Publications

bacterial communities and enzyme activities of pahs polluted soils.	three soils (i.e. a belgian soil, b-bt, a german soil, g, and an italian agricultural soil, i-bt) with different properties and hydrocarbon-pollution history with regard to their potential to degrade phenanthrene were investigated. a chemical and microbiological evaluation of soils was done using measurements of routine chemical properties, bacterial counts and several enzyme activities. the three soils showed different levels of polycyclic aromatic hydrocarbons (pahs), being their contamination ...	2004	15331267
genomic insights into methanotrophy: the complete genome sequence of methylococcus capsulatus (bath).	methanotrophs are ubiquitous bacteria that can use the greenhouse gas methane as a sole carbon and energy source for growth, thus playing major roles in global carbon cycles, and in particular, substantially reducing emissions of biologically generated methane to the atmosphere. despite their importance, and in contrast to organisms that play roles in other major parts of the carbon cycle such as photosynthesis, no genome-level studies have been published on the biology of methanotrophs. we repo ...	2004	15383840
computational design of reduced metabolic networks.	cellular functions are based on thousands of chemical reactions and transport processes, most of them being catalysed and regulated by specific proteins. systematic gene knockouts have provided evidence that this complex reaction network possesses considerable redundancy, that is, alternative routes exist along which signals and metabolic fluxes may be directed to accomplish an identical output behaviour. this property is of particular importance in cases where parts of the reaction network are ...	2004	15457535
stable isotope probing reveals the dominant role of burkholderia species in aerobic degradation of pcbs.	the active bacteria of a biofilm community grown directly on polychlorinated biphenyl (pcb) droplets were analyzed by 16s rrna fingerprinting, identified by their 16s rrna gene sequences and fatty acid profiling, and compared with isolates from the biofilm. although, the multi-species biofilm degraded di- and trichlorinated pcb-congeners these substrates were not attacked by its individual isolated members, which suggests that a metabolic network is responsible for pcb degradation in the biofilm ...	2004	16329907
[the pqq-dehydrogenases. a novel example of bacterial quinoproteins].	the word "quinoprotein" describes four groups of different enzymes which have cofactors containing o-quinones. pyrrolo-quinoline quinone (pqq) is not covalently attached. pqq is the cofactor of several quinoprotein bacterial dehydrogenases including glucose dehydrogenase (g-dh), alcohol dehydrogenase (a-dh) and aldehyde dehydrogenase (al-dh). these dehydrogenases are located in the periplasm of gram-negative bacteria. this report summarises the structural properties of quinoprotein dehydrogenase ...	2004	17061524
[evolution and phylogeny of rhizobia].	nitrogen fixation an ancient process that may is have originated in the archaean eon under the primitive atmosphere anoxygenic conditions. diazotrophy is an exclusive process of prokaryotes, only euryarchaeota and 6 of 54 bacteria phyla have diazotrophs lineages. some of them coevolved with flowering plants for the establishment of molecular bases of a mutualistic symbiosis relationship. in rhizobia, the nitrogen fixation occurs inside the nodules, special structures on the roots or stems of leg ...	2005	17061545
analysis of fae and fhcd genes in mono lake, california.	genes for two enzymes of the tetrahydromethanopterin-linked c(1) transfer pathway (fae and fhcd) were detected in hypersaline, hyperalkaline mono lake (california), via pcr amplification and analysis. low diversity for fae and fhcd was noted, in contrast to the diversity previously detected in a freshwater lake, lake washington (washington).	2005	16332897
community structure and diversity of biofilms from a beer bottling plant as revealed using 16s rrna gene clone libraries.	the microbial composition of biofilms from a beer bottling plant was analyzed by a cultivation independent analysis of the 16s rrna genes. clone libraries were differentiated by amplified 16s rrna gene restriction analysis and representative clones from each group were sequenced. the diversity of the clone libraries was comparable with the diversity found for environmental samples. no evidences for the presence of strictly anaerobic taxa or important beer spoilers were found, indicating that bio ...	2005	16204578
[methylophaga murata sp. nov.: a haloalkaliphilic aerobic methylotroph from deteriorating marble].	the haloalkaliphilic methylotrophic bacterium (strain kr3) isolated from material scraped off the deteriorating marble of the moscow kremlin masonry has been found to be able to utilize methanol, methylamine, trimethylamine, and fructose as carbon and energy sources. its cells are gram-negative motile rods multiplying by binary fission. spores are not produced. the isolate is strictly aerobic and requires vitamin b12 and na+ ions for growth. it is oxidase- and catalase-positive and reduces nitra ...	2005	16211855
recombinant production of human microsomal cytochrome p450 2d6 in the methylotrophic yeast pichia pastoris.	microsomal cytochrome p450 monooxygenases of groups 1-3 are mainly expressed in the liver and play a crucial role in phase 1 reactions of xenobiotic metabolism. the cdnas encoding human cyp2d6 and human nadph-p450 oxidoreductase (cpr) were transformed into the methylotrophic yeast pichia pastoris and expressed with control of the methanol-inducible aox1 promoter. the determined molecular weights of the recombinant cyp2d6 and cpr closely matched the calculated values of 55.8 and 76.6 kda. cpr act ...	2005	16222729
bacterial populations active in metabolism of c1 compounds in the sediment of lake washington, a freshwater lake.	active members of the bacterial community in the sediment of lake washington, with special emphasis on c1 utilizers, were identified by employing two complementary culture-independent approaches: reverse transcription of environmental mrna and 16s rrna combined with pcr (rt-pcr) and stable-isotope probing (sip) of dna with the 13c-labeled c1 substrates methanol, methylamine, formaldehyde, and formate. analysis of rt-pcr-amplified fragments of 16s rrna-encoding genes revealed that gammaproteobact ...	2005	16269723
methylotrophic metabolism is advantageous for methylobacterium extorquens during colonization of medicago truncatula under competitive conditions.	facultative methylotrophic bacteria of the genus methylobacterium are commonly found in association with plants. inoculation experiments were performed to study the importance of methylotrophic metabolism for colonization of the model legume medicago truncatula. competition experiments with methylobacterium extorquens wild-type strain am1 and methylotrophy mutants revealed that the ability to use methanol as a carbon and energy source provides a selective advantage during colonization of m. trun ...	2005	16269765
identification of an upstream regulatory sequence that mediates the transcription of mox genes in methylobacterium extorquens am1.	a multiple a-tract sequence has been identified in the promoter regions for the mxaf, pqqa, mxaw, mxbd and mxcq genes involved in methanol oxidation in methylobacterium extorquens am1, a facultative methylotroph. site-directed mutagenesis was exploited to delete or change this conserved sequence. promoter-xyle transcriptional fusions were used to assess promoter activity in these mutants. a fiftyfold drop in the xyle activity was observed for the mxaf and pqqa promoters without this sequence, an ...	2005	16272393
