Publications

catalytic asymmetric synthesis of a potent thiomarinol antibiotic.	thiomarinols, isolated from the bacterium alteromonas rava sp. nov. sank 73390, are potent marine antibiotics that possess both gram-positive and gram-negative activity. the first total synthesis of a member of the thiomarinol class of marine antibiotics was achieved in a remarkable global yield of 22% (from 3-boronoacrolein pinacolate). the highlight of this synthesis is the efficient catalytic enantio-, regio-, e/z-, and diastereoselective three-component inverse electron demand diels-alder/al ...	2005	15700983
solution structure of marinostatin, a natural ester-linked protein protease inhibitor.	marinostatin is a unique protein protease inhibitor containing two ester linkages. we have purified a 12-residue marinostatin [mst(1-12), (1)fatmrypsdsde(12)] and determined the residues involved in the formation of the ester linkages and the solution structure by (1)h nmr spectroscopy and restrained molecular dynamics calculation. the two ester linkages of mst(1-12) are formed between hydroxyl and carboxyl groups, thr(3)-asp(9) and ser(8)-asp(11), indicating that mst(1-12) has two cyclic region ...	2005	15709758
effect of an oversulfated exopolysaccharide on angiogenesis induced by fibroblast growth factor-2 or vascular endothelial growth factor in vitro.	the aim of this study was to determine the angiogenic properties of an oversulfated exopolysaccharide (os-eps) derived from a polysaccharide secreted by the mesophilic bacterium alteromonas infernus. we compared the effect of this os-eps with that of a non-oversulfated exopolysaccharide (eps) on human umbilical vein endothelial cell (huvec) proliferation, migration and differentiation induced by basic fibroblast growth factor (fgf-2) or vascular endothelial growth factor (vegf). os-eps enhanced ...	2005	15710353
biosynthesis of the marine antibiotic pentabromopseudilin. 2. the pyrrole ring.	the biosynthesis of the potent marine antibiotic, pentabromopseudilin (1), was investigated. feeding studies with alteromonas luteoviolaceus were performed on a defined medium. d,l-[5-(13)c]proline was incorporated symmetrically, demonstrating that the pyrrole ring of pentabromopseudilin is derived from proline.	2005	15784994
[taxonomical study of bacteria from genera alteromonas and pseudoalteromonas isolated from black sea water and invertebrates].	nineteen (19) strains of bacteria have been isolated from the black sea water and invertebrates (mollusks and actinia). most of them have been identified as alteromonas macleodii, pseudoalteromonas citrea and p. haloplanktis on the basis of polyphasic taxonomical analysis. six strains showed 96-97 % similarity to 16s rrna sequence of the known species of pseudoalteromonas and obviously belonged to new species. the studied strains have been characterized by a wide spectrum of phenotypic features ...	2005	16250230
a zymogram method for detecting carrageenase activity.		2005	16259937
alteromonas hispanica sp. nov., a polyunsaturated-fatty-acid-producing, halophilic bacterium isolated from fuente de piedra, southern spain.	strain f-32t, which produces exopolysaccharides and contains polyunsaturated fatty acids, was isolated from a hypersaline water sample collected from fuente de piedra (southern spain). phylogenetic analyses indicated conclusively that the strain in question belonged to the genus alteromonas. phenotypic tests showed that it could be assigned to the genus alteromonas although it had a number of distinctive characteristics: it is moderately halophilic, growing best with 7.5-10 % w/v nacl; it grows ...	2005	16280501
[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
surface characterization of three marine bacterial strains by fourier transform ir, x-ray photoelectron spectroscopy, and time-of-flight secondary-ion mass spectrometry, correlation with adhesion on stainless steel surfaces.	adhesion of bacterial strains on solid substrates is likely related to the properties of the outer shell of the micro-organisms. aiming at a better understanding and control of the biofilm formation in seawater, the surface chemical composition of three marine bacterial strains was investigated by combining fourier transform ir spectroscopy, x-ray photoelectron spectroscopy (xps), and time-of-flight secondary-ion mass spectrometry (tof-sims). the d41 strain surface showed evidence of proteins, a ...	2005	16852148
preparation of mixed alginate elicitors with high activity for the efficient production of 5'-phosphodiesterase by catharanthus roseus cells.	when various autoclaved microbial cells suspensions (exogenous elicitors) were added to catharanthus roseus cell cultures, its growth was inhibited but 5'-phosphodiesterase (pdase) production was stimulated. the greatest effect was with autoclaved alteromonas macleodii: the dry cell concentration decreased from 13 to 10.9 mg/ml while pdase production increased from 0.022 to 0.235 u/ml. a combination of a. macleodii (as exogenous elicitor) and 0.1%(w/v) alginate oligomers (ao: acting as both endo ...	2006	16937247
