community was investigated for the first time in heather (calluna)-covered moorlands and sphagnum/eriophorum-covered uk peatlands. direct extraction of mrna from these soils facilitated detection of expression of methane monooxygenase genes, which revealed that particulate methane monooxygenase and not soluble methane monooxygenase was probably responsible for ch(4) oxidation in situ, because only pmoa transcripts (encoding a subunit of particulate methane monooxygenase) ... | 2008 | 18093158 |
| identity of active methanotrophs in landfill cover soil as revealed by dna-stable isotope probing. | a considerable amount of methane produced during decomposition of landfill waste can be oxidized in landfill cover soil by methane-oxidizing bacteria (methanotrophs) thus reducing greenhouse gas emissions to the atmosphere. the identity of active methanotrophs in roscommon landfill cover soil, a slightly acidic peat soil, was assessed by dna-stable isotope probing (sip). landfill cover soil slurries were incubated with (13)c-labelled methane and under either nutrient-rich nitrate mineral salt me ... | 2007 | 17714486 |
| aerobic methanotrophic bacteria of cold ecosystems. | this review summarizes the recent advances in understanding the ecophysiological role and structure-function features of methanotrophic bacteria living in various cold ecosystems. the occurrence of methanotrophs in a majority of psychrosphere sites was verified by direct measurement of their methane-utilizing activity, by electron microscopy and immunofluorescent observations, and analyses of specific signatures in cellular phospholipids and total dnas extracted from environmental samples. surpr ... | 2005 | 16329925 |
| methylocella silvestris sp. nov., a novel methanotroph isolated from an acidic forest cambisol. | two strains of gram-negative, aerobic, non-pigmented, non-motile, rod-shaped, methane-oxidizing bacteria were isolated from an acidic forest cambisol near marburg, germany, and were designated as strains bl2(t) and a1. these bacteria were morphologically and phenotypically similar to methylocella palustris k(t). the cells possess a highly specific bipolar appearance. they lack the intracytoplasmic membranes common to all methane-oxidizing bacteria except methylocella, but contain a vesicular mem ... | 2003 | 13130000 |