phylogenetic positions of novel aerobic, bacteriochlorophyll a-containing bacteria and description of roseococcus thiosulfatophilus gen. nov., sp. nov., erythromicrobium ramosum gen. nov., sp. nov., and erythrobacter litoralis sp. nov.we analyzed the 16s ribosomal dnas of three obligately aerobic, bacteriochlorophyll a-containing bacteria, "roseococcus thiosulfatophilus," "erythromicrobium ramosum," and new isolate t4t (t = type strain), which was obtained from a marine cyanobacterial mat. "roseococcus thiosulfatophilus" is a member of the alpha-1 subclass of the proteobacteria and is moderately related to rhodopila globiformis, thiobacillus acidophilus, and acidiphilium cryptum (level of sequence similarity, 90%). "erythromi ...19947520734
phylogenetic evidence for sphingomonas and rhizomonas as nonphotosynthetic members of the alpha-4 subclass of the clarify the taxonomic relationships of the genera rhizomonas and sphingomonas, the 16s rrna sequence of rhizomonas suberifaciens ifo 15211t (t = type strain) was determined. a phylogenetic analysis of aligned 16s rrna gene sequences revealed that eight species of the genus sphingomonas and r. suberifaciens are closely related to erythrobacter longus and porphyrobacter neustonensis and, therefore, belong in the alpha-4 subclass of the proteobacteria. within this subclass, sphingomonas species ...19948186095
porphyrobacter neustonensis gen. nov., sp. nov., an aerobic bacteriochlorophyll-synthesizing budding bacterium from fresh water.four strains of orange- or red-pigmented bacteria isolated from freshwater surfaces were shown to synthesize bacteriochlorophyll under aerobic conditions. these strains shared unusual morphological features, such as acellular stalks, crateriformlike structures, and buds, with bacteria in the order planctomycetales. however, comparisons of 16s rrna sequences showed them to be members of the alpha-4 subdivision of the class proteobacteria and most closely related to the marine aerobic bacteriochlo ...19938427804
aerobic anoxygenic phototrophic bacteria.the aerobic anoxygenic phototrophic bacteria are a relatively recently discovered bacterial group. although taxonomically and phylogenetically heterogeneous, these bacteria share the following distinguishing features: the presence of bacteriochlorophyll a incorporated into reaction center and light-harvesting complexes, low levels of the photosynthetic unit in cells, an abundance of carotenoids, a strong inhibition by light of bacteriochlorophyll synthesis, and the inability to grow photosynthet ...19989729607
citromicrobium bathyomarinum, a novel aerobic bacterium isolated from deep-sea hydrothermal vent plume waters that contains photosynthetic pigment-protein complexes.we have taxonomically and phylogenetically characterized a new aerobic bacterial strain (jf-1) that contains photosynthetic pigment-protein complexes and which was recently isolated from black smoker plume waters of the juan de fuca ridge. strain jf-1 is a gram-negative, yellow-pigmented, motile bacterium that is salt-, ph-, and thermotolerant. these properties are consistent with an oligotrophic adaptation to varied environmental conditions thought to exist around deep-sea hydrothermal vents. t ...199910419948
characterization of porphyrobacter sanguineus sp. nov., an aerobic bacteriochlorophyll-containing bacterium capable of degrading biphenyl and dibenzofuran.three strains of " agrobacterium sanguineum", an aerobic marine bacterial species described previously, were re-characterized from phylogenetic and taxonomic viewpoints. 16s rdna sequence comparisons showed that the " a. sanguineum" strains belong to the alpha-4 subgroup of alpha-proteobacteria, with members of the genera erythromicrobium and porphyrobacter as their closest relatives. dna-dna hybridization studies indicated that the " a. sanguineum" strains were distinguishable from any previous ...200212070768
initial characterization of new bacteria degrading high-molecular weight polycyclic aromatic hydrocarbons isolated from a 2-year enrichment in a two-liquid-phase culture characterize some polycyclic aromatic hydrocarbons (pah)-degrading microorganisms isolated from an enriched consortium degrading high molecular weight (hmw) pahs in a two-liquid-phase (tlp) soil slurry bioreactor, and to determine the effect of low molecular weight (lmw) pah on their growth and hmw pah-degrading activity.200312534823
