| biogeography of the ubiquitous marine bacterium alteromonas macleodii determined by multilocus sequence analysis. | twenty-three isolates of the widely distributed marine bacteria alteromonas macleodii have been analysed by multilocus sequence analysis combined with phylogenetic and multivariate statistical analyses. the strains originated from the pacific ocean, mediterranean sea, english channel, black sea and thailand. using the nucleotide sequences of nine loci for each of the 23 isolates, a robust identification was achieved of different clades within the single species. strains generally clustered with ... | 2008 | 19238708 |
| psychrilyobacter atlanticus gen. nov., sp. nov., a marine member of the phylum fusobacteria that produces h2 and degrades nitramine explosives under low temperature conditions. | a gram-negative and obligately anaerobic marine bacterium, strain haw-eb21(t), was isolated in a previous study from marine sediment from the atlantic ocean, near halifax harbor, canada, and found to have the potential to degrade both hexahydro-1,3,5-trinitro-1,3,5-triazine and octahydro-1,3,5,7-tetranitro-1,3,5,7-tetrazocine. in the present study, phylogenetic analyses showed that strain haw-eb21(t) was only distantly related to the genera propionigenium and ilyobacter with 6.6-7.5 % and 8.2-10 ... | 2009 | 19244428 |
| examination of the mechanism of phenanthrenequinone toxicity to vibrio fischeri: evidence for a reactive oxygen species-mediated toxicity mechanism. | phenanthrenequinone (phq) is a photoproduct of phenanthrene, one of the most prevalent polycyclic aromatic hydrocarbons in the environment. phenanthrenequinone is a compound of substantial interest, because its toxicity can be much greater than its parent chemical to aquatic organisms. the toxicity mechanisms of phq to the luminescent marine bacterium vibrio fischeri were examined in the present study. phenanthrenequinone can redox cycle in bacterial cells and transfer electrons to o2, enhancing ... | 2009 | 19265456 |
| photobacterium damsela wound infection in a 14-year-old surfer. | photobacterium damsela (p damsela) is a common marine bacterium. rare reports of p damsela causing septicemia and wound infection have been described in children. we report a case of photobacterium damsela isolated from a wound culture taken from a 14-year-old male injured after a minor trauma while surfing. we alert physicians to this infection and the importance of early diagnosis and appropriate antimicrobial therapy for wound infection following seawater injury. | 2009 | 19279534 |
| antiadhesive action of a marine microbial surfactant. | the antiadhesive action of a lipopeptide biosurfactant from a marine bacterium was investigated. the effect of cultivation conditions on the adhesion property of few bacterial strains was studied. it was observed that the static cultures showed greater adhesion due to scarcity of oxygen. the biosurfactant upon surface conditioning was found to be effective in removal of the microbial adhesion at a concentration as low as 0.1 g l(-1). the percentages of inhibition of adhesion against different te ... | 2009 | 19285837 |
| an improved isolation method for attached-living planctomycetes of the genus rhodopirellula. | rhodopirellula baltica, an attached-living marine bacterium, was so far isolated as aerobic, heterotrophic bacterium forming pink-to-red colonies on ampicillin-containing plates. but many bacteria grow in the presence of ampicillin: marine samples from european seas contained on average 10,365 colony forming bacteria per ml water sample or sediment. therefore we developed an improved enrichment protocol to isolate rhodopirellula strains. to include attached-living bacteria, particles, plankton c ... | 2009 | 19303037 |
| loihichelins a-f, a suite of amphiphilic siderophores produced by the marine bacterium halomonas lob-5. | a suite of amphiphilic siderophores, loihichelins a-f, were isolated from cultures of the marine bacterium halomonas sp. lob-5. this heterotrophic mn(ii)-oxidizing bacterium was recently isolated from the partially weathered surfaces of submarine glassy pillow basalts and associated hydrothermal flocs of iron oxides collected from the southern rift zone of loihi seamount east of hawai'i. the loihichelins contain a hydrophilic headgroup consisting of an octapeptide comprised of d-threo-beta-hydro ... | 2009 | 19320498 |
| evidence of methanesulfonate utilizers in the sargasso sea metagenome. | methanesulfonate (msa) is one of the products of the photo-oxidation of dimethylsulfide in the atmosphere. the genes responsible for the import of msa into the cell (msm efgh) and for its oxidation to formaldehyde (msm abcd) have been previously sequenced from the soil bacterium methylosulfonomonas methylovora str. m2 while genes for an msa monooxygenase have been sequenced from marine bacterium marinosulfonomonas methylotropha str. tr3. we performed a sequence-based screening of the sargasso se ... | 2009 | 19322831 |
| anti-methicillin-resistant staphylococcus aureus (mrsa) activity of mc21-b, an antibacterial compound produced by the marine bacterium pseudoalteromonas phenolica o-bc30t. | the aim of this study was to purify, characterise and evaluate the in vitro activity of mc21-b, an antibiotic produced by the marine bacterium pseudoalteromonas phenolica o-bc30(t). mc21-b was purified by sequential silica and cosmosil chromatography followed by high-performance liquid chromatography (hplc). the chemical structure of mc21-b was determined by ultraviolet, infrared, electron impact mass and nuclear magnetic resonance spectrometric analyses. to evaluate its antibacterial activity, ... | 2009 | 19329285 |
| pelagibius litoralis gen. nov., sp. nov., a marine bacterium in the family rhodospirillaceae isolated from coastal seawater. | a gram-negative, strictly aerobic, slightly curved rod-shaped bacterial strain, designated cl-uu02(t), was isolated from coastal seawater off the east coast of korea. 16s rrna gene sequence analysis revealed a clear affiliation of this novel strain with the family rhodospirillaceae. strain cl-uu02(t) formed a robust cluster with the type strains of species of the genus rhodovibrio at 16s rrna gene sequence similarity levels of 89.9-90.4 %. strain cl-uu02(t) shared no more than 89 % 16s rrna gene ... | 2009 | 19329613 |
| marinobacter santoriniensis sp. nov., an arsenate-respiring and arsenite-oxidizing bacterium isolated from hydrothermal sediment. | a gram-negative, arsenate-respiring and arsenite-oxidizing marine bacterium, nksg1(t), was isolated from hydrothermal sediment at santorini, greece. strain nksg1(t) was a facultatively anaerobic, motile, non-spore-forming, rod-shaped bacterium. growth occurred optimally at 35-40 degrees c, between ph 5.5 and 9.0 and with 0.5-16 % nacl. energy was conserved by the aerobic oxidation of a range of complex substrates, carbohydrates and organic acids, or anaerobically by arsenate reduction, nitrate r ... | 2009 | 19329625 |
| gene cloning, expression, and characterization of a beta-agarase, agab34,from agarivorans albus ykw-34. | a beta-agarase gene, agab34, was functionally cloned from the genomic dna of a marine bacterium, agarivorans albus ykw-34. the open reading frame of agab34 consisted of 1,362 bp encoding 453 amino acids. the deduced amino acid sequence, consisting of a typical n-terminal signal peptide followed by a catalytic domain of glycoside hydrolase family 16 (gh-16) and a carbohydrate-binding module (cbm), showed 37-86% identity to those of agarases belonging to family gh-16. the recombinant enzyme (ragab ... | 2009 | 19349750 |