methylobacterium isbiliense sp. nov., isolated from the drinking water system of sevilla, spain.	three pink-pigmented facultatively methylotrophic bacteria were isolated from drinking water. these strains (designated ar24t, ar25 and gr32) have been characterized on the basis of phenotypic traits, 16s rrna gene sequence analysis and dna-dna hybridization. according to the results of these analyses, the three strains belong to the genus methylobacterium. analysis of 16s rrna gene sequences revealed that the three isolates constituted a single phylogenetic group. the level of 16s rrna gene seq ...	2005	16280492
biochemical pathway and degradation of phthalate ester isomers by bacteria.	degradation of dimethyl isophthalate (dmi) and dimethyl phthalate ester (dmpe) was investigated using microorganisms isolated from mangrove sediment of hong kong mai po nature reserve. one enrichment culture was capable of utilizing dmi as the sole source of carbon and energy, but none of the bacteria in the enrichment culture was capable of degrading dmi alone. in co-culture of two bacteria, degradation was observed proceeding through monomethyl isophthalate (mmi) ester and isophthalic acid (ip ...	2005	16312973
reclassification of methylobacterium chloromethanicum and methylobacterium dichloromethanicum as later subjective synonyms of methylobacterium extorquens and of methylobacterium lusitanum as a later subjective synonym of methylobacterium rhodesianum.	phylogenetic analysis based on 16s rdna sequences was performed on all type strains of the 14 validly described methylobacterium species to ascertain the genealogic relationships among these species. the results showed that type strains of methylobacterium were divided into two monophyletic groups whose members were distinct species with sequence similarity values greater than 97.0% between any two of the members in the same group. only m. organophilum jcm 2833(t) and atcc 27886(t) were not divi ...	2005	16314683
[identification and reclassification of methylotrophic bacteria].	species status of the already described methylotrophic bacteria has been specified, and new isolates have been identified. the bacteria under study are classified as those from methylobacterium genus on the basis of a set of diagnostic characteristics (they are capable to assimilate, besides methanol, other organic substances; to realize serine cycle of one-carbon compounds assimilation, to form rast-coloured colonies; they can form rosy-coloured colonies). as a result of the study of phenotypic ...	2005	16396106
molecular cloning of the dna gyrase genes from methylovorus sp. strain ss1 and the mechanism of intrinsic quinolone resistance in methylotrophic bacteria.	the genes encoding the dna gyrase a (gyra) and b subunits (gyrb) of methylovorus sp. strain ss1 were cloned and sequenced. gyra and gyrb coded for proteins of 846 and 799 amino acids with calculated molecular weights of 94,328 and 88,714, respectively, and complemented escherichia coli gyra and gyrb temperature sensitive (ts) mutants. to analyze the role of type ii topoisomerases in the intrinsic quinolone resistance of methylotrophic bacteria, the sequences of the quinolone resistance-determini ...	2005	16404155
novel dephosphotetrahydromethanopterin biosynthesis genes discovered via mutagenesis in methylobacterium extorquens am1.	methylobacterium extorquens am1 was used to explore the genetics of dephosphotetrahydromethanopterin (dh(4)mpt) biosynthesis. strains with mutations in eight "archaeal-type" genes linked on the chromosome of m. extorquens am1 were analyzed for the ability to synthesize dh(4)mpt, and six were found to be dh(4)mpt negative. putative functions of these genes in dh(4)mpt biosynthesis are discussed.	2005	15774894
sugar composition and ft-ir analysis of exopolysaccharides produced by microbial isolates from paper mill slime deposits.	thirty exopolysaccharides (eps) produced by bacteria isolated from biofilms or slimelayers from different paper and board mills in finland, france and spain were subjected to size exclusion chromatography and sugar compositional analysis. high performance size exclusion chromatography (hpsec) analysis revealed that some samples were composed of several molecular weight populations. these samples were fractionated by size exclusion chromatography and pooled accordingly. principal components analy ...	2005	15889397
evidence for the presence of a cmua methyltransferase pathway in novel marine methyl halide-oxidizing bacteria.	marine bacteria that oxidized methyl bromide and methyl chloride were enriched and isolated from seawater samples. six methyl halide-oxidizing enrichments were established from which 13 isolates that grew on methyl bromide and methyl chloride as sole sources of carbon and energy were isolated and maintained. all isolates belonged to three different clades in the roseobacter group of the alpha subdivision of the proteobacteria and were distinct from leisingera methylohalidivorans, the only other ...	2005	15892703
[physicochemical and biological factors affecting atmospheric methane oxidation in gray forest soils].	the decline of methane oxidizing activities in gray forest soil upon its conversion into arable land was shown to be caused by major changes in biotic and physicochemical properties of soil. using the method of immune serums, methane-oxidizing bacteria were detected in both forest and agricultural soils, but their populations differed significantly in both abundance and composition. in the forest soil, the number of methanotrophs was an order of magnitude higher than in arable soil, amounting to ...	2005	15938403
methylobacterium sp. bacteraemia due to a contaminated endoscope.		2005	15939507
heterologous extracellular production of enterocin p from enterococcus faecium p13 in the methylotrophic bacterium methylobacterium extorquens.	enterocin p (entp), a strong antilisterial pediocin-like bacteriocin from enterococcus faecium p13, was produced by methylobacterium extorquens. for heterologous expression of entp in the methylotrophic bacterium m. extorquens, a recombinant plasmid was constructed. the gene encoding the entp structural gene (entp) was cloned into the plasmid vector pcm80, under control of the methanol dehydrogenase promoter (p(mxaf)), to generate plasmid ps25. when m. extorquens atcc 55366 was transformed with ...	2005	15950402
growth in liverworts of the marchantiales is promoted by epiphytic methylobacteria.	liverworts, the most basal lineage of extant land plants, have been used as model systems in the reconstruction of adaptations to life on land. in this study, we used gemmae (specialized propagules) that were isolated from mature gemma cups of two distantly related species of liverworts, marchantia polymorpha l. and lunularia cruciata l. (order marchantiales). we show that methylobacteria (genus methylobacterium), microbes that inhabit the surfaces of land plants where they secrete phytohormones ...	2005	15965759
analysis of gene islands involved in methanopterin-linked c1 transfer reactions reveals new functions and provides evolutionary insights.	in this study, the occurrence and chromosomal clustering of genes encoding c(1) transfer reactions linked to tetrahydromethanopterin (h(4)mpt) were analyzed in a variety of proteobacteria and in representatives of the planctomycetes via genomic analysis or via partial sequencing by cosmid walking. although a tendency for clustering was found common for the genes of interest, significant variations in gene order and the degree of clustering were uncovered both between and within different groups ...	2005	15968072