porphyrobacter cryptus sp. nov., a novel slightly thermophilic, aerobic, bacteriochlorophyll a-containing species.two strains of a novel aerobic, bacteriochlorophyll a-containing species of the alpha-4 subclass of the proteobacteria were isolated from the hot spring at alcafache in central portugal. 16s rrna gene sequence-based phylogenetic analyses showed the two novel isolates to be phylogenetically related to members of the genera erythrobacter, erythromicrobium and porphyrobacter. the strains produce reddish-orange-pigmented colonies, have an optimum growth temperature of about 50 degrees c and could be ...200312656149
the hierarchical system of the 'alphaproteobacteria': description of hyphomonadaceae fam. nov., xanthobacteraceae fam. nov. and erythrobacteraceae fam. nov.phylogenetic analysis of the class 'alphaproteobacteria', including physiologically diverse species, was conducted by using small-subunit rrna gene sequences. the 16s rrna gene sequences of 261 species in the class 'alphaproteobacteria' were obtained from genbank/embl/ddbj for constructing a phylogenetic tree by using maximum-likelihood analysis. in the resulting tree, members of the class 'alphaproteobacteria' were subdivided into five major clusters, which were compared with the taxonomic outl ...200516166687
[phylogenetic diversity of culturable bacteria in the ancient salt deposits of the yipinglang salt mine, p. r. china].the microbial diversity of cultivable bacteria, isolated from the ancient salt deposits from the yipinglang salt mine (ypl) in the yunnan province, p. r. china,was investigated by using conventional culture-dependent method and phylogenetic analyses based on 16s rrna gene sequence comparisons. 38 bacteria strains were isolated from the brine, halite and saline soil samples on mba (marine broth agar 2216, difco) and isp 2 (international streotomyces project medium 2) media supplemented with 0.5-3 ...200717944352
bacterial succession within an ephemeral hypereutrophic mojave desert playa lake.ephemerally wet playas are conspicuous features of arid landscapes worldwide; however, they have not been well studied as habitats for microorganisms. we tracked the geochemistry and microbial community in silver lake playa, california, over one flooding/desiccation cycle following the unusually wet winter of 2004-2005. over the course of the study, total dissolved solids increased by approximately 10-fold and ph increased by nearly one unit. as the lake contracted and temperatures increased ove ...200918758846
genetic characterization of microbial communities living at the surface of building stones.the aim of the present study was to reveal the microbial genetic diversity of epilithic biofilms using a dna-based procedure.200919552772
the photosynthetic apparatus and photoinduced electron transfer in the aerobic phototrophic bacteria roseicyclus mahoneyensis and porphyrobacter meromictius.photosynthetic electron transfer has been examined in whole cells, isolated membranes and in partially purified reaction centers (rcs) of roseicyclus mahoneyensis, strain ml6 and porphyrobacter meromictius, strain ml31, two species of obligate aerobic anoxygenic phototrophic bacteria. photochemical activity in strain ml31 was observed aerobically, but the photosynthetic apparatus was not functional under anaerobic conditions. in strain ml6 low levels of photochemistry were measured anaerobically ...201222228440
phylogenetic classification of heterotrophic bacteria associated with filamentous marine cyanobacteria in culture.fifty-one heterotrophic bacterial strains were isolated from the marine cyanobacterial cultures of heterocystous nodularia harveyana strain bo53 and non-heterocystous oscillatoria brevis strain bo10. fluorescence in situ hybridisation and fingerprinting methods were used for a preliminary taxonomical classification of 44 of the 51 isolates. the strains obtained from bo53 were mostly alphaproteobacteria (10/24), followed by bacteroidetes (7/24), and gammaproteobacteria (3/24). the affiliation of ...200919423262