| in vitro characterization of a recombinant blh protein from an uncultured marine bacterium as a beta-carotene 15,15'-dioxygenase. | codon optimization was used to synthesize the blh gene from the uncultured marine bacterium 66a03 for expression in escherichia coli. the expressed enzyme cleaved beta-carotene at its central double bond (15,15') to yield two molecules of all-trans-retinal. the molecular mass of the native purified enzyme was approximately 64 kda as a dimer of 32-kda subunits. the k(m), k(cat), and k(cat)/k(m) values for beta-carotene as substrate were 37 mum, 3.6 min(-1), and 97 mm(-1) min(-1), respectively. th ... | 2009 | 19366683 |
| marinobacter zhanjiangensis sp. nov., a marine bacterium isolated from sea water of a tidal flat of the south china sea. | a novel gram-negative, catalase- and oxidase-positive, non-sporulating, rod-shaped, aerobic bacterium, designated strain jsm 078120(t), was isolated from sea water collected from a tidal flat of naozhou island, south china sea. growth occurred with 1-15% (w/v) total salts (optimum, 2-4%), at ph 6.0-10.0 (optimum, ph 7.5) and at 4-35 degrees c (optimum, 25-30 degrees c). the major cellular fatty acids were c(18:1) omega9c, c(16:0), c(12:0) 3-oh and c(16:1) omega7c. the predominant respiratory qui ... | 2009 | 19390986 |
| the respiratory system of the marine bacterium beneckea natriegens. i. cytochrome composition. | (1) the cytochrome composition of beneckea natriegens grown under aerobic conditions has been examined. (2) cell-free extracts obtained by sonication were separated into particulate and supernatant fractions by centrifugation at 150,000 x g. (3) the particulate fraction contained cytochromes b562, b557, b or c554, c549.5, c547, and low concentrations of cytochromes a1 and a2. (subscripts refer to the wavelength optima of the b and c type cytochrome alpha-peaks in low temperature (77 degrees k) d ... | 1974 | 19400035 |
| molecular analysis of antioxidant genes in the extremohalophile marine bacterium exiguobacterium sp. cnu020. | exiguobacterium sp. cnu020, an alkaliphile and extremohalophile bacterium, is resistant to 20 mm h(2)o(2), a concentration that is lethal to most bacteria. representative antioxidant genes of catalase and superoxide dismutase (sod), obtained by pcr amplification of the genomic dna, were characterized: the 252-bp catalase gene shared 77% similarity in the deduced amino acid sequence to that of e. oxidotolerans t-2-2(t). the 420-bp sod gene had the closest similarity (94.3%) to the manganese-sod o ... | 2009 | 19404744 |
| parvularcula lutaonensis sp. nov., a moderately thermotolerant marine bacterium isolated from a coastal hot spring. | strain cc-mms-1(t), a motile, gram-negative, orange-pigmented bacterium, was isolated from water samples collected from a rare coastal hot spring at lutao, an island off the eastern coast of taiwan. 16s rrna gene sequence studies showed that the novel strain was closely related to parvularcula bermudensis htcc2503(t) (95.1 % sequence similarity). the fatty acid profile was slightly different from p. bermudensis htcc2503(t). the results of physiological and biochemical tests allowed clear phenoty ... | 2009 | 19406781 |
| donghicola xiamenensis sp. nov., a marine bacterium isolated from seawater of the taiwan strait in china. | a gram-negative, ovoid rod-shaped bacterium that lacked bacteriochlorophyll a, designated strain y-2(t), was isolated from seawater of the taiwan strait, china. the strain was oxidase- and catalase-positive, and reduced nitrate to nitrite. optimal growth occurred at around ph 7.0 and 25 degrees c in the presence of 1-3 % (w/v) nacl. phylogenetic analysis based on 16s rrna gene sequences showed that strain y-2(t) belonged to the class alphaproteobacteria and formed a coherent cluster with donghic ... | 2009 | 19406808 |
| gracilimonas tropica gen. nov., sp. nov., isolated from a synechococcus culture. | an irregular, long, rod-shaped marine bacterium, designated cl-cb462(t), was isolated from a synechococcus culture, which was established from surface water from the tropical pacific ocean. the physiological and biochemical features, fatty acid profile and phylogenetic position based on 16s rrna gene sequences were investigated for the novel strain. phylogenetic analysis of the 16s rrna gene sequence showed that the closest relatives of strain cl-cb462(t) were balneola vulgaris and balneola alka ... | 2009 | 19406813 |
| real-time nanomechanical and topographical mapping on live bacterial cells-brevibacterium casei under stress due to their exposure to co2+ ions during microbial synthesis of co3o4 nanoparticles. | the study of elastic properties of microbial and mammalian cells using atomic force microscopy, with force-sensitivity as high as pico-newtons and spatial resolution of a few nanometers, is proving to be a great tool for the real-time observation of the effects of drugs, biomolecules, metal ions, and nanoparticles on cell physiology in their natural environment. it has been shown that the young's modulus of the cell surfaces is extremely sensitive to the surrounding environment. recently, a broa ... | 2009 | 19438181 |
| nitrogen regulates chitinase gene expression in a marine bacterium. | ammonium concentration and nitrogen source regulate promoter activity and use for the transcription of chia, the major chitinase gene of pseudoalteromonas sp. s91 and s91cx, an s91 transposon lacz fusion mutant. the activity of chia was quantified by beta-galactosidase assay of s91cx cultures containing different ammonium concentrations (nh4+; 0, 9.5 or 191 mm) and with different nitrogen sources (n-acetylglucosamine (glcnac) or glutamate (glt)). s91 chia expression was found to depend on both t ... | 2009 | 19440232 |
| the effects of chronic inorganic and organic phosphate exposure on bactericidal activity of the coelomic fluid of the sea urchin lytechinus variegatus (lamarck) (echinodermata: echinoidea). | the sea urchin lytechinus variegatus can survive chronic exposure to sodium phosphate (inorganic phosphate) concentrations as high as 3.2 mg l-1, and triethyl phosphate (organic phosphate) concentrations of 1000 mg l-1. however, chronic exposure to low (0.8 mg l-1 inorganic and 10 mg l-1 organic phosphate), medium (1.6 mg l-1 inorganic and 100 mg l-1 organic phosphate) or high (3.2 mg l-1 inorganic and 1000 mg l-1 organic phosphate) sublethal concentrations of these phosphates inhibit bactericid ... | 2009 | 19444992 |
| a novel endoglucanase (cel9p) from a marine bacterium paenibacillus sp. bme-14. | by constructing a genomic library, an endoglucanase gene (cel9p) was cloned from paenibacillus sp. bme-14 which was isolated from the sea. it had an open-reading frame of 1,629 bp, encoding a peptide of 542-amino acid residue with a calculated molecular mass of 60 kda. the enzyme showed the highest amino acid identity of 52% with other known endoglucanases and had a c-terminal catalytic domain belonging to the glycosyl hydrolases family 9. the optimum ph and temperature for enzymatic activity wa ... | 2010 | 19448979 |
| nutrient regime regulates complex transcriptional start site usage within a pseudoalteromonas chitinase gene cluster. | the chitinase gene cluster of the marine bacterium pseudoalteromonas sp. s91, chiabc, which produces the major chitinases of this sp., was transcribed as an operon and from each individual gene. chia, chib and chic were found to possess multiple transcriptional start points (tsps), the use of which was determined by the nutrient regime used for s91 growth. in minimal medium containing glutamate, chia, chib and chic each used 3, 1 and 1 tsp, respectively. upon the addition of the chitin monomer n ... | 2009 | 19458654 |