isolation and molecular detection of methylotrophic bacteria occurring in the human mouth.	diverse methylotrophic bacteria were isolated from the tongue, and supra- and subgingival plaque in the mouths of volunteers and patients with periodontitis. one-carbon compounds such as dimethylsulfide in the mouth are likely to be used as growth substrates for these organisms. methylotrophic strains of bacillus, brevibacterium casei, hyphomicrobium sulfonivorans, methylobacterium, micrococcus luteus and variovorax paradoxus were characterized physiologically and by their 16s rrna gene sequence ...	2005	16011760
methylobacterium variabile sp. nov., a methylotrophic bacterium isolated from an aquatic environment.	strain gr3(t) was isolated from drinking water during a screening programme to monitor the bacterial population present in the distribution system of seville (spain), and it was studied phenotypically, genotypically and phylogenetically. this pink-pigmented bacterium was identified as a methylobacterium sp. members of this genus are distributed in a wide variety of natural habitats, including soil, dust, air, freshwater and aquatic sediments. phylogenetic analysis of the 16s rrna gene sequence s ...	2005	16014462
genetic diversity and phylogeny of rhizobia isolated from agroforestry legume species in southern ethiopia.	the genetic diversity within 195 rhizobial strains isolated from root nodules of 18 agroforestry species (15 woody and three herbaceous legumes) growing in diverse ecoclimatic zones in southern ethiopia was investigated by using pcr-rflp of the ribosomal operon [16s rrna gene, 23s rrna gene and the internal transcribed spacer (its) region between the 16s rrna and 23s rrna genes] and 16s rrna gene partial sequence (800 and 1350 bp) analyses. all of the isolates and the 28 reference strains could ...	2005	16014464
[search for psychrophilic methylotrophic bacteria in biotopes of the antarctica].	psychrotolerant bacteria which use obligately methane were found in the moss samples and in soil-vegetation samples in the island part of the antarctica during the vii expedition (2003) at the station "akademik vernadsky". the number of methane-oxidizing bacteria in the samples from the antarctica (101- 10(3)/g of the sample) was lower than in the samples from the regions with moderate climate (10(2)- 106/g of the sample). psychrotolerant strains of methylobacteriium genus which use facultativel ...	2005	16018200
ligand loop effects on the free energy change of redox and ph-dependent equilibria in cupredoxins probed on amicyanin variants.	in this work, we have determined the thermodynamic parameters of the reduction of four different variants of thiobacillus versutus amicyanin by electrochemical techniques. in addition, the thermodynamic parameters were determined of the low-ph conformational change involving protonation of the c-terminal histidine ligand and the concomitant dissociation of this histidine from the cu(i) ion. in these variants, the native c-terminal loop containing the cys, his, and met copper ligands has been rep ...	2005	16026167
[removal of harmful admixtures from a surrogate atmospheric condensate of a closed habitat with the help of a cultivated bacterial association].	tested was an idea to eliminate six harmful admixtures reside in a surrogate of atmospheric condensate of closed habitats by a cultivated bacterial association. the purpose was to select members of the bacterial associations that would assimilate acetone, acetic acid, ethanol, ethyl acetate, methylamine and ammonia as free, so immobilized on insoluble cellular polyvinylformal. the resulted association of three bacterial species showed the ability to transform into end products a six-component su ...	2005	16078425
adaptation and acclimatization to formaldehyde in methylotrophs capable of high-concentration formaldehyde detoxification.	formaldehyde is a highly toxic chemical common in industrial effluents, and it is also an intermediate in bacterial metabolism of one-carbon growth substrates, although its role as a bacterial growth substrate per se has not been extensively reported. this study investigated two highly formaldehyde-resistant formaldehyde utilizers, strains bip and ros1; the former strain has been used for industrial remediation of formaldehyde-containing effluents. the two strains were shown by means of 16s rrna ...	2005	16079340
metabolism of the aliphatic nitramine 4-nitro-2,4-diazabutanal by methylobacterium sp. strain js178.	the aliphatic nitramine 4-nitro-2,4-diazabutanal (ndab; c2h5n3o3) is a ring cleavage metabolite that accumulates during the aerobic degradation of the energetic compound hexahydro-1,3,5-trinitro-1,3,5-triazine (rdx) by various rhodococcus spp. ndab is also produced during the alkaline hydrolysis of either rdx or octahydro-1,3,5,7-tetranitro-1,3,5,7-tetrazocine (hmx) and during the photolysis of rdx. traces of ndab were observed in a soil sampled from an ammunition-manufacturing facility contamin ...	2005	16085803
molecular detection and isolation from antarctica of methylotrophic bacteria able to grow with methylated sulfur compounds.	this study is the first demonstration that a diverse facultatively methylotrophic microbiota exists in some antarctic locations. pcr amplification of genes diagnostic for methylotrophs was carried out with bacterial dna isolated from 14 soil and sediment samples from ten locations on signy island, south orkney islands, antarctica. genes encoding the mxaf of methanol dehydrogenase, the fdxa for afipia ferredoxin, the msma of methanesulfonate monooxygenase, and the 16s rrna gene of methylobacteriu ...	2005	16104352
use of dna-stable isotope probing and functional gene probes to investigate the diversity of methyl chloride-utilizing bacteria in soil.	enrichment and isolation of methyl chloride-utilizing bacteria from various terrestrial environments, including woodland and forest soils, resulted in the identification of seven methyl chloride-utilizing strains belonging to the genus hyphomicrobium, an aminobacter strain tw23 and strain wg1, which grouped closely with the genus mesorhizobium. methyl chloride enrichment cultures were dominated by hyphomicrobium species, indicating that these bacteria were most suited to growth under the enrichm ...	2005	16104855
characterization of micro-organisms isolated from dairy industry after cleaning and fogging disinfection with alkyl amine and peracetic acid.	to characterize micro-organisms isolated from norwegian dairy production plants after cleaning and fogging disinfection with alkyl amine/peracetic acid and to indicate reasons for survival.	2005	15610421
effects of ph amendment on metal working fluid wastewater biological treatment using a defined bacterial consortium.	the aim of this study was to determine whether ph amendment of a highly alkaline metal working fluid (mwf) wastewater would improve biological treatment in a bioreactor system following introduction of a bacterial inoculum (comprised of the following strains: agrobacterium radiobacter, comamonas testosteroni, methylobacterium mesophilicum, microbacterium esteraromaticum, and microbacterium saperdae). the ph values tested were 6, 7, 8, and 9. three replicate batch mode bioreactors inoculated with ...	2005	15625673