bowmanella denitrificans gen. nov., sp. nov., a denitrifying bacterium isolated from seawater from an-ping harbour, taiwan.	a heterotrophic, non-fermentative, denitrifying isolate, designated strain bd1(t), was obtained from a seawater sample collected in the shallow coastal region of an-ping harbour, tainan, taiwan. the cells of strain bd1(t) were gram-negative. cells grown in broth cultures were curved rods that were motile by means of a single polar flagellum. growth occurred between 10 and 40 degrees c, with an optimum at 30-35 degrees c. strain bd1(t) grew in nacl levels of 0-10 %, with better growth occurring a ...	2006	17012580
effect of alginic acid decomposing bacterium on the growth of laminaria japonica (phaeophyceae).	we collected the diseased blades of laminaria japonica from yantai sea farm from october to december 2002, and the alginic acid decomposing bacterium on the diseased blade was isolated and purified, and was identified as alteromonas espejiana. this bacterium was applied as the causative pathogen to infect the blades of l. japonica under laboratory conditions. the aim of the present study was to identify the effects of the bacterium on the growth of l. japonica, and to find the possibly effective ...	2006	17294654
colwellia aestuarii sp. nov., isolated from a tidal flat sediment in korea.	a novel colwellia-like bacterial strain, smk-10t, was isolated from a tidal flat sediment in korea and subjected to a polyphasic taxonomic analysis. cells of strain smk-10t were gram-negative, motile, greyish yellow-pigmented, curved rods. optimal growth occurred at 25-30 degrees c and in the presence of 2-3 % (w/v) nacl. strain smk-10t contained q-8 as the predominant ubiquinone and c(16 : 1)omega7c and/or iso-c(15 : 0) 2-oh, c(17 : 1), c(15 : 1) and iso-c(16 : 0) as major fatty acids. the dna ...	2006	16403863
bioinformatic analysis of an unusual gene-enzyme relationship in the arginine biosynthetic pathway among marine gamma proteobacteria: implications concerning the formation of n-acetylated intermediates in prokaryotes.	the n-acetylation of l-glutamate is regarded as a universal metabolic strategy to commit glutamate towards arginine biosynthesis. until recently, this reaction was thought to be catalyzed by either of two enzymes: (i) the classical n-acetylglutamate synthase (nags, gene arga) first characterized in escherichia coli and pseudomonas aeruginosa several decades ago and also present in vertebrates, or (ii) the bifunctional version of ornithine acetyltransferase (oat, gene argj) present in bacteria, a ...	2006	16409639
characterization of a novel beta-agarase from marine alteromonas sp. sy37-12 and its degrading products.	the phenotypic and agarolytic features of an unidentified marine bacteria isolated from the southern ocean of china was studied. the strain was gram-negative, aerobic, and polarly flagellated. it was identified as the genus alteromonas according to its morphological and physiological characterization. in solid agar, the isolate produced a diffusible agarase that caused agar softening around the colonies. an extracellular agarase was purified by the procedure of ammonium sulfate precipitation, ge ...	2006	16317543
inhibition of byssal formation in semimytilus algosus (gould, 1850) by a film-forming bacterium isolated from biofouled substrata in northern chile.	semimytilus algosus is a small mussel species that fouls artificial culture systems of the scallop argopecten purpuratus (lamarck, 1819) in the north of chile. since biofouling organisms are a serious problem in culture, competing with the scallops for food and oxygen, environmentally-friendly methods are required to mitigate the effects of this fouling in the culture systems. the present study reports the evaluation of the inhibitory effect of biofilms and extracellular products (ep) of the bac ...	2006	16551562
ultrasonic depolymerization of an exopolysaccharide produced by a bacterium isolated from a deep-sea hydrothermal vent polychaete annelid.	low frequency ultrasound was used to depolymerize a high-molecular-weight exopolysaccharide (eps) produced by a deep-sea hydrothermal bacterium alteromonas macleodii subsp. fijiensis biovar deepsane. the influence of several parameters was examined including the duration of ultrasonic irradiation, eps concentration, reaction temperature and volume of the sonicated solution. with the aim of optimizing the depolymerization, the native eps was simultaneously treated with hydrogen peroxide and ultra ...	2007	16750649
the regulator cdss/cdsr two-component system modulates expression of genes involved in chitin degradation of pseudoalteromonas piscicida strain o-7.	pseudoalteromonas piscicida strain o-7 (formerly alteromonas sp. strain o-7) is an efficient degrader of chitin in the marine environment. the chitinolytic system of the strain consists of many enzymes induced by n-acetylglucosamine (glcnac). this paper reports that cdsr, which is a response regulator of cdss/cdsr two-component signal transduction system, is bound to near the promoter region of glcnac-induced apriv gene. the cdsr protein as a response regulator was transphosphorylated by the cds ...	2007	17634925
