| roseateles depolymerans gen. nov., sp. nov., a new bacteriochlorophyll a-containing obligate aerobe belonging to the beta-subclass of the proteobacteria. | strains 61at (t = type strain) and 61b2, the first bacteriochlorophyll (bchl) a-containing obligate aerobes to be classified in the beta-subclass of the proteobacteria, were isolated from river water. the strains were originally isolated as degraders of poly(hexamethylene carbonate) (phc). the organisms can utilize phc and some other biodegradable plastics. the strains grow only under aerobic conditions. good production of bchl a and caroterioid pigments is achieved on phc agar plates and an equ ... | 1999 | 10319464 |
| phylogenetic relationships among members of the comamonadaceae, and description of delftia acidovorans (den dooren de jong 1926 and tamaoka et al. 1987) gen. nov., comb. nov. | the phylogenetic relationships among members of the family comamonadaceae and several unclassified strains were studied by direct sequencing of their pcr-amplified 16s rrna genes. based on the 16s rrna gene sequence analysis, members of the family formed a coherent group. the closest relatives are species of the rubrivivax sub-group: leptothrix discophora, ideonella dechloratans and rubrivivax gelatinosus. the genus hydrogenophaga formed two subclusters, as did the species of acidovorax, whereas ... | 1999 | 10319477 |
| isolate pm1 populations are dominant and novel methyl tert-butyl ether-degrading bacterial in compost biofilter enrichments. | the gasoline additive mtbe, methyl tert-butyl ether, is a widespread and persistent groundwater contaminant. mtbe undergoes rapid mineralization as the sole carbon and energy source of bacterial strain pm1, isolated from an enrichment culture of compost biofilter material. in this report, we describe the results of microbial community dna profiling to assess the relative dominance of isolate pm1 and other bacterial strains cultured from the compost enrichment. three polymerase chain reaction (pc ... | 2001 | 11321538 |
| chlorite dismutase from ideonella dechloratans. | chlorite dismutase has been purified from the chlorate-metabolizing bacterium ideonella dechloratans. the purified enzyme is tetrameric, with a relative molecular mass of 25,000 for the subunit, and contains about 0.6 heme/subunit as isolated. its catalytic properties are similar, but not identical, to those found for a similar enzyme purified earlier from the bacterium gr-1. the heme group in ideonella chlorite dismutase is readily reduced by dithionite, in contrast to the gr-1 enzyme, and redo ... | 2001 | 11472023 |
| endophytic colonization and in planta nitrogen fixation by a herbaspirillum sp. isolated from wild rice species. | nitrogen-fixing bacteria were isolated from the stems of wild and cultivated rice on a modified rennie medium. based on 16s ribosomal dna (rdna) sequences, the diazotrophic isolates were phylogenetically close to four genera: herbaspirillum, ideonella, enterobacter, and azospirillum. phenotypic properties and signature sequences of 16s rdna indicated that three isolates (b65, b501, and b512) belong to the herbaspirillum genus. to examine whether herbaspirillum sp. strain b501 isolated from wild ... | 2001 | 11679357 |
| caldimonas manganoxidans gen. nov., sp. nov., a poly(3-hydroxybutyrate)-degrading, manganese-oxidizing thermophile. | a poly(3-hydroxybutyrate) (phb)-degrading, gram-negative, aerobic bacterium, strain hs(t), was isolated from a hot spring and chemotaxonomically and phylogenetically characterized. the oxidase-positive, weakly catalase-positive, non-pigmented cells (0.6 x 2.6 microm) exhibited a single polar flagellum and accumulated phb granules. strain hs(t) was capable of manganese oxidation. highest growth rate was attained at 50 degrees c. the optimum ph for growth was 7-8. the major respiratory quinone was ... | 2002 | 12054255 |
| cloning, characterisation, and expression of a novel gene encoding chlorite dismutase from ideonella dechloratans. | the gene for chlorite dismutase was isolated from a lambda zap genomic library of ideonella dechloratans using peptide sequences obtained from the purified protein. a nucleotide sequence of 1200 bp was determined. the chlorite dismutase gene codes for a 285-residue polypeptide, with the experimentally determined n-terminus of the mature protein at residue 38. the n-terminal part of the encoded peptide has the characteristics of a signal sequence for periplasmic proteins. the nucleotide sequence ... | 2002 | 12359335 |