| carbon and nitrogen substrate utilization in the marine bacterium sphingopyxis alaskensis strain rb2256. | sphingopyxis alaskensis is a marine member of the alphaproteobacteria that is adapted to heterotrophic growth under nutrient-depleted (oligotrophic) conditions. s. alaskensis strain rb2256 is an ultramicrobacterium (cell volume <0.1 microm(3)), and has a genome size larger than that of the ultramicrobacterium 'candidatus pelagibacter ubique' htcc1062 (sar11 clade of alphaproteobacteria): 3.35 versus 1.31 mbp. in this study, we investigate the carbon and nitrogen metabolism of strain rb2256 using ... | 2009 | 19458655 |
| complete genome sequence of the chemolithoautotrophic marine magnetotactic coccus strain mc-1. | the marine bacterium strain mc-1 is a member of the alpha subgroup of the proteobacteria that contains the magnetotactic cocci and was the first member of this group to be cultured axenically. the magnetotactic cocci are not closely related to any other known alphaproteobacteria and are only distantly related to other magnetotactic bacteria. the genome of mc-1 contains an extensive (102 kb) magnetosome island that includes numerous genes that are conserved among all known magnetotactic bacteria, ... | 2009 | 19465526 |
| crystal structure of alpha/beta-galactoside alpha2,3-sialyltransferase from a luminous marine bacterium, photobacterium phosphoreum. | alpha/beta-galactoside alpha2,3-sialyltransferase produced by photobacterium phosphoreum jt-ish-467 is a unique enzyme that catalyzes the transfer of n-acetylneuraminic acid residue from cytidine monophosphate n-acetylneuraminic acid to acceptor carbohydrate groups. the enzyme recognizes both mono- and di-saccharides as acceptor substrates, and can transfer neu5ac to both alpha-galactoside and beta-galactoside, efficiently. to elucidate the structural basis for the broad acceptor substrate speci ... | 2009 | 19467231 |
| a novel beta-agarase with high ph stability from marine agarivorans sp. lq48. | a novel endo-type beta-agarase gene, agaa, was cloned from a newly isolated marine bacterium, agarivorans sp. lq48. it encodes a protein of 457 amino acids with a calculated molecular mass of 51.2 kda. the deduced protein contains a typical n-terminal signal peptide of 25 amino acid residues, followed by a catalytic module, which is homologous to that of glycoside hydrolase family 16. a sequence similar to a carbohydrate-binding module is found in the c-terminal region of the enzyme. the overall ... | 2010 | 19484308 |
| the role of proteins expressed under the stress condition in virulence of some vibrio strains. | in order to survive in changing environments, bacteria possess enormous adaptive capabilities that allow them to modulate their behavior and reprogram gene expression in response to environmental cues. vibrios are inhabitants of estuarine and fresh waters and some species are pathogenic to humans, and marine vertebrates and invertebrates. surface attachment is believed to be essential for colonization of all of these natural environments. vibrio (v.) parahaemolyticus, an ubiquitous marine bacter ... | 2008 | 19496476 |
| photobacterium aquimaris sp. nov., a luminous marine bacterium isolated from seawater. | two luminous marine bacteria, strains lc2-065(t) and lc2-102, were isolated from seawater at sagami bay in japan. these bacteria were gram-negative, oxidase-negative, catalase-positive, motile and coccoid-rods. 16s rrna gene sequence analysis and multilocus sequence analysis (mlsa) using six loci (ftsz, gapa, gyrb, mreb, pyrh and topa) and sequence analysis of the alpha subunit of luciferase (luxa) gene revealed that these bacteria were distinct from other species of the genus photobacterium. th ... | 2009 | 19502330 |
| winogradskyella echinorum sp. nov., a marine bacterium of the family flavobacteriaceae isolated from the sea urchin strongylocentrotus intermedius. | the taxonomic position of a novel marine, yellow-pigmented bacterium, designated strain kmm 6211(t), was examined by using a polyphasic approach. phylogenetic analysis based on 16s rrna gene sequences revealed that strain kmm 6211(t) is a member of the family flavobacteriaceae, phylum bacteroidetes. the closest relative of strain kmm 6211(t) was winogradskyella eximia kmm 3944(t), the sequence similarity being 97.1 %. the dna g+c content of kmm 6211(t) was 33.6 mol%. the strain was motile by gli ... | 2009 | 19502336 |
| cloning, expression and characterization of a new agarase-encoding gene from marine pseudoalteromonas sp. | the beta-agarase gene agaa, cloned from a marine bacterium, pseudoalteromonas sp. cy24, consists of 1,359 nucleotides encoding 453 amino acids in a sequence corresponding to a catalytic domain of glycosyl hydrolase family 16 (gh16) and a carbohydrate-binding module type 13 (cbm13). the recombinant enzyme is an endo-type agarase that hydrolyzes beta-1,4-linkages of agarose, yielding neoagarotetraose and neoagarohexaose as the predominant products. in two cleavage patterns, agaa digested the small ... | 2009 | 19504047 |
| biosurfactant of marine origin exhibiting heavy metal remediation properties. | the present study was aimed at elucidating the role of biosurfactant product isolated from a marine bacterium in removing heavy metals from heavy metal containing solutions. in this study, metal removal was biosurfactant-mediated. efficiency of metal removal depended on the concentration of the metal as well as that of the biosurfactant. at a concentration 5x, the critical micelle concentration (cmc), almost complete removal of 100 ppm of lead and cadmium occurred. atomic absorption spectroscopy ... | 2009 | 19505818 |
| gene cloning, expression and characterization of a new cold-active and salt-tolerant endo-beta-1,4-xylanase from marine glaciecola mesophila kmm 241. | although a lot of xylanases are studied, only a few xylanases from marine microorganisms have been reported. a new xylanase gene, xyna, was cloned from marine bacterium glaciecola mesophila kmm 241. gene xyna contains 1,272 bp and encodes a 423-amino acid xylanase precursor. the recombinant xylanase, xyna, expressed in escherichia coli bl21 is a monomer with a molecular mass of 43 kda. among the characterized xylanases, xyna shares the highest identity (46%) to the xylanase from flavobacterium s ... | 2009 | 19506861 |
| cocultivation of lactococcus lactis and teredinobacter turnirae for biological chitin extraction from prawn waste. | in this study, mainly biological treatment of prawn waste for chitin production was investigated. lactic acid and protease fermentations were applied to extract chitin from prawn waste in the presence of various glucose concentrations. the results obtained were also compared with those of chemical method which was consisted of first mineral removal and then protein removal sequence. different strategies were applied using lactic acid producing bacterium, lactococcus lactis, and a protease produc ... | 2010 | 19506911 |
| bacteriophages drive strain diversification in a marine flavobacterium: implications for phage resistance and physiological properties. | genetic, structural and physiological differences between strains of the marine bacterium cellulophaga baltica mm#3 (flavobacteriaceae) developing in response to the activity of two virulent bacteriophages, phi s(m) and phi s(t), was investigated during 3 weeks incubation in chemostat cultures. a distinct strain succession towards increased phage resistance and a diversification of the metabolic properties was observed. during the incubation the bacterial population diversified from a single str ... | 2009 | 19508553 |