seasonal variations in location and population structure of endophytes in buds of scots pine.	we studied the location and distribution of a bacterial isolate, a mycobacterium sp., in buds of scots pine (pinus sylvestris l.). using a probe specific for the 16s rrna of the mycobacterium sp., the bacterium was found by in situ hybridization in the meristematic tissues of 40% of all bud samples examined. because we had previously found other bacterial and fungal endophytes in the meristematic tissues of scots pine buds, we studied their occurrence in buds during shoot development and dormanc ...	2005	15631977
how an enzyme binds the c1 carrier tetrahydromethanopterin. structure of the tetrahydromethanopterin-dependent formaldehyde-activating enzyme (fae) from methylobacterium extorquens am1.	tetrahydromethanopterin (h4 mpt) is a tetrahydrofolate analogue involved as a c1 carrier in the metabolism of various groups of microorganisms. how h4mpt is bound to the respective c1 unit converting enzymes remained elusive. we describe here the structure of the homopentameric formaldehyde-activating enzyme (fae) from methylobacterium extorquens am1 established at 2.0 angstrom without and at 1.9 angstrom with methylene-h4mpt bound. methylene-h4mpt is bound in an "s"-shaped conformation into the ...	2005	15632161
methylobacterium hispanicum sp. nov. and methylobacterium aquaticum sp. nov., isolated from drinking water.	members of the genus methylobacterium are ubiquitous in nature and can be isolated from almost any freshwater environment where dissolved oxygen exists. this genus is composed of a variety of pink-pigmented, facultatively methylotrophic (ppfm) bacteria. during a screening programme to monitor the bacterial population present in the drinking water of a municipal water supply in seville (spain) during the year 2003, five strains of ppfm bacteria were isolated and characterized. analysis of their c ...	2005	15653888
l-malyl-coenzyme a/beta-methylmalyl-coenzyme a lyase is involved in acetate assimilation of the isocitrate lyase-negative bacterium rhodobacter capsulatus.	cell extracts of rhodobacter capsulatus grown on acetate contained an apparent malate synthase activity but lacked isocitrate lyase activity. therefore, r. capsulatus cannot use the glyoxylate cycle for acetate assimilation, and a different pathway must exist. it is shown that the apparent malate synthase activity is due to the combination of a malyl-coenzyme a (coa) lyase and a malyl-coa-hydrolyzing enzyme. malyl-coa lyase activity was 20-fold up-regulated in acetate-grown cells versus glucose- ...	2005	15687206
identification of genes involved in the glyoxylate regeneration cycle in methylobacterium extorquens am1, including two new genes, meac and mead.	the glyoxylate regeneration cycle (grc) operates in serine cycle methylotrophs to effect the net conversion of acetyl coenzyme a to glyoxylate. mutants have been generated in several genes involved in the grc, and phenotypic analysis has been carried out to clarify their role in this cycle.	2005	15687219
formaldehyde-limited cultivation of a newly isolated methylotrophic bacterium, methylobacterium sp. mf1: enzymatic analysis related to c1 metabolism.	formaldehyde is a highly toxic compound to most living organisms. we have isolated a bacterial strain that is able to efficiently degrade formaldehyde and use it as a sole carbon source. the isolated strain was identified as methylobacterium sp. mf1, which could grow on formaldehyde and methanol. methylobacterium sp. mf1 was grown in batch culture using 1.2 g/l formaldehyde as a sole carbon source, which was all consumed within 200 h. in order to decompose formaldehyde more efficiently, formalde ...	2005	16233748
qscr-mediated transcriptional activation of serine cycle genes in methylobacterium extorquens am1.	qscr, a lysr-type regulator, is the major regulator of assimilatory c1 metabolism in methylobacterium extorquens am1. it has been shown to interact with the promoters of the two operons that encode the majority of the serine cycle enzymes (sga-hpr-mtda-fch for the qsc1 operon and mtka-mtkb-ppc-mcla for the qsc2 operon), as well as with the promoter of glya and its own promoter. to obtain further insights into the mechanisms of this regulation, we mapped transcriptional start sites for the qsc1 a ...	2005	16237034
[biotechnological potential of methylotrophic bacteria: a review of current status and future prospects].	major results of the authors' findings on the implementation of biotechnological potential of aerobic methylobacteria and methanotrophs for obtaining forage proteins, biopolymers (polybutyrate and polysaccharides), enzymes (oxidoreductases), and bioprotectors (ectoin), as well as for degrading toxic c1 and cn compounds have been reviewed. unique features of the structural and functional organization of the metabolism of extremophilic (tolerant) methylotrophs are discussed, with a view for their ...	2005	16240646
[effect of dna-damaging agents on the aerobic methylobacteria capable and incapable of utilizing dichloromethane].	methylobacterium dichloromethanicum dm4, a degrader of dichloromethane (dcm), was more tolerant to the effect of h2o2 and uv irradiation than methylobacterium extorquens am1, which does not consume dcm. addition of ch2cl2 to methylobacteria with active serine, ribulose monophosphate, and ribulose bisphosphate pathways of c1 metabolism, grown on methanol, resulted in a 1.1- to 2.5-fold increase in the incorporation of [alpha-32p]datp into dna klenow fragment (exo-). as dcm dehalogenase was not in ...	2005	16240654
growth and siderophore production of xylella fastidiosa under iron-limited conditions.	in this study, the production of siderophores by xylella fastidiosa from the citrus bacteria isolate 31b9a5c (fapesp - onsa, brazil) was investigated. the preliminary evidence supporting the existence of siderophore in x. fastidiosa was found during the evaluation of sequencing data generated in our lab using the blast-x tool, which indicated putative open reading frames (orfs) associated with iron-binding proteins. in an iron-limited medium siderophores were detected in the supernatant of x. fa ...	2005	16255148
role of methylotrophy during symbiosis between methylobacterium nodulans and crotalaria podocarpa.	some rare leguminous plants of the genus crotalaria are specifically nodulated by the methylotrophic bacterium methylobacterium nodulans. in this study, the expression and role of bacterial methylotrophy were investigated during symbiosis between m. nodulans, strain ors 2060t, and its host legume, crotalaria podocarpa. using lacz fusion to the mxaf gene, we showed that the methylotroph genes are expressed in the root nodules, suggesting methylotrophic activity during symbiosis. in addition, loss ...	2005	16255245
community-level analysis: genes encoding methanopterin-dependent enzymes.	this chapter describes a set of novel tools for the environmental detection of c1 transfer functions linked to the cofactor methanopterin. these tools include degenerate environmental primers targeting four of the most conserved genes in the methanopterin-linked c1 transfer pathway in bacteria, fae, mtdb, mch, and fhcd, and extensive databases of the respective genes. the tools described are suitable for detecting methanopterin-linked formaldehyde-oxidizing capacity in natural microbial communit ...	2005	16260308
