| microbulbifer hydrolyticus gen. nov., sp. nov., and marinobacterium georgiense gen. nov., sp. nov., two marine bacteria from a lignin-rich pulp mill waste enrichment community. | two numerically important bacteria in marine pulp mill effluent enrichment cultures were isolated. these organisms were gram-negative, rod-shaped, strictly aerobic bacteria. isolate ire-31t (t = type strain) produced hydrolytic enzymes for the breakdown of cellulose, xylan, chitin, gelatin, and tween 80. it also utilized a variety of monosaccharides, disaccharides, amino acids, and volatile fatty acids for growth. isolate kw-40t did not utilize natural polymers, but it could grow on a variety of ... | 1997 | 9103623 |
| microbial communities of printing paper machines. | the microbial content of printing paper machines, running at a temperature of 45-50 degrees c and at ph 4.5-5, was studied. bacteria were prevalent colonizers of the machine wet end and the raw materials. a total of 390 strains of aerobic bacteria were isolated and 86% of these were identified to genus and species by biochemical, chemotaxonomic and phylogenetic methods. the most common bacteria found at the machine wet end were bacillus coagulans and other bacillus species, burkholderia cepacia, ... | 1998 | 9717292 |
| phylogenetic characterization of marine bacterium strain 2-40, a degrader of complex polysaccharides. | the marine bacterium strain 2-40 was isolated from the salt marsh cord grass, spartina alterniflora, in the chesapeake bay watershed, va, usa. it is gram-negative, requires sea salts and is a strict aerobe. it degrades numerous complex polysaccharides and synthesizes eumelanin. by 16s rdna analysis, the isolate was shown to be a member of the gamma-subclass of the proteobacteria, related to microbulbifer hydrolyticus and to a cellulolytic nitrogen-fixing bacterium. | 2000 | 10758894 |
| transfer of pseudomonas elongata humm 1946 to the genus microbulbifer as microbulbifer elongatus comb. nov. | phylogenetic analysis based on 16s rdna sequences revealed that pseudomonas elongata humm 1946 is more closely related to the genus microbulbifer than to authentic pseudomonads. the type strain of p. elongata (dsm 6810(t)) exhibited 16s rdna similarity levels of 97.5 and 98.2 % to the type strains of microbulbifer hydrolyticus and microbulbifer salipaludis, respectively, but of less than approximately 92 % to pseudomonas species with known 16s rdna sequences. respiratory lipoquinone and cellular ... | 2003 | 13130018 |
| a note on enterobius vermicularis microbulbus yamashita and konno (1957). | | 1961 | 13717706 |
| prospecting for novel biocatalysts in a soil metagenome. | the metagenomes of complex microbial communities are rich sources of novel biocatalysts. we exploited the metagenome of a mixed microbial population for isolation of more than 15 different genes encoding novel biocatalysts by using a combined cultivation and direct cloning strategy. a 16s rrna sequence analysis revealed the presence of hitherto uncultured microbes closely related to the genera pseudomonas, agrobacterium, xanthomonas, microbulbifer, and janthinobacterium. total genomic dna from t ... | 2003 | 14532085 |
| chitinase b of "microbulbifer degradans" 2-40 contains two catalytic domains with different chitinolytic activities. | chitinase b of "microbulbifer degradans" 2-40 is a modular protein that is predicted to contain two glycoside hydrolase family 18 (gh18) catalytic domains, two polyserine domains, and an acidic repeat domain. each of the gh18 domains was shown to be catalytically active against chitin. activity assays reveal that the amino-terminal catalytic domain (gh18(n)) releases methylumbelliferone from 4'-methylumbelliferyl-n,n'-diacetylchitobiose 13.6-fold faster than the carboxy-terminal catalytic domain ... | 2004 | 14973034 |
| [lipid composition of novel shewanella species isolated from far eastern seas]. | a comparative study of the lipid composition of 26 strains (including type strains) of marine gammaproteobacteria belonging to the genera shewanella, alteromonas, pseudoalteromonas, marinobacterium, microbulbifer, and marinobacter was carried out. the bacteria exhibited genus-specific profiles of ubiquinones, phospholipids, and fatty acids, which can serve as reliable chemotaxonomic markers for tentative identification of new isolates. the studied species of the genus shewanella were distinguish ... | 2005 | 16400986 |