| new structural variants of homoserine lactones in bacteria. | n-acylhomoserine lactones (ahls) are used by a wide variety of bacteria for cell-cell communication in "quorum-sensing". these compounds are derived from l-homoserine lactone and a fatty acid, which varies in chain-length, degree of saturation, and the presence or absence of an oxygen atom at c-3. in this study we describe for the first time the occurrence of acyl chains carrying a methyl branch, and present a gc-ms-based method that can be used to distinguish these compounds from unbranched iso ... | 2009 | 19533714 |
| jeotgalicoccus marinus sp. nov., a marine bacterium isolated from a sea urchin. | a novel non-sporulating, non-motile, catalase- and oxidase-positive, facultatively anaerobic, moderately halophilic, gram-positive coccus, designated jsm 076033(t), was isolated from a sea urchin (hemicentrotus pulcherrimus) collected from the south china sea. strain jsm 076033(t) was able to grow in the presence of 0.5-25.0 % (w/v) total salts and at ph 6.0-10.0 and 10-45 degrees c; optimum growth was observed with 5.0-10.0 % (w/v) total salts and at ph 7.0-8.0 and 25-30 degrees c. the major am ... | 2009 | 19542134 |
| vibrio azureus sp. nov., a luminous marine bacterium isolated from seawater. | two luminous marine bacterial strains, lc2-005(t) and lc2-102, were isolated from seawater at kuroshio region and sagami bay in japan, respectively. these bacteria were gram-negative, oxidase-positive, catalase-positive, motile and rod-shaped. on the basis of 16s rrna gene sequence analysis, strains lc2-005(t) and lc2-102 formed a cluster within the vibrio harveyi species group. however, multilocus sequence analysis using five loci (pyrh, ftsz, mreb, gyrb and gapa) and dna-dna hybridization expe ... | 2009 | 19542136 |
| vibrio breoganii sp. nov., a non-motile, alginolytic, marine bacterium within the vibrio halioticoli clade. | seven non-motile, facultatively anaerobic, alginolytic marine bacteria were isolated from the cultured clams ruditapes philippinarum and ruditapes decussatus. phylogenetic analysis based on 16s rrna gene sequences showed that these marine bacteria were closely related to the recently described species vibrio comitans, vibrio rarus and vibrio inusitatus (>or=99.0 % sequence similarity). phylogenetic analysis based on the housekeeping genes rpoa, reca and atpa grouped the isolates together and all ... | 2009 | 19542146 |
| rna colony blot hybridization method for enumeration of culturable vibrio cholerae and vibrio mimicus bacteria. | a species-specific rna colony blot hybridization protocol was developed for enumeration of culturable vibrio cholerae and vibrio mimicus bacteria in environmental water samples. bacterial colonies on selective or nonselective plates were lysed by sodium dodecyl sulfate, and the lysates were immobilized on nylon membranes. a fluorescently labeled oligonucleotide probe targeting a phylogenetic signature sequence of 16s rrna of v. cholerae and v. mimicus was hybridized to rrna molecules immobilized ... | 2009 | 19561182 |
| optimized isolation procedure for obtaining strongly actinide binding exopolymeric substances (eps) from two bacteria (sagittula stellata and pseudomonas fluorescens biovar ii). | different chemical extractants (nacl, edta, hcl and naoh) and physical methods (ultrasonication and heating) were examined by their efficacies of extracting "attached" exopolymeric substances (eps) secreted by marine bacterium sagittula stellata (ss) and terrestrial bacterium pseudomonas fluorescens biovar ii (pf). extraction by 0.5 n hcl for 3 h was best for ss while extraction by 0.05 n nacl for 3-5 h was regarded as optimal for pf. improvements in eps purification included a pre-diafiltration ... | 2009 | 19574036 |
| bifurcated degradative pathway of 3-sulfolactate in roseovarius nubinhibens ism via sulfoacetaldehyde acetyltransferase and (s)-cysteate sulfolyase. | data from the genome sequence of the aerobic, marine bacterium roseovarius nubinhibens ism were interpreted such that 3-sulfolactate would be degraded as a sole source of carbon and energy for growth via a novel bifurcated pathway including two known desulfonative enzymes, sulfoacetaldehyde acetyltransferase (ec 2.3.3.15) (xsc) and cysteate sulfo-lyase (ec 4.4.1.25) (cuya). strain ism utilized sulfolactate quantitatively with stoichiometric excretion of the sulfonate sulfur as sulfate. a combina ... | 2009 | 19581363 |
| biosynthesis of salinosporamides from alpha,beta-unsaturated fatty acids: implications for extending polyketide synthase diversity. | a new series of coenzyme a-tethered polyketide synthase extender units were discovered in relation to the biosynthesis of the salinosporamide family of anticancer agents from the marine bacterium salinispora tropica. in vivo and in vitro experiments revealed that the crotonyl-coa reductase/carboxylase salg has broad substrate tolerance toward 2-alkenyl-coas that give rise to the salinosporamide c-2 substitution pattern. | 2009 | 19601645 |
| the response of the marine bacterium sphingopyxis alaskensis to solar radiation assessed by quantitative proteomics. | the adaptive response of the marine bacterium sphingopyxis alaskensis rb2256 to solar radiation (both visible and ultraviolet) was assessed by a quantitative proteomic approach using itraq (isobaric tags for relative and absolute quantification). both growth phase (mid-log and stationary phase) and duration (80 min or 8 h) of different light treatments (combinations of visible light, uv-a and uv-b) were assessed relative to cultures maintained in the dark. rates of total protein synthesis and vi ... | 2009 | 19601963 |
| normalization and statistical analysis of quantitative proteomics data generated by metabolic labeling. | comparative proteomics is a powerful analytical method for learning about the responses of biological systems to changes in growth parameters. to make confident inferences about biological responses, proteomics approaches must incorporate appropriate statistical measures of quantitative data. in the present work we applied microarray-based normalization and statistical analysis (significance testing) methods to analyze quantitative proteomics data generated from the metabolic labeling of a marin ... | 2009 | 19605365 |
| processive endoglucanases mediate degradation of cellulose by saccharophagus degradans. | bacteria and fungi are thought to degrade cellulose through the activity of either a complexed or a noncomplexed cellulolytic system composed of endoglucanases and cellobiohydrolases. the marine bacterium saccharophagus degradans 2-40 produces a multicomponent cellulolytic system that is unusual in its abundance of gh5-containing endoglucanases. secreted enzymes of this bacterium release high levels of cellobiose from cellulosic materials. through cloning and purification, the predicted biochemi ... | 2009 | 19617364 |
| corynebacterium maris sp. nov., a marine bacterium isolated from the mucus of the coral fungia granulosa. | a bacterial strain, designated coryn-1(t), was isolated from mucus of the coral fungia granulosa (northern red sea, gulf of eilat, israel) by growth and enrichment of micro-organisms in agar spheres and subsequent plating. the bacterium was found to be a gram-positive, non-motile, halotolerant, heterotrophic coccobacillus. comparative 16s rrna gene sequence analyses showed that strain coryn-1(t) belonged to the genus corynebacterium, exhibiting the highest levels of similarity (94 %) with the 16 ... | 2009 | 19622641 |
| type vi secretion modulates quorum sensing and stress response in vibrio anguillarum. | type vi protein secretion systems (t6ss) are essential for virulence of several gram-negative bacteria. in this study, we identified a t6ss in vibrio anguillarum, a marine bacterium that causes a hemorrhagic septicemia in fish. a partial operon vtsa-h (vibrio type six secretion) was sequenced and shown to encode eight proteins. vtse-h are signature proteins found in other t6sss, while vtsa-d are not associated with t6ss studied so far. in-frame deletions were made in each gene. secretion of a ha ... | 2009 | 19624706 |