rapid, specific and quantitative assays for the detection of the endophytic bacterium methylobacterium mesophilicum in plants.	xylella fastidiosa is a xylem-limited bacterium that causes citrus variegated chlorosis disease in sweet orange. there is evidence that x. fastidiosa interacts with endophytic bacteria present in the xylem of sweet orange, and that these interactions, particularly with methylobacterium mesophilicum, may affect disease progress. however, these interactions cannot be evaluated in detail until efficient methods for detection and enumeration of these bacteria in planta are developed. we have previou ...	2006	16266765
a rapid method for the purification of methanol dehydrogenase from methylobacterium extorquens.	methanol dehydrogenase (mdh) is a water soluble quinoprotein that catalyzes the oxidation of methanol as an important carbon source in methylotrophic bacteria. a rapid method for the purification of mdh from methylobacterium extorquens am1 was developed using a single cation exchange chromatographic step, followed by ultrafiltration for final purification, enzyme concentration, and buffer exchange. mdh was obtained in an excellent overall yield with a final enzyme purity of greater than 97%. sto ...	2006	16139516
methylobacterium extorquens am1 produces a novel type of acyl-homoserine lactone with a double unsaturated side chain under methylotrophic growth conditions.	acyl-homoserine lactones (acyl-hsls) have emerged as important regulatory molecules for many gram-negative bacteria. we have found that methylobacterium extorquens am1, a member of the pink-pigmented facultative methylotrophs commonly present on plant surfaces, produces several acyl-hsls depending upon the carbon source. a novel hsl was discovered with a double unsaturated carbon chain (n-(tetradecenoyl)) (c14:2) and characterized by ms and proton nmr. this long-chain acyl-hsl is synthesized by ...	2006	16412429
the 1.6a x-ray structure of the unusual c-type cytochrome, cytochrome cl, from the methylotrophic bacterium methylobacterium extorquens.	the structure of cytochrome cl from methylobacterium extorquens has been determined by x-ray crystallography to a resolution of 1.6 a. this unusually large, acidic cytochrome is the physiological electron acceptor for the quinoprotein methanol dehydrogenase in the periplasm of methylotrophic bacteria. its amino acid sequence is completely different from that of other cytochromes but its x-ray structure reveals a core that is typical of class i cytochromes c, having alpha-helices folded into a co ...	2006	16414073
regulation of ethylene levels in canola (brassica campestris) by 1-aminocyclopropane-1-carboxylate deaminase-containing methylobacterium fujisawaense.	we report the presence of acc deaminase in methylobacterium fujisawaense and its lowering of ethylene levels and promotion of root elongation in canola seedlings under gnotobiotic conditions. to test a part of the previous model proposed for acc deaminase producing bacteria with methylobacterium, acc levels and various enzyme activities were monitored in canola. lower amounts of acc were present in the tissues of seeds treated with m. fujisawaense strains than in control seeds treated with mgso( ...	2006	16416316
isolation and identification of methylobacterium species from the tap water in hospitals in japan and their antibiotic susceptibility.	contamination of tap water by methylobacterium species has become a serious concern in hospitals. this study was planned to examine the distribution of methylobacterium species inhabiting tap water used in japanese hospitals and antibiotic sensitivity of the isolates in 2004. species identification of 58 isolates was performed based on the homology of a partial sequence of 16s rdna. the dominant methylobacterium species in hospital water were m. aquaticum and m. fujisawaense. to examine the bioc ...	2006	16428868
molecular phylogeny based on the 16s rrna gene of elite rhizobial strains used in brazilian commercial inoculants.	nitrogen is often a limiting nutrient, therefore the sustainability of food crops, forages and green manure legumes is mainly associated with their ability to establish symbiotic associations with stem and root-nodulating n2-fixing rhizobia. the selection, identification and maintenance of elite strains for each host are critical. decades of research in brazil resulted in a list of strains officially recommended for several legumes, but their genetic diversity is poorly known. this study aimed a ...	2006	16442259
methylobacterium adhaesivum sp. nov., a methylotrophic bacterium isolated from drinking water.	a pink-pigmented, facultatively methylotrophic strain, ar27t, isolated from the drinking water distribution system of seville, spain, was characterized taxonomically. cells were gram-negative rods, motile, non-spore-forming and strictly aerobic. growth in liquid media was flocculant whereas on solid media growth produced colonies that usually adhered to the agar surface. on the basis of its phenotypic characteristics, 16s rrna gene sequence data and dna g+c content (63.6 mol%), strain ar27t (=ce ...	2006	16449436
measurement of respiration rates of methylobacterium extorquens am1 cultures by use of a phosphorescence-based sensor.	respiration rates of bacterial cultures can be a powerful tool in gauging the effects of genetic manipulation and environmental changes affecting overall metabolism. we present an optical method for measuring respiration rates using a robust phosphorescence lifetime-based sensor and off-the-shelf technology. this method was tested with the facultative methylotroph methylobacterium extorquens am1 to demonstrate subtle mutant phenotypes.	2006	16461730
characterization of ni-tolerant methylobacteria associated with the hyperaccumulating plant thlaspi goesingense and description of methylobacterium goesingense sp. nov.	various pink-pigmented facultative methylotrophic (ppfm) bacteria (strains ieii3, ieiv1, iei6, ieii1, ieiii3 ieiii4, ieiii5, irii1, irii2, iriii1, iriv1 and iriv2) were obtained from the rhizosphere and endosphere of hyperaccumulating plant thlaspi goesingense grown in redschlag, austria [r. idris, r. trifonova, m. puschenreiter, w.w. wenzel, a. sessitsch, bacterial communities associated with flowering plants of the ni hyperaccumulator thlaspi goesingense, appl. environ. microbiol. 70 (2004) 26 ...	2006	16488569
direct methanol biocatalytic fuel cell--considerations of restraints on electron transfer.	in this paper structure and operational principles of a novel type direct methanol biocatalytic fuel cell (dmbfc) system is introduced. in addition observed restraints in the energy generation are discussed. the operational principle of the biofuel cell is enzymatic breakdown of methanol by methanol dehydrogenase (mdh) from methylobacterium extorquens at the anode. the terminal electron acceptor at the cathode is potassium permanganate. performance characteristics of the system are the following ...	2006	16554148
biodiversity of amoebae and amoeba-resisting bacteria in a hospital water network.	free-living amoebae (fla) are ubiquitous organisms that have been isolated from various domestic water systems, such as cooling towers and hospital water networks. in addition to their own pathogenicity, fla can also act as trojan horses and be naturally infected with amoeba-resisting bacteria (arb) that may be involved in human infections, such as pneumonia. we investigated the biodiversity of bacteria and their amoebal hosts in a hospital water network. using amoebal enrichment on nonnutrient ...	2006	16597941