| in situ reverse transcription, an approach to characterize genetic diversity and activities of prokaryotes. | reverse transcription of rna molecules inside intact bacterial cells was carried out by using reverse transcriptase with a single oligonucleotide complementary to specific 16s rrna or mrna sequences. fluorescently labeled nucleotides were incorporated into each transcribed cdna inside cells. this protocol is termed in situ reverse transcription (isrt). in this study, by using species-specific primers targeting unique regions of the 16s rrna sequences, isrt was used successfully to detect and enu ... | 1997 | 16535753 |
| characterization of hydrocarbonoclastic bacterial communities from mangrove sediments in guanabara bay, brazil. | hydrocarbonoclastic bacterial communities inhabiting mangrove sediments were characterized by combining molecular and culture-dependent approaches. surface sediments were collected at two sampling sites in guanabara bay (rio de janeiro, brazil) and used to inoculate in vitro enrichment cultures containing crude oil to obtain hydrocarbonoclastic bacterial consortia. in parallel, in situ mesocosms (located in the guapimirim mangrove) were contaminated with petroleum. comparison of bacterial commun ... | 2006 | 16815684 |
| discovery of a marine bacterium producing 4-hydroxybenzoate and its alkyl esters, parabens. | chemically synthesized 4-hydroxybenzoate (4hba) is widely used in the chemical and electrical industries as a material for producing polymers such as those of the liquid crystal type. its alkyl esters, called parabens, have been the most widely used preservatives by the food and cosmetic industries. we report here for the first time a microorganism, a marine bacterium, which biosynthesizes these petrochemical products. the marine bacterial strain, a4b-17, which was found to belong to the genus m ... | 2006 | 16885309 |
| bacteria associated with the bleached and cave coral oculina patagonica. | the relative abundance of bacteria in the mucus and tissues of oculina patagonica taken from bleached and cave (azooxanthellae) corals was determined by analyses of the 16s rrna genes from cloned libraries of extracted dna and from isolated colonies. the results were compared to previously published data on healthy o. patagonica. the bacterial community of bleached, cave, and healthy corals were completely different from each other. a tight cluster (>99.5% identity) of bacteria, showing 100% ide ... | 2008 | 17940819 |
| characterization of the microbial community and polyketide biosynthetic potential in the palmerolide-producing tunicate synoicum adareanum. | palmerolide a (1) is a macrolide isolated from the antarctic tunicate synoicum adareanum that is of interest due to its potential as an antimelanoma drug. biosynthesis is predicted to occur via a hybrid pks-nrps pathway within s. adareanum, but the identity of the palmerolide-producing organism (host or putative host-associated microorganism) has not been established. microscopic observation revealed a dense microbial community inside the tunicate, and evidence from 16s rrna gene dgge profiles a ... | 2008 | 18950228 |
| novel natural parabens produced by a microbulbifer bacterium in its calcareous sponge host leuconia nivea. | a broad variety of natural parabens, including four novel structures and known ethyl and butyl parabens, were obtained from culture of a microbulbifer sp. bacterial strain isolated from the temperate calcareous marine sponge leuconia nivea (grant 1826). their structures were elucidated from spectral analysis, including mass spectrometry and 1d and 2d nuclear magnetic resonance. their antimicrobial activity evaluated against staphylococcus aureus was characterized by much higher in vitro activity ... | 2009 | 19226298 |
| microbulbifer donghaiensis sp. nov., isolated from marine sediment of the east china sea. | a gram-negative, aerobic, neutrophilic, rod-shaped bacterium, designated strain cn85(t), was isolated from a sediment sample collected from the east china sea and was subjected to a polyphasic taxonomic characterization. this isolate grew in the presence of 0.5-6.0 % (w/v) nacl and at 20-40 degrees c; optimum growth was observed with 3 % (w/v) nacl and at 35 degrees c. chemotaxonomic analysis showed that q-8 was the predominant respiratory quinone and that iso-c(15 : 0), iso-c(11 : 0) 3-oh, iso- ... | 2009 | 19244438 |