| kocuria gwangalliensis sp. nov., an actinobacterium isolated from seawater. | a novel aerobic, non-motile, gram-positive, pink-orange-pigmented, coccoid marine bacterium, designated strain sj2(t), was isolated from the gwangalli coast of korea. the taxonomic position of strain sj2(t) was determined based on 16s rrna gene sequence analysis, fatty acid patterns and physiological reaction profiles. the full-length 16s rrna gene sequence of strain sj2(t) showed highest similarity to those of the type strains of kocuria carniphila and kocuria marina. strain sj2(t) exhibited me ... | 2009 | 19625424 |
| molecular characterization and therapeutic potential of a marine bacterium pseudoalteromonas sp. kmm 701 alpha-galactosidase. | an alpha-galactosidase capable of converting b red blood cells into the universal blood type cells at the neutral ph was produced by a novel obligate marine bacterium strain kmm 701 (vkm b-2135 d). the organism is heterotrophic, aerobic, and halophilic and requires na+ ions and temperature up to 34 degrees c for its growth. the strain has a unique combination of polysaccharide-degrading enzymes. its single intracellular alpha-galactosidase exceeded other glycoside hydrolases in the level of expr ... | 2010 | 19629597 |
| sequence-specific 1h, 15n and 13c resonance assignments of the 23.7-kda homodimeric toxin ccdb from vibrio fischeri. | ccdb is the toxic component of a bacterial toxin-antitoxin system. it inhibits dna gyrase (a type ii topoisomerase), and its toxicity can be neutralized by binding of its antitoxin ccda. here we report the sequential backbone and sidechain (1)h, (15)n and (13)c resonance assignments of ccdb(vfi) from the marine bacterium vibrio fischeri. the bmrb accession number is 16135. | 2009 | 19636967 |
| bacillus neizhouensis sp. nov., a halophilic marine bacterium isolated from a sea anemone. | a novel gram-stain-positive, slightly halophilic, facultatively alkaliphilic, non-motile, catalase- and oxidase-positive, endospore-forming, rod-shaped, aerobic bacterium, strain jsm 071004(t), was isolated from a sea anemone collected from neizhou bay in the south china sea. growth occurred with 0.5-10 % (w/v) total salts (optimum 2-4 %) and at ph 6.5-10.0 (optimum ph 8.5) and 4-30 degrees c (optimum 25 degrees c). meso-diaminopimelic acid was present in the cell-wall peptidoglycan. the predomi ... | 2009 | 19643899 |
| marinobacterium maritimum sp. nov., a marine bacterium isolated from arctic sediment. | a gram-negative, aerobic, rod-shaped, motile, marine bacterium, strain ar11(t), was isolated from arctic marine sediment. strain ar11(t) grew with 0.5-7 % nacl and at 7-37 degrees c and ph 5.5-9.0. it utilized propionate, 3-hydroxybenzoate, l-proline, acetate, d- and l-lactate, l-alanine, malate and phenylacetic acid. alkaline phosphatase, esterase lipase (c8), leucine arylamidase and acid phosphatase activity tests were positive. acid was produced from 5-ketogluconate and aesculin. strain ar11( ... | 2009 | 19643903 |
| gilvimarinus chinensis gen. nov., sp. nov., an agar-digesting marine bacterium within the class gammaproteobacteria isolated from coastal seawater in qingdao, china. | a taxonomic study was performed on strain qm42(t), which was isolated from coastal seawater from an aquaculture site near qingdao, china. phylogenetic analysis based on 16s rrna gene sequences showed that strain qm42(t) was a member of the class gammaproteobacteria. cells of strain qm42(t) were gram-negative, yellow, aerobic and rod-shaped. the strain formed a distinct phyletic line with less than 91 % 16s rrna gene sequence similarity to its closest relatives with validly published names within ... | 2009 | 19643907 |
| meridianimaribacter flavus gen. nov., sp. nov., a member of the family flavobacteriaceae isolated from marine sediment of the south china sea. | a gram-staining-negative, rod-shaped marine bacterium, designated strain nh57n(t), isolated from sandy sediment in the mischief reef of the south china sea, was characterized based on its physiological and biochemical features, fatty acid profile and phylogenetic position. 16s rrna gene sequence analysis revealed a clear affiliation with the family flavobacteriaceae. strain nh57n(t) showed the closest phylogenetic relationship with members of the genera gaetbulibacter, gelidibacter, subsaxibacte ... | 2010 | 19648321 |
| maribacter stanieri sp. nov., a marine bacterium of the family flavobacteriaceae. | the taxonomic status of two novel heterotrophic, gram-negative, gliding and yellow pigmented bacterial strains was established in this study. phylogenetic analysis based on 16s rrna gene sequencing revealed that the strains formed a distinct lineage within the genus maribacter, a member of the family flavobacteriaceae, with sequence similarities of 96.3-98.5 % to recognized species of the genus maribacter. the maximum growth temperature of the strains was 35 degrees c and they required nacl or s ... | 2010 | 19648326 |
| arcobacter marinus sp. nov. | a slightly curved, rod-shaped marine bacterium, designated strain cl-s1(t), was isolated from near dokdo, an island in the east sea, korea. cells were gram-negative and grew well under either aerobic or microaerobic conditions. analyses of the 16s rrna and gyra gene sequences of strain cl-s1(t) revealed an affiliation with the genus arcobacter within the class epsilonproteobacteria. phylogenetic analyses based on 16s rrna and gyra gene sequences showed that strain cl-s1(t) formed a robust clade ... | 2010 | 19654359 |
| wandonia haliotis gen. nov., sp. nov., a marine bacterium of the family cryomorphaceae, phylum bacteroidetes. | a novel, strictly aerobic, gram-stain-negative, yellow-orange-pigmented, rod-shaped bacterium was isolated from abalone (haliotis discus) under aquaculture in seawater off the wando coast, southern korea, and subjected to a polyphasic taxonomic study. cells of strain haldis-1(t) were catalase- and oxidase-positive rods with flexirubin pigments. phylogenetic analysis based on 16s rrna gene sequences revealed that strain haldis-1(t) formed a distinct lineage within the family cryomorphaceae and co ... | 2010 | 19654361 |
| 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 |
| kistimonas asteriae gen. nov., sp. nov., a gammaproteobacterium isolated from asterias amurensis. | a novel marine bacterium, strain kmd 001(t), was isolated from the starfish asterias amurensis, which inhabits the east sea of korea. strain kmd 001(t) was aerobic, light-yellow pigmented and gram-stain-negative. analyses of the 16s rrna gene sequence revealed that strain kmd 001(t) represents a novel lineage within the class gammaproteobacteria. strain kmd 001(t) is closely related to the genera endozoicomonas and zooshikella, which belong to the family hahellaceae and to the order oceanospiril ... | 2010 | 19661507 |
| mameliella alba gen. nov., sp. nov., a marine bacterium of the roseobacter clade in the order rhodobacterales. | a gram-negative, non-motile, rod-shaped bacterial strain, jlt354-w(t), that accumulates poly-beta-hydroxybutyrate granules was isolated from the south china sea. phylogenetic analysis based on 16s rrna gene sequences showed that the strain was related to members of the genera antarctobacter, sagittula, oceanicola and loktanella; levels of similarity between strain jlt354-w(t) and members of the above genera were less than 92.0 %. the predominant fatty acid of strain jlt354-w(t) was c(18 : 1)omeg ... | 2010 | 19661508 |