energetics of interaction between the g-protein chaperone, meab, and b12-dependent methylmalonyl-coa mutase.	meab is an auxiliary protein that supports the function of the radical b(12)-dependent enzyme, methylmalonyl-coa mutase, although its precise role is not understood. mutations in the human homolog of meab, mmaa, lead to methylmalonic aciduria, an inborn error of metabolism that can be fatal. to obtain insights into the function of this recently discovered protein, we have characterized the entropic and enthalpic contributions to deltagdegree (assoc) for complexation of meab (in the presence and ...	2006	16641088
model plants for studying the interaction between methylobacterium mesophilicum and xylella fastidiosa.	over the last few years, endophytic bacterial communities associated with citrus have been studied as key components interacting with xylella fastidiosa. in this study, we investigated the possible interaction between the citrus endophyte methylobacterium mesophilicum sr1.6/6 and x. fastidiosa in model plants such as catharanthus roseus (madagaskar periwinkle) and nicotiana clevelandii (clevelands tobacco). the aim of this study was to establish the fate of m. mesophilicum sr1.6/6 after inoculat ...	2006	16699566
production of polyhydroxyalkanoates from methanol by a new methylotrophic bacterium methylobacterium sp. gw2.	a new bacterial strain, isolated from groundwater contaminated with explosives, was characterized as a pink-pigmented facultative methylotroph, affiliated to the genus methylobacterium. the bacterial isolate designated as strain gw2 was found capable of producing the homopolymer poly-3-hydroxybutyrate (phb) from various carbon sources such as methanol, ethanol, and succinate. methanol acted as the best substrate for the production of phb reaching 40 % w/w dry biomass. phb accumulation was observ ...	2006	16752138
capillary electrophoresis-mass spectrometry of citrus endophytic bacteria siderophores.	ce-esi-ms with a liquid sheath interface and it mass analyzer was used for analysis of siderophores from different strains of methylobacterium spp. citrus endophyte extracts. three methylobacterium strains were investigated according to positive bioassay tests. bacteria cultures were grown under fe(iii) absence (siderophore producing cultures) and under fe(iii) presence (control cultures). siderophores were extracted from culture supernatant with polystyrene resins. bge and sheath-liquid composi ...	2006	16817160
physiological analysis of methylobacterium extorquens am1 grown in continuous and batch cultures.	chemostat cultures of methylobacterium extorquens am1 grown on methanol or succinate at a range of dilution rates were compared to batch cultures in terms of enzyme levels, poly-beta-hydroxybutyrate content, and intracellular concentrations of adenine and pyridine nucleotides. in both chemostat and batch cultures, enzymes specific to c1 metabolism were up-regulated during growth on methanol and down-regulated during growth on succinate, polyhydroxybutyrate levels were higher on succinate, intrac ...	2006	16821027
identification of oxalotrophic bacteria by neural network analysis of numerical phenetic data.	a new approach with artificial neural network (ann) was applied to numerical taxonomy of bacteria using the oxalate as carbon and energy source. for this aim the characters effective in differentiating separate groups were selected from morphological, physiological and biochemical test results. fourteen aerobic, gram-negative, oxalate-utilizing isolates and four oxalate-utilizing reference strains (ralstonia eutropha dsm 428, methylobacterium extorquens dsm 1337t, ralstonia oxalatica dsm 1105t, ...	2006	16821716
moss-associated methylobacteria as phytosymbionts: an experimental study.	methylotrophic bacteria inhabit the surface of plant organs, but the interaction between these microbes and their host cells is largely unknown. protonemata (gametophytes) of the moss funaria hygrometrica were cultivated in vitro under axenic conditions and the growth of the protonemal filaments recorded. in the presence of methylobacteria (different strains of methylobacterium), average cell length and the number of cells per filament were both enhanced. we tested the hypothesis that auxin (ind ...	2006	16835795
meganema perideroedes gen. nov., sp. nov., a filamentous alphaproteobacterium from activated sludge.	an industrial wastewater treatment plant at grindsted, denmark, has suffered from bulking problems for several years caused by filamentous bacteria. five strains were isolated from the sludge by micromanipulation. phylogenetic analysis of the 16s rrna gene sequences showed that the strains formed a monophyletic cluster in the alphaproteobacteria, and they were phenotypically different from their closest relatives and from all hitherto known filamentous bacteria described (closest relative brevun ...	2006	16902022
a proteomic study of methylobacterium extorquens reveals a response regulator essential for epiphytic growth.	aerial plant surfaces are colonized by diverse bacteria such as the ubiquitous methylobacterium spp. the specific physiological traits as well as the underlying regulatory mechanisms for bacterial plant colonization are largely unknown. the purpose of this study was to identify proteins produced specifically in the phyllosphere by comparing the proteome of methylobacterium extorquens colonizing the leaves either with that of bacteria colonizing the roots or with that of bacteria growing on synth ...	2006	16926146
plant growth-promoting methylobacterium induces defense responses in groundnut (arachis hypogaea l.) compared with rot pathogens.	this study, framed in two different phases, studied the plant-growth promotion and the induction of systemic resistance in groundnut by methylobacterium. seed imbibition with methylobacterium sp. increased germination by 19.5% compared with controls. combined inoculation of methylobacterium sp. with rhizobium sp. also significantly increased plant growth, nodulation, and yield attributes in groundnut compared with individual inoculation of rhizobium sp. methylobacterium sp. challenge-inoculated ...	2006	16941245
a plasmid-borne truncated luxi homolog controls quorum-sensing systems and extracellular carbohydrate production in methylobacterium extorquens am1.	a cryptic plasmid of methylobacterium extorquens am1 was found to encode tsli, a truncated luxi homolog. tsli was shown to be expressed and to control transcription of the acyl-homoserine lactone (hsl) synthase gene msai and thus, indirectly, acyl-hsl production. in addition, tsli was found to positively regulate extracellular polysaccharide production.	2006	17015673
[production of vitamin b12 in aerobic methylotrophic bacteria].		2006	17025186
bestowing inducibility on the cloned methanol dehydrogenase promoter (pmxaf) of methylobacterium extorquens by applying regulatory elements of pseudomonas putida f1.	pmxaf is a strong methanol-inducible promoter in methylobacterium extorquens. when this promoter is cloned in expression vectors and used to drive heterologous gene expression, methanol inducibility is either greatly reduced or entirely lost. in order to bestow inducibility upon the cloned pmxaf promoter in expression vectors, we adopted combinational methods (regulatory elements of the pseudomonas putida f1 cym and cmt operons and tn7 transposon system) to control reporter gene expression at th ...	2006	17041156
molecular interaction between methylobacterium extorquens and seedlings: growth promotion, methanol consumption, and localization of the methanol emission site.	four methylobacterium extorquens strains were isolated from strawberry (fragaria x ananassa cv. elsanta) leaves, and one strain, called me4, was tested for its ability to promote the growth of various plant seedlings. seedling weight and shoot length of nicotiana tabacum, lycopersicon esculentum, sinapis alba, and fragaria vesca increased significantly in the presence of the pink-pigmented facultative methylotroph (ppfm), but the germination behaviour of seeds from six other plants was not affec ...	2006	17043084