| microbulbifer variabilis sp. nov. and microbulbifer epialgicus sp. nov., isolated from pacific marine algae, possess a rod-coccus cell cycle in association with the growth phase. | phylogenetic and taxonomic characterization was performed for 14 strains of bacteria that produce anticancer antibiotics (pelagiomicins) (represented by strain ni-2088(t)) and one strain that produces uv-absorbing substances (strain f-104(t)), isolated from marine algae and seagrass collected from coastal areas of tropical pacific islands and a subtropical island of japan. all 15 isolates were gram-negative, strictly aerobic, non-motile and non-spore-forming. sequence analysis of the 16s rrna ge ... | 2009 | 19542114 |
| characterization of microbulbifer strain cmc-5, a new biochemical variant of microbulbifer elongatus type strain dsm6810t isolated from decomposing seaweeds. | a gram-negative, rod-shaped, non-spore forming, non-motile and moderate halophilic bacteria designated as strain cmc-5 was isolated from decomposing seaweeds by enrichment culture. the growth of strain cmc-5 was assessed in synthetic seawater-based medium containing polysaccharide. the bacterium degraded and utilized agar, alginate, carrageenan, xylan, carboxymethyl cellulose and chitin. the strain was characterized using a polyphasic approach for taxonomic identification. cellular fatty acid an ... | 2009 | 19701665 |
| arenicella xantha gen. nov., sp. nov., a gammaproteobacterium isolated from a marine sandy sediment. | a gram-negative, aerobic, yellow-pigmented, rod-shaped, non-motile bacterium, strain kmm 3895t, was isolated from a marine sandy sample collected offshore from the sea of japan. phylogenetic analysis based on the 16s rrna gene sequence placed strain kmm 3895t in the class gammaproteobacteria, forming a separate branch, sharing 89.5 % sequence similarity with nitrincola lacisaponensis 4cat and 88-87% similarity with the other members of the cluster, including members of kangiella, spongiibacter, ... | 2010 | 19767361 |
| [diversity of halophilic and halotolerant bacteria isolated from non-saline soil collected from xiaoxi national natural reserve, hunan province]. | to investigate the diversity of cultivable halophilic and halotolerant bacteria isolated from ordinary non-saline soil samples collected from xiaoxi national natural reserve (28 degrees 42' 15"-28 degrees 53' 15" n, 110 degrees 6' 50"-110 degrees 21' 35" e), hunan province, china. | 2010 | 21268889 |
| antimicrobial activity observed among cultured marine epiphytic bacteria reflects their potential as a source of new drugs. | the surfaces of marine eukaryotes provide a unique habitat for colonizing microorganisms where competition between members of these communities and chemically mediated interactions with their host are thought to influence both microbial diversity and function. for example, it is believed that marine eukaryotes may use their surface-associated bacteria to produce bioactive compounds in defence against competition and to protect the host against further colonization. with the increasing need for n ... | 2009 | 19453738 |
| isolation and characterization of microbulbifer species 6532a degrading seaweed thalli to single cell detritus particles. | to reduce the volume of seaweed wastes and extract polysaccharides, seaweed-degrading bacteria were isolated from drifting macroalgae harvested along the coast of toyama bay, japan. sixty-four bacterial isolates were capable of degrading "wakame" (undaria pinnatifida) thallus fragments into single cell detritus (scd) particles. amongst these, strain 6532a was the most active degrader of thallus fragments, and was capable of degrading thallus fragments to scd particles within a day. although the ... | 2011 | 21681519 |