porphyrobacter dokdonensis sp. nov., isolated from sea water.a gram-negative, non-motile, non-spore-forming, slightly halophilic bacterial strain, dsw-74t, was isolated from sea water off the island of dokdo, korea, and its taxonomic position was investigated by a polyphasic study. strain dsw-74t grew optimally at 37 degrees c and in the presence of 2 % (w/v) nacl. it contained q-10 as the predominant ubiquinone and c17 : 1omega6c and c18 : 1omega7c as the major fatty acids. its dna g+c content was 65.8 mol%. phylogenetic analyses based on 16s rrna gene s ...200616627658
description of toluene inhibition of methyl bromide biodegradation in seawater and isolation of a marine toluene oxidizer that degrades methyl bromide.methyl bromide (ch3br) and methyl chloride (ch3cl) are important precursors for destruction of stratospheric ozone, and oceanic uptake is an important component of the biogeochemical cycle of these methyl halides. in an effort to identify and characterize the organisms mediating halocarbon biodegradation, we surveyed the effect of potential cometabolic substrates on ch3br biodegradation using a 13ch3br incubation technique. toluene (160 to 200 nm) clearly inhibited ch3br and ch3cl degradation in ...200516000753
porphyrobacter donghaensis sp. nov., isolated from sea water of the east sea in korea.two gram-negative, motile, non-spore-forming, bacteriochlorophyll a-containing slightly halophilic strains, sw-132(t) and sw-158, were isolated from sea water of the east sea in korea, and subjected to a polyphasic taxonomic study. the two isolates were characterized chemotaxonomically as having q-10 as the predominant respiratory lipoquinone and major amounts of unsaturated fatty acids c(18 : 1)omega7c and c(17 : 1)omega6c. the dna g+c contents of the two strains were in the range 66.8-65.9 mol ...200415545463
erythrobacter citreus sp. nov., a yellow-pigmented bacterium that lacks bacteriochlorophyll a, isolated from the western mediterranean sea.two facultatively oligotrophic, intensely yellow-pigmented bacterial strains, re35f/1t and re10f/45, have been previously isolated from the western mediterranean sea (bay of calvi, corsica, france) by 0.2 microm membrane filtration. the organisms were gram-negative, catalase- and oxidase-positive, strictly aerobic, rod-shaped and non-motile. their respiratory lipoquinone profiles consisted exclusively of ubiquinone-10 (q-10) and the g+c contents of their dnas were 62.0 and 62.4 mol%, respectivel ...200212361270
emendation of the genus sphingomonas yabuuchi et al. 1990 and junior objective synonymy of the species of three genera, sphingobium, novosphingobium and sphingopyxis, in conjunction with blastomonas ursincola.the 16s rdna sequence similarities between the type strains of sphingomonas paucimobilis and 32 other sphingomonas species range from 90.2 to 99.6%. it might be possible to divide the genus into several new genera according to a dendrogram drawn from 16s rdna sequence similarity. however, the phenotypic and biochemical information needed to define clusters of strains representing distinct genera within this group of organisms was not previously available. although the cellular lipids of type str ...200212361250
proposal of sphingomonadaceae fam. nov., consisting of sphingomonas yabuuchi et al. 1990, erythrobacter shiba and shimidu 1982, erythromicrobium yurkov et al. 1994, porphyrobacter fuerst et al. 1993, zymomonas kluyver and van niel 1936, and sandaracinobacter yurkov et al. 1997, with the type genus sphingomonas yabuuchi et al. 1990.based on the results of phylogenetic analysis of the 16s rdna sequences and the presence of n-2'-hydroxymyristoyl dihydrosphingosine 1-glucuronic acid (sgl-1) and 2-hydroxymyristic acid (non-hydroxymyristic acid in zymomonas) in cellular lipids, a new family, sphingomonadaceae, for group 4 of the alpha-subclass of the class proteobacteria is herein proposed and a description of the family is given. the family consists of six genera, sphingomonas, erythrobacter, erythromicrobium, porphyrobacter, ...200010981829