characterization of contamination in and toxicities of a shipyard area in hong kong.	this is the first integrated study on the contaminant characterization and toxicities of a shipyard area. this site in hong kong contained 3.6-33.4 mg kg(-1) dichlorodiphenyltrichloroethane and 5-79 g kg(-1) oil and grease. other pollutants exceeding the dutch intervention values were total polyaromatic hydrocarbons, total petroleum hydrocarbons, and metals cu, pb and zn. these pollutants persisted partially owing to the poor fertility with <125 mg n kg(-1) and <530 mg p kg(-1) typical of coasta ...	2006	16360247
survey of environmental biocontamination on board the international space station.	the international space station (iss) is an orbital living and working environment extending from the original zarya control module built in 1998. the expected life span of the completed station is around 10 years and during this period it will be constantly manned. it is inevitable that the iss will also be home to an unknown number of microorganisms. this survey reports on microbiological contamination in potable water, air, and on surfaces inside the iss. the viable counts in potable water di ...	2006	16364606
characterizing nad-dependent alcohol dehydrogenase enzymes of methylobacterium extorquens and strawberry (fragaria x ananassa cv. elsanta).	the methylotroph methylobacterium extorquens (strain with cabi registration number imi 369321), which has been isolated from strawberry (fragaria x ananassa cv. elsanta) callus cultures, was grown on a mixture of methanol (0.25% v/v) and 1,2-propanediol (0.75% v/v). the microbial biotransformation of 1,2-propanediol to 2-hydroxypropanal (lactaldehyde) was studied. the bacterial alcohol dehydrogenase (adh) enzymatic activities were assessed, and the optimum ph for adh activity was found to be ph ...	2006	16390205
multicopy integration and expression of heterologous genes in methylobacterium extorquens atcc 55366.	high-level expression of chromosomally integrated genes in methylobacterium extorquens atcc 55366 was achieved under the control of the strong m. extorquens am1 methanol dehydrogenase promoter (pmxaf) using the mini-tn7 transposon system. stable maintenance and expression of the integrated genes were obtained in the absence of antibiotic selective pressure. furthermore, using this technology, a multicopy integration protocol for m. extorquens was also developed. chromosomal integration of one to ...	2006	16391115
stable carbon isotope fractionation during degradation of dichloromethane by methylotrophic bacteria.	stable carbon isotope fractionation during dichloromethane (dcm) degradation by methylotrophic bacteria was investigated under aerobic and nitrate-reducing conditions. the strains studied comprise several hyphomicrobium strains, methylobacterium, methylopila, methylophilus and methylorhabdus spp. that are considered to degrade dcm by a glutathione (gsh)-dependent dehalogenase enzyme system in the initial step. the stable carbon isotope fractionation factors (alphac) of the strains varied under a ...	2006	16343330
[isolation and preliminary characterization of carotenoids from pink-pigmented methylotrophs].	an effective method was developed for complete removal of pigments from the cells and solvent mixture for further separation of pigments using thin layer chromatography on silica gel. carotenoid samples that have been obtained in this way are of good purity for further investigations. carotenoid pigments of pink-pigmented facultative methylotrophic bacteria methylobacterium have been characterized. these carotenoids are represented mainly by xanthophylls, particularly hydroxycarotenoids. strains ...	2006	17236632
composition of metabolic flux distributions by functionally interpretable minimal flux modes (minmodes).	all cellular functions are ultimately linked to the metabolism which constitutes a highly branched network of thousands of enzyme-catalyzed chemical reactions and carrier-mediated transport processes. depending on the prevailing functions (e.g. detoxification of a toxin or accumulation of biomass) the distribution of fluxes in the metabolic network may vary considerably. to better reveal and quantify this flux-function relationship we propose a novel computational approach which identifies disti ...	2006	17503369
formaldehyde uptake by methylobacterium sp. mf1 and acidomonas methanolica mb 58 with the different formaldehyde assimilation pathways.	methylobacterium sp. mf1 (an obligate methylotrophic bacterium isolated newly by the authors) and acidomonas methanolica mb58 (a facultative methylotrophic bacterium) uptake formaldehyde similarly. it was found that the former assimilated formaldehyde via the serine pathway whereas the latter did so via the ribulose-monophosphate pathway from the measurement of the key enzyme activities in each assimilation pathway. that is, hydroxy pyruvate reductase was detected in only the above-mentioned mf1 ...	2006	17095990
bacterial diversity in aortic aneurysms determined by 16s ribosomal rna gene analysis.	aortic aneurysms are common vascular conditions that cause considerable morbidity and mortality. understanding of the mechanisms involved in the pathogenesis of the condition remains limited. recently, infection has been suggested as possible contributor in the development of the disease. the aim of the present study was to examine aortic aneurysms for the presence of bacterial dna using polymerase chain reaction (pcr) targeting the 16s ribosomal rna (rrna) gene, followed by cloning and sequenci ...	2006	17098542
biodegradation of methyl tert-butyl ether by cold-adapted mixed and pure bacterial cultures.	an aerobic mixed bacterial culture (cl-emc-1) capable of utilizing methyl tert-butyl ether (mtbe) as the sole source of carbon and energy with a growth temperature range of 3 to 30 degrees c and optimum of 18 to 22 degrees c was enriched from activated sludge. transient accumulation of tert-butanol (tba) occurred during utilization of mtbe at temperatures from 3 degrees c to 14 degrees c, but tba did not accumulate above 18 degrees c. the culture utilized mtbe at a concentration of up to 1.5 g l ...	2007	17146651
tracking x-ray-derived redox changes in crystals of a methylamine dehydrogenase/amicyanin complex using single-crystal uv/vis microspectrophotometry.	x-ray exposure during crystallographic data collection can result in unintended redox changes in proteins containing functionally important redox centers. in order to directly monitor x-ray-derived redox changes in trapped oxidative half-reaction intermediates of paracoccus denitrificans methylamine dehydrogenase, a commercially available single-crystal uv/vis microspectrophotometer was installed on-line at the biocars beamline 14-bm-c at the advanced photon source, argonne, usa. monitoring the ...	2007	17211075
factors required for the catalytic reaction of pqqc/d which produces pyrroloquinoline quinone.	pqqc/d converts the biosynthetic intermediate purified from a pqqc mutant to pyrroloquinoline quinone (pqq), and both nad(p)h and cytosolic fraction, named as activating factor (actf), are required to show its higher production. dithiothreitol alone, as well as actf plus nad(p)h, enhanced the pqq production by pqqc/d. thioredoxin-thioredoxin reductase system with nadph showed similar effect. pqqc/d made a tight complex with pqq, however, in the presence of dithiothreitol, pqq was dissociated fro ...	2007	17223081