| porticoccus hydrocarbonoclasticus sp. nov., an aromatic hydrocarbon-degrading bacterium identified in laboratory cultures of marine phytoplankton. | a marine bacterium, designated strain mctg13d, was isolated from a laboratory culture of the dinoflagellate lingulodinium polyedrum ccap1121/2 by enrichment with polycyclic aromatic hydrocarbons (pahs) as the sole carbon source. based on 16s rrna gene sequence comparisons, the strain was most closely related to porticoccus litoralis imcc2115(t) (96.5%) and to members of the genera microbulbifer (91.4 to 93.7%) and marinimicrobium (90.4 to 92.0%). phylogenetic trees showed that the strain cluster ... | 2011 | 22139001 |
| microorganisms involved in anaerobic phenol degradation in the treatment of synthetic coke-oven wastewater detected by rna stable-isotope probing. | an rna-based stable-isotope probing method was used to identify anaerobic phenol-assimilating bacteria present in activated sludge and used to treat synthetic coke-oven wastewater. activated sludge was fed with nitrate and (13)c-labeled or unlabeled phenol under anaerobic conditions. after the incubation period, rna was extracted from the activated sludge and separated by isopycnic centrifugation. bacterial rrna in each density fraction was analyzed by reverse transcription-pcr-mediated terminal ... | 2009 | 19146573 |
| the structural diversity of carbohydrate antigens of selected gram-negative marine bacteria. | marine microorganisms have evolved for millions of years to survive in the environments characterized by one or more extreme physical or chemical parameters, e.g., high pressure, low temperature or high salinity. marine bacteria have the ability to produce a range of biologically active molecules, such as antibiotics, toxins and antitoxins, antitumor and antimicrobial agents, and as a result, they have been a topic of research interest for many years. among these biologically active molecules, t ... | 2011 | 22073003 |
| microbulbifer halophilus sp. nov., a moderately halophilic bacterium from north-west china. | a gram-negative, rod-shaped, moderately halophilic bacterium, designated strain yim 91118(t), motile with a single polar flagellum, was isolated from xinjiang province in north-west china and subjected to a polyphasic taxonomic study. strain yim 91118(t) grew optimally at 37 degrees c, ph 7.0-8.0 and 10% nacl (w/v). its major cellular fatty acids were iso-c(15:0), iso-c(17:0), c(16:0) and iso-c(17:1)omega9c. the predominant lipoquinone was q-8. the dna g+c content was 63.2 mol%. all of these che ... | 2008 | 18768600 |
| microbulbifer agarilyticus sp. nov. and microbulbifer thermotolerans sp. nov., agar-degrading bacteria isolated from deep-sea sediment. | nine agar-degrading strains, designated jamb a3t, jamb a7, jamb a24, jamb a33, jamb a94t, jamm 0654, jamm 0793, jamm 1327 and jamm 1340, were isolated from deep-sea sediment in suruga bay and sagami bay and off kagoshima, japan. on the basis of 16s rrna gene sequence analysis, the strains were found to be closely affiliated with members of the genera microbulbifer and thalassomonas. the hybridization values for dna-dna relatedness between two of these strains and microbulbifer reference strains ... | 2008 | 18450701 |
| simiduia agarivorans gen. nov., sp. nov., a marine, agarolytic bacterium isolated from shallow coastal water from keelung, taiwan. | a gram-negative, heterotrophic, agarolytic, marine bacterium, designated strain sa1t, was isolated from a seawater sample collected in the shallow coastal region of keelung, taiwan. cells were straight to slightly curved rods. nearly all of the cells were non-motile and non-flagellated during the exponential phase of growth in broth cultures; a few cells (<1 %) were motile and were considered to have monotrichous flagella. the isolate required nacl for growth and grew optimally at 30-35 degrees ... | 2008 | 18398190 |
| microbulbifer celer sp. nov., isolated from a marine solar saltern of the yellow sea in korea. | a gram-negative, non-motile, rod-shaped, microbulbifer-like bacterial strain, isl-39(t), was isolated from a marine solar saltern of the yellow sea in korea and was subjected to a polyphasic taxonomic investigation. strain isl-39(t) grew optimally at ph 7.0-8.0 and 37 degrees c. it contained q-8 as the predominant ubiquinone and iso-c(15 : 0), c(16 : 0) and iso-c(17 : 0) as the major fatty acids. the dna g+c content was 57.7 mol%. a phylogenetic analysis based on 16s rrna gene sequences showed t ... | 2007 | 17911312 |