| thalassospira xianhensis sp. nov., a polycyclic aromatic hydrocarbon-degrading marine bacterium. | a polycyclic aromatic hydrocarbon-degrading marine bacterium, designated strain p-4(t), was isolated from oil-polluted saline soil in xianhe, shangdong province, china. strain p-4(t) was gram-negative-staining with curved to spiral rod-shaped cells and grew optimally with 3-6 % (w/v) nacl and at 30 degrees c. the predominant fatty acids were c(18 : 1)omega7c (35.0 %), c(16 : 0) (25.0 %), c(16 : 1)omega7c (17.9 %), c(14 : 0) (6.2 %) and c(17 : 0) cyclo (5.2 %). the major respiratory quinone was q ... | 2010 | 19666802 |
| litoricola marina sp. nov. | a gram-negative, non-pigmented, non-motile, chemoheterotrophic marine bacterium, designated strain imcc2782(t), was isolated from a surface seawater sample of the yellow sea, korea. on the basis of 16s rrna gene sequence analysis and phenotypic and genotypic characterization, strain imcc2782(t) is shown to represent a novel species of the genus litoricola. strain imcc2782(t) grew at 15-37 degrees c and tolerated 7.5% nacl. based on 16s rrna gene sequences, strain imcc2782(t) was related most clo ... | 2010 | 19667367 |
| erythrobacter gangjinensis sp. nov., a marine bacterium isolated from seawater. | a novel gram-negative, aerobic, orange-pigmented bacterial strain, designated k7-2(t), was isolated from seawater of gangjin bay, korea, and subjected to a polyphasic taxonomic study. strain k7-2(t) contained ubiquinone-10 (q-10) as the predominant respiratory lipoquinone and did not produce bacteriochlorophyll a. major fatty acids were c(18 : 1)omega7c (51.4 %), iso-c(15 : 0) 2-oh and/or c(16 : 1)omega7c (15.0 %) and c(17 : 1)omega6c (8.8 %). major polar lipids were phosphatidylethanolamine and ... | 2010 | 19671726 |
| high-performance liquid chromatography purification of biosurfactant isoforms produced by a marine bacterium. | a marine bacillus strain produced biosurfactant during its growth in a defined glucose-containing medium. an efficient method for separation and purification of biosurfactant isoforms was developed and optimized in high-performance liquid chromatography (hplc) by manipulating solvent gradient program and flow rates. starting with an initial run time of 60 min, the final optimized method had a significantly reduced run time of 20 min. by using this method, all the surface-active isoforms (fractio ... | 2009 | 19688340 |
| structure of a polysaccharide from the lipopolysaccharides of vibrio vulnificus strains cect 5198 and s3-i2-36, which is remarkably similar to the o-polysaccharide of pseudoalteromonas rubra atcc 29570. | high-molecular-mass polysaccharides were released by mild acid degradation of the lipopolysaccharides of two wild-type vibrio vulnificus strain, a flagellated motile strain cect 5198 and a non-flagellated non-motile strain s3-i2-36. studies by sugar analysis and partial acid hydrolysis along with (1)h and (13)c nmr spectroscopies showed that the polysaccharides from both strains have the same trisaccharide repeating unit of the following structure: -->4)-beta-d-glcpnac3nacylan-(1-->4)-alpha-l-ga ... | 2009 | 19695563 |
| rigorous vibrio vulnificus soft tissue infection of the lower leg in a renal transplant patient managed by vacuum therapy and autologous growth factors. | vibrio vulnificus is a gram-negative marine bacterium that grows well in coastal waters. it is an opportunistic pathogen that can cause serious life-threatening infections in patients with certain health conditions. vibrio-induced wound infections in immunosuppressed patients are difficult to treat because the healing process may be significantly delayed. reconstructive surgery may not be successful in early treatment as skin grafts are likely to fail, and there may be increased morbidity of don ... | 2009 | 19706229 |
| remarkable resistance to uvb of the marine bacterium photobacterium angustum explained by an unexpected role of photolyase. | dna damage and cell survival was assessed in the marine bacteria, photobacterium angustum (gc%=39.6) and sphingopyxis alaskensis (gc%=65.5) following uvb irradiation and recovery in the presence or absence of visible light. the extent of bipyrimidine photoproduct formation was analyzed by hplc-ms/ms. s. alaskensis was chosen as a reference species since it was previously shown to be photoresistant. interestingly, p. angustum exhibited an even higher level of survival to uvb irradiation than s. a ... | 2009 | 19707619 |
| optimization, purification, and characterization of extracellular mesophilic alkaline cellulase from sponge-associated marinobacter sp. msi032. | marinobacter sp. (msi032) isolated from the marine sponge dendrilla nigra was optimized for the production of extracellular cellulolytic enzyme (cmcase) by submerged fermentation. initial experiments showed that the culture medium containing 1% maltose as carbon source and 1% peptone and casein as nitrogen source supported maximal enzyme production at 27 degrees c and at a ph of 9.0. further optimization carried out showed the maximal enzyme production was supported by the presence of 2% nacl an ... | 2010 | 19711200 |
| transcriptional response of the model planctomycete rhodopirellula baltica sh1(t) to changing environmental conditions. | the marine model organism rhodopirellula baltica sh1(t) was the first planctomycete to have its genome completely sequenced. the genome analysis predicted a complex lifestyle and a variety of genetic opportunities to adapt to the marine environment. its adaptation to environmental stressors was studied by transcriptional profiling using a whole genome microarray. | 2009 | 19725962 |
| function-oriented biosynthesis of beta-lactone proteasome inhibitors in salinispora tropica. | the natural proteasome inhibitor salinosporamide a from the marine bacterium salinispora tropica is a promising drug candidate for the treatment of multiple myeloma and mantle cell lymphoma. using a comprehensive approach that combined chemical synthesis with metabolic engineering, we generated a series of salinosporamide analogues with altered proteasome binding affinity. one of the engineered compounds is equipotent to salinosporamide a in inhibition of the chymotrypsin-like activity of the pr ... | 2009 | 19746976 |
| rapid identification of vibrio parahaemolyticus by whole-cell matrix-assisted laser desorption ionization-time of flight mass spectrometry. | vibrio parahaemolyticus is a pathogenic marine bacterium that is the main causative agent of bacterial seafood-borne gastroenteritis in the united states. an increase in the frequency of v. parahaemolyticus-related infections during the last decade has been attributed to the emergence of an o3:k6 pandemic clone in 1995. the diversity of the o3:k6 pandemic clone and its serovariants has been examined using multiple molecular techniques including multilocus sequence analysis, pulsed-field gel elec ... | 2009 | 19749061 |
| virgibacillus zhanjiangensis sp. nov., a marine bacterium isolated from sea water. | a gram-positive, endospore-forming, catalase- and oxidase-positive, motile, rod-shaped, aerobic bacterium, designated strain jsm 079157(t), was isolated from surface seawater off the coastline of naozhou island in south china sea. the organism was able to grow with 1-15% (w/v) total salts (optimum, 4-7%), and at ph 6.0-10.0 (optimum, ph 7.5) and 10-45 degrees c (optimum, 30 degrees c). meso-diaminopimelic acid was present in the cell-wall peptidoglycan. the predominant menaquinone was mk-7, and ... | 2009 | 19774482 |
| 6-hydroxymethyl-1-phenazine-carboxamide and 1,6-phenazinedimethanol from a marine bacterium, brevibacterium sp. kmd 003, associated with marine purple vase sponge. | two new antibacterial phenazines were isolated from the culture broth of brevibacterium sp. kmd 003 obtained from a marine purple vase sponge of the genus callyspongia, collected in kyeongpo, gangwondo, korea. the structures of these compounds were determined to be 6-hydroxymethyl-1-phenazine-carboxamide (1) and 1,6-phenazinedimethanol (2) through analyses of hr-ei-ms and nmr data. compounds 1 and 2 showed antibacterial activities against enterococcus hirae and micrococcus luteus with 5 microm m ... | 2009 | 19798118 |