methylobacterium platani sp. nov., isolated from a leaf of the tree platanus orientalis.	a novel bacterial strain, designated pmb02(t), was isolated from a leaf of the tree platanus orientalis. colonies grown on tyg agar plates were circular, pink-pigmented and slow-growing, being 0.2-1.5 mm in diameter after 3 days growth. the cells of strain pmb02(t) were gram-negative, aerobic, motile rods that possessed oxidase and catalase activities and grew at 20-30 degrees c, ph 6-8 and in media containing less than 1 % nacl. the major respiratory quinone was identified as q-10. a phylogenet ...	2007	18048737
production of acyl-homoserine lactone quorum-sensing signals is widespread in gram-negative methylobacterium.	members of methylobacterium, referred as pink-pigmented facultative methylotrophic bacteria, are frequently associated with terrestrial and aquatic plants, tending to form aggregates on the phyllosphere. we report here that the production of autoinducer molecules involved in the cell-to-cell signaling process, which is known as quorum sensing, is common among methylobacterium species. several strains of methylobacterium were tested for their ability to produce n-acyl-homoserine lactone (ahl) sig ...	2007	18051753
influence of plant species and environmental conditions on epiphytic and endophytic pink-pigmented facultative methylotrophic bacterial populations associated with field-grown rice cultivars.	the total methylotrophic population associated with rice plants from different cultivars was enumerated at three different stages: vegetative, flowering, and harvesting. the bacterial population in the leaf, rhizosphere soil, endophytic in the stem and roots, and epiphytic in the florets and grains were determined from four rice cultivars, il-mi, nam-pyeoung, o-dae, and dong-jin, sampled from three different field sites. the methylotrophic bacteria isolated on ams media containing 0.5% methanol ...	2007	18156780
[changes of chlorine isotope composition characterize bacterial dehalogenation of dichloromethane].	fractionation of dichloromethane (dcm) molecules with different chlorine isotopes by aerobic methylobacteria methylobacterium dichloromethanicum dm4 and albibacter nethylovorans dm10; cell-free extract of strain dm4; and transconjugant methylobacterium evtorquens al1/pme 8220, expressing the dcma gene for dcm dehalogenase but unable to grow on dcm, was studied. kinetic indices of dcm isotopomers for chlorine during bacterial dehalogenation and diffusion were compared. a two-step model is propose ...	2007	18173108
plant-associated methylobacteria as co-evolved phytosymbionts: a hypothesis.	due to their wall-associated pectin metabolism, growing plant cells emit significant amounts of the one-carbon alcohol methanol. pink-pigmented microbes of the genus methylobacterium that colonize the surfaces of leaves (epiphytes) are capable of growth on this volatile c1-compound as sole source of carbon and energy. in this article the results of experiments with germ-free (gnotobiotic) sporophytes of angiosperms (sunflower, maize) and gametophytes of bryophytes (a moss and two liverwort speci ...	2007	19516971
implementation of microarrays for methylobacterium extorquens am1.	microarrays are an important tool for understanding global gene expression changes, and the resulting data sets can be used to direct physiologic and metabolic studies. to take advantage of this technology, 60-mer oligonucleotide microarrays were designed for methylobacterium extorquens am1 to study gene expression changes that occur under differing physiological conditions. the carbon utilization pathways for methanol and succinate have been well characterized, and growth with these substrates ...	2007	18092906
statistical modeling of dental unit water bacterial test kit performance.	while it is important to monitor dental water quality, it is unclear whether in-office test kits provide bacterial counts comparable to the gold standard method (r2a). studies were conducted on specimens with known bacterial concentrations, and from dental units, to evaluate test kit accuracy across a range of bacterial types and loads.	2007	17508622
metal tolerating methylotrophic bacteria reduces nickel and cadmium toxicity and promotes plant growth of tomato (lycopersicon esculentum l).	inoculation of plants with microorganisms may reduce the toxicity of heavy metals to plants in contaminated soils. in this study, we have shown that the plant growth promoting bacteria methylobacterium oryzae strain cbmb20 and burkholderia sp. strain cbmb40 from rice reduce the toxicity of ni and cd in tomato and promote plant growth under gnotobiotic and pot culture experiments. the bacterial strains bound considerable amounts of ni(ii) and cd(ii) in their growing and resting cells and showed g ...	2007	17512031
papaya shoot tip associated endophytic bacteria isolated from in vitro cultures and host-endophyte interaction in vitro and in vivo.	fourteen distinct bacterial clones were isolated from surface-sterilized shoot tips (approximately 1 cm) of papaya (carica papaya l. 'surya') planted on murashige and skoog (ms)-based papaya culture medium (23/50 nos.) during the 2-4 week period following in vitro culturing. these isolates were ascribed to six gram-negative genera, namely pantoea (p. ananatis), enterobacter (e. cloacae), brevundimonas (b. aurantiaca), sphingomonas, methylobacterium (m. rhodesianum), and agrobacterium (a. tumefac ...	2007	17538647
characterization of 1-aminocyclopropane-1-carboxylate (acc) deaminase containing methylobacterium oryzae and interactions with auxins and acc regulation of ethylene in canola (brassica campestris).	the possible interaction of the plant hormones auxin and ethylene and the role of 1-aminocyclopropane-1-carboxylate (acc) deaminase containing bacteria on ethylene production in canola (brassica campestris) in the presence of inhibitory concentrations of growth regulators were investigated. the effects of auxin (indole-3-acetic acid and 2,4-dichlorophenoxy acetic acid), auxin transport inhibitor 2-(p-chlorophenoxy)-2-methylpropionic acid, ethylene precursor 1-aminocyclopropane-1-carboxylate and ...	2007	17541630
synthesis of c5-dicarboxylic acids from c2-units involving crotonyl-coa carboxylase/reductase: the ethylmalonyl-coa pathway.	fifty years ago, kornberg and krebs established the glyoxylate cycle as the pathway for the synthesis of cell constituents from c2-units. however, since then, many bacteria have been described that do not contain isocitrate lyase, the key enzyme of this pathway. here, a pathway termed the ethylmalonyl-coa pathway operating in such organisms is described. isotopically labeled acetate and bicarbonate were transformed to ethylmalonyl-coa by cell extracts of acetate-grown, isocitrate lyase-negative ...	2007	17548827
expression, purification and preliminary x-ray characterization of dl-2-haloacid dehalogenase from methylobacterium sp. cpa1.	dl-2-haloacid dehalogenase from methylobacterium sp. cpa1 (dl-dex mb) is a unique enzyme that catalyzes the dehalogenation reaction without the formation of an ester intermediate. a recombinant form of dl-dex mb has been expressed in escherichia coli, purified and crystallized using the hanging-drop vapour-diffusion method. the crystal belongs to the hexagonal space group p6(3), with unit-cell parameters a = b = 186.2, c = 114.4 a. the crystals are likely to contain between four and eight monome ...	2007	17620717