| endozoicomonas elysicola gen. nov., sp. nov., a gamma-proteobacterium isolated from the sea slug elysia ornata. | a gram-negative, strictly aerobic, rod-formed bacterium, strain mkt110(t), was isolated from a mollusk, the sea slug elysia ornata collected in seawater off the coast of izu-miyake island, japan at a depth of 15m. comparative 16s rrna gene sequences analysis indicated that the isolate mkt110(t) constituted a novel lineage in gamma-proteobacteria related to the genera zooshikella, oceanospirillum, microbulbifer, marinobacter, saccharospirillum and pseudomonas. the strain mkt110(t) was closely rel ... | 2007 | 16904280 |
| genomic and proteomic analyses of the agarolytic system expressed by saccharophagus degradans 2-40. | saccharophagus degradans 2-40 (formerly microbulbifer degradans 2-40) is a marine gamma-subgroup proteobacterium capable of degrading many complex polysaccharides, such as agar. while several agarolytic systems have been characterized biochemically, the genetics of agarolytic systems have been only partially determined. by use of genomic, proteomic, and genetic approaches, the components of the s. degradans 2-40 agarolytic system were identified. five agarases were identified in the s. degradans ... | 2006 | 16672483 |
| marinimicrobium koreense gen. nov., sp. nov. and marinimicrobium agarilyticum sp. nov., novel moderately halotolerant bacteria isolated from tidal flat sediment in korea. | two moderately halotolerant gram-negative bacteria were isolated from tidal flat sediment of the south sea in korea (the korea strait). the strains, designated m9t and m18t, were strictly aerobic, rod-shaped and non-spore-forming and motile with a flagellum and their major fatty acids were c(16:0) and c(19:0) cyclo omega8c. strains m9t and m18t could grow in the presence of up to 13-15% (w/v) nacl, but their optimum salt concentrations were relatively low (0-3%, w/v). the major predominant isopr ... | 2006 | 16514044 |
| saccharophagus degradans gen. nov., sp. nov., a versatile marine degrader of complex polysaccharides. | gammaproteobacteria belonging and related to the genus microbulbifer are an emerging group of complex carbohydrate-degrading marine bacteria. previously, all of the representatives were placed within microbulbifer or were unclassified. recently, a new genus, teredinibacter, represented by a single species, teredinibacter turnerae, was formed to include an endosymbiotic branch of these organisms. in this study, based on 16s rrna gene sequence similarity and phenotypic analyses, a new genus, sacch ... | 2005 | 16014479 |
| cloning, expression, and characterization of a glycoside hydrolase family 86 beta-agarase from a deep-sea microbulbifer-like isolate. | the gene for a novel beta-agarase from a deep-sea microbulbifer-like isolate was cloned and sequenced. it encoded a mature protein of 126,921 da (1146 amino acids), which was a modular protein including two tandem carbohydrate-binding module (cbm)-like sequences and a catalytic module. the catalytic module resembled a glycoside hydrolase family 86 beta-agarase, agra, from pseudoalteromonas atlantica t6c with 31% amino acid identity. its recombinant agarase was hyper-produced extracellularly usin ... | 2004 | 15490156 |
| microbulbifer maritimus sp. nov., isolated from an intertidal sediment from the yellow sea, korea. | a gram-negative, rod-shaped, non-spore-forming, slightly halophilic bacterium (strain tf-17t) was isolated from an intertidal sediment from the yellow sea, korea. pigment of strain tf-17t was similar to that of microbulbifer elongatus, but different from those of microbulbifer hydrolyticus and microbulbifer salipaludis. strain tf-17t was distinguishable from m. elongatus by some phenotypic properties, including motility, optimal growth temperature and others. phylogenetic analysis based on 16s r ... | 2004 | 15280278 |
| enzymatic properties and nucleotide and amino acid sequences of a thermostable beta-agarase from the novel marine isolate, jamb-a94. | a gene, agaa, for a novel beta-agarase from the marine bacterium jamb-a94 was cloned and sequenced. the 16s rdna of the isolate had the closest match, of only 94.8% homology, with that from microbulbifer salipaludis jcm11542(t). the agaa gene encoded a protein with a calculated molecular mass of 48,203 da. the deduced amino acid sequence showed 37-66% identity to those of known agarases in glycoside hydrolase family 16. a carbohydrate-binding module-like amino acid sequence was found in the c-te ... | 2004 | 15170112 |