| winogradskyella pacifica sp. nov., a marine bacterium of the family flavobacteriaceae. | a novel strain, designated kmm 6019t, was isolated from coastal seawater and subjected to taxonomic examination using a polyphasic approach. a comparative analysis of 16s rrna gene sequences revealed that strain kmm 6019t formed a distinct phyletic line within the genus winogradskyella, a member of the family flavobacteriaceae, phylum bacteroidetes. the 16s rrna gene sequence similarity between the novel isolate and the type strains of the recognized species of the genus winogradskyella was 94.0 ... | 2010 | 19801394 |
| colwellia asteriadis sp. nov., a marine bacterium isolated from the starfish asterias amurensis. | a marine bacterial strain, kmd 002t, was isolated from an amur starfish, asterias amurensis, collected in the east sea of korea. strain kmd 002t was a gram-negative, beige-pigmented, rod-shaped bacterium. the strain was capable of growth at relatively low temperatures (4-25 degrees c) and over a broad ph range (ph 4.0-10.0). the major fatty acids were c16:1omega7c and/or iso-c15:0 2-oh and c16:0 and the predominant isoprenoid quinone was q-8. the dna g+c content of strain kmd 002t was 40.3 mol%. ... | 2010 | 19801395 |
| predicting water toxicity: pairing passive sampling with bioassays on the great barrier reef. | many coral reefs worldwide occur adjacent to urban or agricultural land which places these ecosystems at threat of exposure to complex mixtures of pollutants. in this study, the pairing of passive sampler extracts with bioassays is proposed as a tool for predicting effects of organic pollutant mixtures on key biota within coral reef ecosystems. passive samplers, sdb-rps empore disks, which sequester a mixture of the contaminants present in the environment, were deployed at three sites in the gre ... | 2009 | 19819564 |
| pseudidiomarina aestuarii sp. nov., a marine bacterium isolated from shallow coastal seawater. | a non-motile, rod-shaped and aerobic marine bacterium, designated strain kyw314(t), was isolated from seawater collected from the south sea, republic of korea. cells were gram-negative, catalase- and oxidase-positive and had proteolytic activity. the major fatty acids were iso-c(15 : 0) (17.2 %), c(16 : 0) (11.1 %), iso-c(17 : 0) (10.5 %) and c(18 : 1)ω 7c (10.0 %). the dna g+c content was 56.4 mol%. a phylogenetic tree based on 16s rrna gene sequences showed that strain kyw314(t) formed a linea ... | 2010 | 19837733 |
| antarcticimonas flava gen. nov., sp. nov., isolated from antarctic coastal seawater. | a marine bacterium, designated imcc3175(t), was isolated from a seawater sample collected off the antarctic coast. the strain was gram-negative, obligately aerobic, carotenoid pigment-containing, and rod-shaped bacterium that divided by binary fission. as determined by 16s rrna gene sequence comparisons, the most closely related genera were formosa (92.9 approximately 93.3%), bizionia (91.6 approximately 93.2%), gaetbulibacter (91.5 approximately 92.8%), sediminibacter (92.7%), yeosuana (92.6%), ... | 2009 | 19851722 |
| monitoring the biological activity of micropollutants during advanced wastewater treatment with ozonation and activated carbon filtration. | a bioanalytical test battery was used to monitor the removal efficiency of organic micropollutants during advanced wastewater treatment in the south caboolture water reclamation plant, queensland, australia. this plant treats effluent from a conventional sewage treatment plant for industrial water reuse. the aqueous samples were enriched using solid-phase extraction to separate some organic micropollutants of interest from metals, nutrients and matrix components. the bioassays were chosen to pro ... | 2010 | 19854465 |
| a new antimalarial polyether from a marine streptomyces sp. h668. | the antimalarial guided fractionation of the culture of marine streptomyces sp. strain h668 led to the isolation of a new polyether metabolite. the structure was determined by comprehensive nmr and ms assignments. this new metabolite showed in vitro antimalarial activity against both the chloroquine-susceptible (d6) and -resistant (w2) clones of plasmodium falciparum, without cytotoxicity to normal cells (vero) making it a promising first lead from this marine bacterium. | 2008 | 19865468 |
| [isolation and characterization of a marine agarase]. | this study was carried out to isolate and characterize an agarase from a marine bacterium agarivorans albus qm38. | 2009 | 19873753 |
| fibrinolytic enzymes from a newly isolated marine bacterium bacillus subtilis a26: characterization and statistical media optimization. | a fibrinolytic enzyme producing bacterium was isolated and identified as bacillus subtilis a26 on the basis of the 16s rrna gene sequence. the fibrin zymography analysis reveals the presence of at least three fibrinolytic enzymes. the crude enzyme exhibited maximal activity at 60 degrees c and ph 8.0. medium composition and culture conditions for the enzyme production by b. subtilis a26 were optimized using two statistical methods. the plackett-burman statistical design was applied to find the k ... | 2009 | 19898547 |
| cloning, sequence analysis, and expression of gene alypi encoding an alginate lyase from marine bacterium pseudoalteromonas sp. cy24. | the alginate lyase encoding gene (alypi) of marine bacterium pseudoalteromonas sp. cy24 was cloned using a battery of pcr techniques. gene alypi was composed of a 1575 bp open reading frame encoding a protein of 57.4 kda containing 524 amino acid residues with a signal peptide of 23 amino acids. the alypi protein was expressed in escherichia coli with a his-tag sequence fused at the c-terminal end and purified to electrophoretic homogeneity using ni-sepharose affinity chromatography. alypi was m ... | 2009 | 19898554 |
| mutation of bacterium vibrio gazogenes for selective preparation of colorants. | a novel marine bacterium strain effectively produced prodiginine type pigments. these colorants could dye wool, silk and synthetic fabrics such as polyester and polyacrylic and also show antibacterial properties against escherichia coli and staphylococcus aureus bacteria on the dyed products. methyl nitrosoguanidine was used as a mutation agent to increase the genetic diversity and the production yield of the bacteria of the family of vibrio gazogenes. the analysis of the mutated samples showed ... | 2010 | 19902486 |
| shewanella corallii sp. nov., a marine bacterium isolated from a red sea coral. | a marine bacterial strain, designated fav-2-10-05(t), was isolated from the mucus layer of a coral of the genus favia, collected from the coral reef in the gulf of eilat, israel (29.5 ° n 34.9 ° e). on the basis of 16s rrna gene sequence comparisons, strain fav-2-10-05(t) was affiliated with the family shewanellaceae. the closest relatives of strain fav-2-10-05(t) were shewanella marisflavi sw-117(t) (96.0 % 16s rrna gene sequence similarity) and shewanella haliotis dw-1(t) (95.9 %). strain fav- ... | 2010 | 19915103 |
| information processing and signal integration in bacterial quorum sensing. | bacteria communicate using secreted chemical signaling molecules called autoinducers in a process known as quorum sensing. the quorum-sensing network of the marine bacterium vibrio harveyi uses three autoinducers, each known to encode distinct ecological information. yet how cells integrate and interpret the information contained within these three autoinducer signals remains a mystery. here, we develop a new framework for analyzing signal integration on the basis of information theory and use i ... | 2009 | 19920810 |