| diversity and seasonal variability of beta-proteobacteria in biofilms of polluted rivers: analysis by temperature gradient gel electrophoresis and cloning. | the beta-subgroup of the proteobacteria has been shown to be important in aquatic habitats and was investigated in depth here by molecular 16s rrna techniques in biofilms of the elbe river and its polluted tributary, the spittelwasser river. the bacterial 16s rrna genes were cloned from each site, screened for beta-proteobacterial clones and sequenced. river biofilm clones from both rivers grouped into 9 clusters (rbfs). rbfs 1, 2, and 3 fell into the recently described betai cluster of cosmopol ... | 2003 | 12902230 |
| a gene cluster for chlorate metabolism in ideonella dechloratans. | chlorate reductase has been isolated from the chlorate-respiring bacterium ideonella dechloratans, and the genes encoding the enzyme have been sequenced. the enzyme is composed of three different subunits and contains molybdopterin, iron, probably in iron-sulfur clusters, and heme b. the genes (clr) encoding chlorate reductase are arranged as clrabdc, where clra, clrb, and clrc encode the subunits and clrd encodes a specific chaperone. judging from the subunit composition, cofactor content, and ... | 2003 | 12957948 |
| caenibacterium thermophilum gen. nov., sp. nov., isolated from a thermophilic aerobic digester of municipal sludge. | a bacterial strain, n2-680(t) (=dsm 15264(t)=lmg 21760(t)), isolated from a thermophilic aerobic digester of municipal sludge, was characterized with respect to its morphology, physiology and taxonomy. phenotypically, the isolate was a gram-negative rod with a polar flagellum, catalase- and oxidase-positive, containing cytoplasmic inclusions of poly-beta-hydroxybutyrate and had an optimal growth temperature of about 47 degrees c. strain n2-680(t) was unable to reduce nitrate and could use organi ... | 2003 | 13130021 |
| comparison of native and recombinant chlorite dismutase from ideonella dechloratans. | a detailed comparison between native chlorite dismutase from ideonella dechloratans, and the recombinant version of the protein produced in escherichia coli, suggests the presence of a covalent modification in the native enzyme. although the native and recombinant n- and c-terminal sequences are identical, the enzymes display different electrophoretic mobilities, and produce different peptide maps upon digestion with trypsin and separation of fragments using capillary electrophoresis. comparison ... | 2004 | 15317589 |
| the c subunit of ideonella dechloratans chlorate reductase: expression, purification, refolding, and heme reconstitution. | the c subunit of ideonella dechloratans chlorate reductase has been expressed in escherichia coli as a gst fusion protein. purification from inclusion bodies, followed by refolding and reconstitution with heme, produced a protein with a heme/protein ratio of 0.4, and with uv-vis spectral characteristics similar to those of native chlorate reductase. wavelength maxima for the alpha and beta bands in the reduced state were 559 and 529 nm for both native chlorate reductase and the reconstituted rec ... | 2005 | 15866716 |
| identification, characterization, and classification of genes encoding perchlorate reductase. | the reduction of perchlorate to chlorite, the first enzymatic step in the bacterial reduction of perchlorate, is catalyzed by perchlorate reductase. the genes encoding perchlorate reductase (pcrabcd) in two dechloromonas species were characterized. sequence analysis of the pcrab gene products revealed similarity to alpha- and beta-subunits of microbial nitrate reductase, selenate reductase, dimethyl sulfide dehydrogenase, ethylbenzene dehydrogenase, and chlorate reductase, all of which are type ... | 2005 | 16030201 |