| identification and analysis of polyserine linker domains in prokaryotic proteins with emphasis on the marine bacterium microbulbifer degradans. | polyserine linkers (psls) are interdomain, serine-rich sequences found in modular proteins. though common among eukaryotes, their presence in prokaryotic enzymes is limited. we identified 46 extracellular proteins involved in complex carbohydrate degradation from microbulbifer degradans that contain psls that separate carbohydrate-binding domains or catalytic domains from other binding domains. in nine m. degradans proteins, psls also separated amino-terminal lipoprotein acylation sites from the ... | 2004 | 15075401 |
| horizontal gene transfer from eukarya to bacteria and domain shuffling: the alpha-amylase model. | alpha-amylases are present in all kingdoms of the living world. despite strong conservation of the tertiary structure, only a few amino acids are conserved in interkingdom comparisons. animal alpha-amylases are characterized by several typical motifs and biochemical properties. a few cases of such alpha-amylases have been previously reported in some eubacterial species. we screened the bacterial genomes available in the sequence databases for new occurrences of animal-like alpha-amylases. three ... | 2004 | 14704857 |
| microbulbifer arenaceous sp. nov., a new endolithic bacterium isolated from the inside of red sandstone. | an endolithic bacterium, strain rsbr-1, was isolated from the inside of a piece of red sandstone from coastal areas of scotland. rsbr-1 was gram negative, oxidase and catalase positive, and cells were non-motile rods. sodium was required for growth. the optimum sodium chloride concentration and ph for growth were 4% and ph 8.0, respectively. eumelanin was produced in marine broth and in by medium. rsbr-1 hydrolyzes chitin, esculin, gelatin, and starch, but not agar. nitrate reduction is positive ... | 2003 | 14669920 |
| genomic analysis and initial characterization of the chitinolytic system of microbulbifer degradans strain 2-40. | the marine bacterium microbulbifer degradans strain 2-40 produces at least 10 enzyme systems for degrading insoluble complex polysaccharides (icp). the draft sequence of the 2-40 genome allowed a genome-wide analysis of the chitinolytic system of strain 2-40. the chitinolytic system includes three secreted chitin depolymerases (chia, chib, and chic), a secreted chitin-binding protein (cbpa), periplasmic chitooligosaccharide-modifying enzymes, putative sugar transporters, and a cluster of genes e ... | 2003 | 12754233 |
| microbulbifer salipaludis sp. nov., a moderate halophile isolated from a korean salt marsh. | a gram-negative, non-motile, non-spore-forming, moderately halophilic rod (strain sm-1t) was isolated from salt marsh around the junction of the youngsan river and the yellow sea in korea and subjected to a polyphasic taxonomic study. this organism grew optimally at 37 degrees c and was able to grow at 10 and 45 degrees c. it grew optimally in the presence of 2-3% (w/v) nacl. the major fatty acids in strain sm-1t were iso-c15:0 and c16:0. strain sm-1t and microbulbifer hydrolyticus dsm 11525t we ... | 2003 | 12656152 |
| simiduia areninigrae sp. nov., a novel agarolytic bacterium isolated from sea sand. | during a study intended to screen for agar degrading bacteria, strain m2-5(t), was isolated from black sand off the shore of jeju island, republic of korea. strain m2-5(t) exhibited agarase activity and had a ╬▓-agarase gene with 62% amino acid sequence identity to the ╬▓-agarase gene of microbulbifer thermotolerans jamb-a94. the isolate was closely related to the genus simiduia but was clearly discernible from the reported simiduia species, according to polyphasic analysis. strain m2-5(t) was g ... | 2011 | 21669928 |
| microbulbifer marinus sp. nov. and microbulbifer yueqingensis sp. nov., isolated from marine sediment in yueqing bay of zhejiang province, china. | two gram-negative, aerobic strains, y215(t) and y226(t), were isolated from the sediment in yueqing bay of zhejiang province, china. the two novel strains are both positive for oxidase activity, nitrate reduction, aesculin and casein decomposition, but negative for gelatin and tyrosine decomposition. catalase activity, starch and tween 80 decomposition are different for them. cells of both the two novel strains were rods in young culture and converted to ovoid cells in older culture. optimum nac ... | 2011 | 21478393 |