porphyrobacter tepidarius sp. nov., a moderately thermophilic aerobic photosynthetic bacterium isolated from a hot spring.a new thermophilic bacterium, strain ot3t (t = type strain), was isolated from a brackish hot spring. strain ot3t is an obligate aerobe that synthesizes bacteriochlorophyll a and has a photosynthetic apparatus. this isolate is a thermophilic bacterium with an optimal growth temperature of 40 to 48 degrees c. the cells are nonmotile, ovoid to short rods. an analysis of 16s rrna sequences revealed that the new strain forms a coherent cluster with members of the alpha-4 group of the alpha subclass ...19979103629
biochemical characterization and 16s rrna sequencing of few lipase-producing thermophilic bacteria from taptapani hot water spring, orissa, india.three lipase-producing thermophilic bacteria (ak-p1, ak-p2, and ak-p3) were isolated from the taptapani hot water spring in orissa, india. the crude extra cellular lipases from cell-free culture supernatant were reacted in an olive oil mixture, and their lipolytic activities were compared. identification of the bacteria was carried out using biochemical tests, 16srrna sequencing and sequences submitted to ncbi genbank. strain ak-p3, exhibited the highest lipolytic activity of 5.5 u/ml was identi ...201121541249
altererythrobacter marinus sp. nov., isolated from deep seawater.a taxonomic study was carried out on strain h32(t), which was isolated from a crude-oil-degrading consortium enriched from deep seawater of the indian ocean. the 16s rrna gene sequence of strain h32(t) showed highest similarity to that of altererythrobacter luteolus sw-109(t) (96.7 %); lower similarities were observed with other members of the genus altererythrobacter (94.7-95.7 %) and with members of the genera erythrobacter (94.5-96.3 %), erythromicrobium (94.9 %) and porphyrobacter (94.3-95.3 ...200919628597
croceicoccus marinus gen. nov., sp. nov., a yellow-pigmented bacterium from deep-sea sediment, and emended description of the family erythrobacteraceae.a gram-negative, aerobic, neutrophilic, coccoid bacterium, strain e4a9t, was isolated from a deep-sea sediment sample collected from the east pacific polymetallic nodule region. 16s rrna gene sequence analysis showed that the isolate was related to the type strain of altererythrobacter epoxidivorans (96.0% sequence similarity). lower 16s rrna gene sequence similarities were observed with other members of the genera altererythrobacter (94.7%), erythrobacter (94.0-95.4%), erythromicrobium (94.8%) ...200919620383
porphyrobacter meromictius sp. nov., an appendaged bacterium, that produces bacteriochlorophyll a.four gram-negative strains (ml4(t), ml19, ml31, ml32) of nonmotile, appendaged, budding bacteria were isolated from the meromictic mahoney lake in british columbia, canada. the strains were red to brown-red in color and produced bacteriochlorophyll a incorporated into photosynthetic pigment-protein complexes. phylogenetic analysis has placed these strains within the class alphaproteobacteria, with the closest relatives being members of the genera erythrobacter, porphyrobacter, and erythromicrobi ...200717882507
identification of yellow-pigmented bacteria isolated from hospital tap water in japan and their chlorine resistance.twenty-five yellow chromogenic strains isolated from hospital tap water samples collected nationwide were identified by partial 16s rdna sequencing. in addition, the chlorine resistance of the isolates was experimentally investigated. the results showed that of the strains tested, 12 strains (48.0%) were sphingomonas ursincola/natatoria, which was most frequently identified, followed by 2 strains (8.0%) of mycobacterium frederiksbergense and 1 strain (4.0%) each of sphingomonas adhaesiva, sphing ...200717629244
altererythrobacter epoxidivorans gen. nov., sp. nov., an epoxide hydrolase-active, mesophilic marine bacterium isolated from cold-seep sediment, and reclassification of erythrobacter luteolus yoon et al. 2005 as altererythrobacter luteolus comb. nov.a novel marine bacterium, strain jcs350(t), was isolated from marine sediment samples collected from a cold-seep area. the 16s rrna gene sequence of the isolate showed high similarity to that of erythrobacter luteolus sw-109(t) (95.9 % sequence similarity). lower 16s rrna gene sequence similarities were shown to other members of the genus erythrobacter (94.6-95.4 %) and members of the genus porphyrobacter (94.5-95.2 %). phylogenetic analysis with all members of the family erythrobacteraceae and ...200717911284
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