| mitsuaria chitosanitabida gen. nov., sp. nov., an aerobic, chitosanase-producing member of the 'betaproteobacteria'. | four strains (3001(t), 2, 12 and 13), which were isolated as chitosanase-producing bacteria from soil from matsue city (japan), were studied phenotypically, genotypically and phylogenetically. based on sequence analysis of 16s rrna genes, dna g+c content (67.4-69.2 mol%), quinone type (uq-8), major fatty acid composition (3-oh 10:0, 3-oh 14:0) and other phylogenetic studies, strains 3001(t), 12 and 13 were found to occupy a separate position in the 'betaproteobacteria'. roseateles depolymerans, ... | 2005 | 16166689 |
| methylibium petroleiphilum gen. nov., sp. nov., a novel methyl tert-butyl ether-degrading methylotroph of the betaproteobacteria. | a gram-negative, rod-shaped, motile, non-pigmented, facultative aerobe that grew optimally at ph 6.5 and 30 degrees c (strain pm1t) was isolated for its ability to completely degrade the gasoline additive methyl tert-butyl ether. analysis of the 16s rrna gene sequence indicated that this bacterium was a member of the class betaproteobacteria in the sphaerotilus-leptothrix group. the 16s rrna gene sequence identity to other genera in this group, leptothrix, aquabacterium, roseateles, sphaerotilus ... | 2006 | 16627642 |
| aquincola tertiaricarbonis gen. nov., sp. nov., a tertiary butyl moiety-degrading bacterium. | strains l10(t), l108 and cip i-2052 were originally obtained from methyl tert-butyl ether (mtbe)-contaminated groundwater and from a wastewater treatment plant, respectively. all share the ability to grow on tert-butanol, an intermediate of mtbe degradation. cells are strictly aerobic, motile by a polar flagellum and exhibit strong pili formation. poly beta-hydroxybutyrate (phb) granules are formed. the dna g+c content is 69-70.5 mol% and the main ubiquinone is q-8. the major cellular fatty acid ... | 2007 | 17551046 |
| purification and characterization of a novel esterase (beta-hydroxypalmitate methyl ester hydrolase) and prevention of the expression of virulence by ralstonia solanacearum. | to screen novel micro-organisms and enzymes capable of degrading 3-hydroxypalmitic acid methyl ester (3-oh pame), the quorum-sensing signal molecule (quormone), which regulates the virulence of ralstonia solanacearum. | 2007 | 17584461 |
| diversity of nifh gene pools in the rhizosphere of two cultivars of sorghum (sorghum bicolor) treated with contrasting levels of nitrogen fertilizer. | the diversity of nitrogen-fixing bacteria was assessed in the rhizospheres of two cultivars of sorghum (is 5322-c and ipa 1011) sown in cerrado soil amended with two levels of nitrogen fertilizer (12 and 120 kg ha(-1)). the nifh gene was amplified directly from dna extracted from the rhizospheres, and the pcr products cloned and sequenced. four clone libraries were generated from the nifh fragments and 245 sequences were obtained. most of the clones (57%) were closely related to nifh genes of un ... | 2008 | 18070072 |
| influence of pharmaceutical residues on the structure of activated sludge bacterial communities in wastewater treatment bioreactors. | concern is growing over contamination of the environment with pharmaceuticals because of their widespread use and incomplete removal during wastewater treatment, where microorganisms drive the key processes. the influence of pharmaceuticals on bacterial community structure in activated sludge was assessed in small-scale wastewater treatment bioreactors containing different concentrations (5, 50, 200 and 500microgl(-1)) of several commonly used pharmaceuticals (ibuprofen, naproxen, ketoprofen, di ... | 2008 | 18786690 |
| inhella inkyongensis gen. nov., sp. nov., a new freshwater bacterium in the order burkholderiales. | a freshwater bacterium, designated imcc1713(t), was isolated from a highly eutrophic artificial pond. cells of the strain were gram-negative, chemoheterotrophic, polybeat and obligately aerobic short rods that were motile with a single polar flagellum. the 16s rrna gene sequence similarity analysis showed that the novel strain was most closely related to the species roseateles depolymerans (96.3%), mitsuaria chitosanitabida (96.2%), ideonella dechloratans (96.2%), and pelomonas saccharophila (96 ... | 2009 | 19190402 |