| microbulbifer chitinilyticus sp. nov. and microbulbifer okinawensis sp. nov., chitin-degrading bacteria isolated from mangrove forests. | three chitin-degrading strains representing two novel species were isolated from mangrove forests in okinawa, japan. the isolated strains, ababa23(t), ababa211 and ababa212(t) were gram-negative, non-spore-forming and strictly aerobic chemo-organotroph. the novel strains were able to produce isoprenoid quinone q-8 as the major component. the predominant fatty acids were iso-c(15:0) and c(16:0). on the basis of 16s rrna gene sequence analysis, the isolated strains were closely affiliated with mem ... | 2010 | 20935083 |
| hyper-production and characterization of the ι-carrageenase useful for ι-carrageenan oligosaccharide production from a deep-sea bacterium, microbulbifer thermotolerans jamb-a94(t), and insight into the unusual catalytic mechanism. | a gene of unknown function from the genome of the agar-degrading deep-sea bacterium microbulbifer thermotolerans jamb-a94(t) was functionally identified as a ι-carrageenase gene. this gene, designated as cgia, is located together with two β-agarase genes, agaa and agao in a cluster. the cgia gene product is 569 amino acids and shares 29% identity over 185 amino acids with the ι-carrageenase from zobellia galactanivorans dsij dsm 12802. recombinant, cgia-encoded ι-carrageenase (55 kda) was hyper- ... | 2010 | 20686828 |
| porticoccus litoralis gen. nov., sp. nov., a gammaproteobacterium isolated from the yellow sea. | a marine bacterium, designated imcc2115(t), was isolated from coastal seawater (yellow sea, korea) using a high throughput cultivation method based on dilution-to-extinction, and taxonomically investigated. cells of the strain formed tiny, beige to off-white colonies and were gram-stain-negative, obligately aerobic, chemoheterotrophic, non-motile cocci. based on 16s rrna gene sequence comparisons, the strain was most closely related to the genera marinimicrobium (92.0-92.4 %) and microbulbifer ( ... | 2010 | 19656934 |
| umboniibacter marinipuniceus gen. nov., sp. nov., a marine gammaproteobacterium isolated from the mollusc umbonium costatum from the sea of japan. | two bacterial strains, kmm 3891(t) and kmm 3892, were isolated from internal tissues of the marine mollusc umbonium costatum collected from the sea of japan. the novel isolates were gram-negative, aerobic, faint pink-reddish-pigmented, rod-shaped, non-motile, stenohaline and psychrotolerant bacteria that were unable to degrade most tested complex polysaccharides. polar lipids consisted of phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. fatty acid analysis revealed c(17 ... | 2010 | 19654350 |
| microbulbifer taiwanensis sp. nov., isolated from lutao island (green island) soil. | a gram-negative, non-spore forming rod (cc-ln1-12t) was isolated from soil samples of green island (lutao), taiwan and studied for its taxonomic allocation. 16s rrna gene sequence analysis showed that isolate cc-ln1-12t was grouped into the microbulbifer cluster, with the highest similarities to the type strain of microbulbifer okinawensis (97.9%), microbulbifer maritimus (97.7%) and microbulbifer donghaensis (97.7 %), similarities to all other microbulbifer species was lower than 96.8%. the pol ... | 2011 | 22155758 |
| enzymatic properties and nucleotide and amino acid sequences of a thermostable beta-agarase from a novel species of deep-sea microbulbifer. | an agar-degrading bacterium, strain jamb-a7, was isolated from the sediment in sagami bay, japan, at a depth of 1,174 m and identified as a novel species of the genus microbulbifer. the gene for a novel beta-agarase from the isolate was cloned and sequenced. it encodes a protein of 441 amino acids with a calculated molecular mass of 48,989 da. the deduced amino acid sequence showed similarity to those of known beta-agarases in glycoside hydrolase family 16, with only 34-55% identity. a sequence ... | 2004 | 15088129 |