| subcellular localization of marine bacterial alkaline phosphatases. | bacterial alkaline phosphatases (apases) are important enzymes in organophosphate utilization in the ocean. the subcellular localization of apases has significant ecological implications for marine biota but is largely unknown. the extensive metagenomic sequence databases from the global ocean sampling expedition provide an opportunity to address this question. a bioinformatics pipeline was developed to identify marine bacterial apases from the metagenomic databases, and a consensus classificati ... | 2009 | 19926862 |
| analyzing cytotoxic effects of selected isothiazol-3-one biocides using the toxic ratio concept and structure-activity relationship considerations. | to demonstrate how baseline toxicity can be separated from other more specific modes of toxic action and to address possible pitfals when dealing with hydrophobic substances, the four isothiazol-3-one biocides n-methylisothiazol-3-one (mit), 5-chloro-n-methylisothiazol-3-one (cit), n-octylisothiazol-3-one (oit), and 4,5-dichloro-n-octylisothiazol-3-one (dcoit) as an example for reactive electrophilic xenobiotics were tested for their cytotoxic effects on the human hepatoblastoma cell line hep g2 ... | 2009 | 19928874 |
| searching for a "hidden" prophage in a marine bacterium. | prophages are common in many bacterial genomes. distinguishing putatively viable prophages from nonviable sequences can be a challenge, since some prophages are remnants of once-functional prophages that have been rendered inactive by mutational changes. in some cases, a putative prophage may be missed due to the lack of recognizable prophage loci. the genome of a marine roseobacter, roseovarius nubinhibens ism (hereinafter referred to as ism), was recently sequenced and was reported to contain ... | 2010 | 19948862 |
| on the photosynthetic properties of marine bacterium col2p belonging to roseobacter clade. | aerobic anoxygenic phototrophs (aaps) are prokaryotic microorganisms capable of harvesting light using bacteriochlorophyll-based reaction centres. marine aap communities are generally dominated by species belonging to the roseobacter clade. for this reason, we used marine roseobacter-related strain col2p as a model organism to characterize its photosynthetic apparatus, level of pigmentation and expression of photosynthetic complexes. this strain contained functional photosynthetic reaction centr ... | 2010 | 19949940 |
| production of a recombinant alkane hydroxylase (alkb2) from alcanivorax borkumensis. | alcanivorax borkumensis is an oil-degrading marine bacterium. its genome contains genes coding for three cytochrome p450s and two integral membrane alkane hydroxylases (alkb1 & alkb2), all assumed to perform hydroxylation of different linear or branched alkanes. although, the sequence of alkb2 has been determined, the molecular characterization and the substrate specificity of alkb2 require more precise investigation. in this study, alkb2 from a. borkumensis sk2 was expressed in escherichia coli ... | 2010 | 19953301 |
| the implication of yggt of escherichia coli in osmotic regulation. | an escherichia coli mutant lacking three major k(+) uptake systems, trk, kup, and kdp, did not grow under low k(+)and high na(+) concentrations. the introduction of fkua and of fkub of a marine bacterium, vibrio alginolyticus, has been reported to compensate for the growth defect by accelerating the rate of k(+) uptake (nakamura, katoh, shimizu, matsuba, and unemoto, biochim. biophys. acta, 1277, 201-208 (1996)). we investigated the function of unknown genes of e. coli, yggs and yggt, homologs o ... | 2009 | 19966467 |
| diversity of pufm genes, involved in aerobic anoxygenic photosynthesis, in the bacterial communities associated with colonial ascidians. | ascidians are invertebrate filter feeders widely distributed in benthic marine environments. a total of 14 different ascidian species were collected from the western mediterranean and their bacterial communities were analyzed by denaturing gradient gel electrophoresis (dgge) of 16s rrna gene. results showed that ascidian tissues harbored bacteria belonging to gamma- and alphaproteobacteria classes, some of them phylogenetically related to known aerobic anoxygenic phototrophs (aaps), such as rose ... | 2010 | 20015229 |
| both genes in the marinomonas mediterranea lodab operon are required for the expression of the antimicrobial protein lysine oxidase. | the melanogenic marine bacterium marinomonas mediterranea synthesizes a novel antimicrobial protein (loda) with lysine-epsilon oxidase activity (ec 1.4.3.20). homologues to loda have been detected in several gram-negative bacteria, where they are involved in biofilm development. adjacent to loda is located a second gene, lodb, of unknown function. this genomic organization is maintained in all the microorganisms containing homologues to these genes. in this work we show that loda and lodb consti ... | 2010 | 20025674 |
| possible biosynthetic pathways for all cis-3,6,9,12,15,19,22, 25,28-hentriacontanonaene in bacteria. | a very long chain polyunsaturated hydrocarbon, hentriacontanonaene (c31:9), was detected in an eicosapentaenoic acid (epa)-producing marine bacterium, which was isolated from the mid-latitude seashore of hokkaido, japan, and was tentatively identified as mesophilic shewanella sp. strain osh08 from 16s rrna gene sequencing. the geometry and position of the double bonds in this compound were determined physicochemically to be all cis at positions 3, 6, 9, 12, 15, 19, 22, 25, and 28. although c31:9 ... | 2010 | 20037794 |
| genome-wide screening and identification of factors affecting the biosynthesis of prodigiosin by hahella chejuensis, using escherichia coli as a surrogate host. | a marine bacterium, hahella chejuensis, recently has attracted attention due to its lytic activity against a red-tide dinoflagellate. the algicidal function originates from its red pigment, prodigiosin, which also exhibits immunosuppressive or anticancer activity. genome sequencing and functional analysis revealed a gene set contained in the hap gene cluster that is responsible for the biosynthesis of prodigiosin. to screen for the factors affecting the prodigiosin biosynthesis, we constructed a ... | 2010 | 20038694 |
| cloning and nucleotide sequences of carbazole degradation genes from marine bacterium neptuniibacter sp. strain car-sf. | the marine bacterium neptuniibacter sp. strain car-sf utilizes carbazole as its sole carbon and nitrogen sources. two sets of clustered genes related to carbazole degradation, the upper and lower pathways, were obtained. the marine bacterium genes responsible for the upper carbazole degradation pathway, caraa, carba, carbb, and carc, encode the terminal oxygenase component of carbazole 1,9a-dioxygenase, the small and large subunits of the meta-cleavage enzyme, and the meta-cleavage compound hydr ... | 2010 | 20039169 |
| bacterial assay for the rapid assessment of antifouling and fouling release properties of coatings and materials. | an assay has been developed to accurately quantify the growth and release behaviour of bacterial biofilms on several test reference materials and coatings, using the marine bacterium cobetia marina as a model organism. the assay can be used to investigate the inhibition of bacterial growth and release properties of many surfaces when compared to a reference. the method is based upon the staining of attached bacterial cells with the nucleic acid-binding, green fluorescent syto 13 stain. a strong ... | 2010 | 20039190 |