| periplasmic c cytochromes and chlorate reduction in ideonella dechloratans. | the aim of this study was to clarify the pathway of electron transfer between the inner membrane components and the periplasmic chlorate reductase. several soluble c-type cytochromes were found in the periplasm. the optical difference spectrum of dithionite-reduced periplasmic extract shows that at least one of these components is capable of acting as an electron donor to the enzyme chlorate reductase. the cytochromes were partially separated, and the fractions were analyzed by uv/visible spectr ... | 2009 | 19233956 |
| ideonella azotifigens sp. nov., an aerobic diazotroph of the betaproteobacteria isolated from grass rhizosphere soil, and emended description of the genus ideonella. | strain 1a22t, a nitrogen-fixing bacterium, was isolated from soil associated with the rhizosphere of a perennial grass growing in a fallow agricultural field in ithaca, new york, usa. analysis of the 16s rrna gene sequence placed the strain in the rubrivivax-roseateles-leptothrix-azohydromonas-aquincola-ideonella branch of the betaproteobacteria and the closest characterized relative was the type strain of ideonella dechloratans (97.7% 16s rrna sequence similarity). cells of strain 1a22t were gr ... | 2009 | 19567574 |
| characterization of a cytochrome c gene located at the gene cluster for chlorate respiration in ideonella dechloratans. | anaerobic chlorate respiration requires electron transport from the bacterial inner membrane to the soluble periplasmic chlorate reductase. we have recently demonstrated that soluble c cytochromes function as electron carriers for chlorate reduction in ideonella dechloratans (smedja bäcklund et al. 2009). in the present work, we describe a gene encoding soluble c-type cytochrome [cyt; genbank id: eu768872] located close to the gene cluster for chlorate reduction in i. dechloratans. the predicted ... | 2010 | 20015627 |
| microbial treatment of high-strength perchlorate wastewater. | to treat wastewater containing high concentrations of perchlorate, a perchlorate reducing-bacterial consortium was obtained by enrichment culture grown on high-strength perchlorate (1200 mg l(-1)) feed medium, and was characterized in a sequence batch reactor (sbr) over a long-time operation. the consortium removed perchlorate in the sbr with high reduction rates (35-90 mg l(-1)h(-1)) and stable removal efficiency over 200-day operations. the maximum specific perchlorate reduction rate (qmax), h ... | 2010 | 20869238 |
| dynamic bacterial communities on reverse-osmosis membranes in a full-scale desalination plant. | to better understand biofouling of seawater reverse osmosis (swro) membranes, bacterial diversity was characterized in the intake water, in subsequently pretreated water and on swro membranes from a full-scale desalination plant (fsdp) during a 9 month period. 16s rrna gene fingerprinting and sequencing revealed that bacterial communities in the water samples and on the swro membranes were very different. for the different sampling dates, the bacterial diversity of the active and the total bacte ... | 2011 | 21108068 |
| purification and characterization of the soluble cytochrome c capable to deliver electrons to chlorate reductase in ideonella dechloratans. | the electron donor for periplasmic chlorate reductase of ideonella dechloratans has been suggested to be a soluble cytochrome c [smedja bäcklund et al., 2009, appl environ microbiol75: 2439-2445]. we describe here the purification of the 9 kda periplasmic cytochrome c, denoted cytochrome c-id1, and demonstrate its ability to serve as electron donor for purified chlorate reductase. the reaction rate was found to be linearly dependent on the cytochrome c concentration in the range 0.6-4 μm. a rout ... | 2011 | 21623897 |
| cell growth and p(3hb) accumulation from co(2) of a carbon monoxide-tolerant hydrogen-oxidizing bacterium, ideonella sp. o-1. | cell growth and accumulation of polyhydroxybutyric acid, p(3hb), from co(2) in autotrophic condition of a newly isolated hydrogen-oxidizing bacterium, the strain o-1, was investigated. the bacterium, which was deposited in the japan collection of microorganisms as jcm17105, autotrophically grows by assimilating h(2), o(2), and co(2) as substrate. 16s rrna gene sequence of the bacterium was the closest to ideonella dechloratans (99%). specific growth rate of the strain o-1 was faster than a hydro ... | 2011 | 21695533 |