nucleotide and deduced amino acid sequences of a subtilisin-like serine protease from a deep-sea bacterium, alkalimonas collagenimarina ac40(t).	the acpi gene encoding an alkaline protease (acpi) from a deep-sea bacterium, alkalimonas collagenimarina ac40(t), was shotgun-cloned and sequenced. it had a 1,617-bp open reading frame encoding a protein of 538 amino acids. based on analysis of the deduced amino acid sequence, acpi is a subtilisin-like serine protease belonging to subtilase family a. it consists of a prepropeptide, a catalytic domain, and a prepeptidase c-terminal domain like other serine proteases from the genera pseudomonas, ...	2007	17786425
evaluation of antifouling activity of eight commercially available organic chemicals against the early foulers marine bacteria and ulva spores.	environmental impacts caused by tin and copper based commercial antifouling (af) paints were proved to be detrimental to aquatic ecosystems. therefore, a search of environmental friendly af compounds to be used in marine paint to protect the surface of maritime developmental structures from the unwanted biofouling is a burning issue of the present time. commercially available eight organic chemicals--allyl isothiocyanate, beta-myrecene, cis-3-hexenyl acetate, citral, ethyl heptanoate, eugenol, m ...	2007	18405125
surprising arginine biosynthesis: a reappraisal of the enzymology and evolution of the pathway in microorganisms.	major aspects of the pathway of de novo arginine biosynthesis via acetylated intermediates in microorganisms must be revised in light of recent enzymatic and genomic investigations. the enzyme n-acetylglutamate synthase (nags), which used to be considered responsible for the first committed step of the pathway, is present in a limited number of bacterial phyla only and is absent from archaea. in many bacteria, shorter proteins related to the gcn5-related n-acetyltransferase family appear to acet ...	2007	17347518
antibiotic from the marine environment with antimicrobial fouling activity.	the degradation in performance of submerged marine structures through their colonization by micro- and macrobiota is well known. historically, toxic surface coatings have been used to control both types of fouling. legislative requirements worldwide now require alternative non- or minimally toxic coatings to be used. here we report on the potential for synthetic 2-pentyl-4-quinolinol (pq), an antibiotic from an alteromonas sp., as a candidate antifoulant. hundred micromolar pq reduces the growth ...	2007	17497633
alpha-agarases define a new family of glycoside hydrolases, distinct from beta-agarase families.	the gene encoding the alpha-agarase from "alteromonas agarilytica" (proposed name) has been cloned and sequenced. the gene product (154 kda) is unrelated to beta-agarases and instead belongs to a new family of glycoside hydrolases (gh96). the alpha-agarase also displays a complex modularity, with the presence of five thrombospondin type 3 repeats and three carbohydrate-binding modules.	2007	17513582
alteromonas tagae sp. nov. and alteromonas simiduii sp. nov., mercury-resistant bacteria isolated from a taiwanese estuary.	two mercury-resistant strains of heterotrophic, aerobic, marine bacteria, designated at1(t) and as1(t), were isolated from water samples collected from the er-jen river estuary, tainan, taiwan. cells were gram-negative rods that were motile by means of a single polar flagellum. buds and prosthecae were produced. the two isolates required nacl for growth and grew optimally at about 30 degrees c, 2-4 % nacl and ph 7-8. they grew aerobically and were incapable of anaerobic growth by fermenting gluc ...	2007	17551031
diversity of assimilatory nitrate reductase genes from plankton and epiphytes associated with a seagrass bed.	assimilatory nitrate reductase gene fragments were isolated from epiphytes and plankton associated with seagrass blades collected from tampa bay, florida, usa. nitrate reductase genes from diatoms (nr) and heterotrophic bacteria (nasa) were amplified by polymerase chain reaction (pcr) using two sets of degenerate primers. a total of 129 nr and 75 nasa clones from four clone libraries, two from each of epiphytic and planktonic components, were sequenced and aligned. in addition, genomic dna seque ...	2007	17851710
a dual biosensor for 2-alkyl-4-quinolone quorum-sensing signal molecules.	pseudomonas, burkholderia and alteromonas species produce diverse 2-alkyl-4-quinolones (ahqs) which inhibit the growth of bacteria, algae and phytoplankton, chelate iron, modulate mammalian host immune defences and act as quorum-sensing (qs) signal molecules. to facilitate the detection, identification and quantification of the major pseudomonas aeruginosa ahqs 2-heptyl-3-hydroxy-4-quinolone (pqs) and 2-heptyl-4-quinolone (hhq) we developed two different ahq biosensors. these were constructed by ...	2007	17922753
low densities of epiphytic bacteria from the marine alga ulva australis inhibit settlement of fouling organisms.	bacteria that produce inhibitory compounds on the surface of marine algae are thought to contribute to the defense of the host plant against colonization of fouling organisms. however, the number of bacterial cells necessary to defend against fouling on the plant surface is not known. pseudoalteromonas tunicata and phaeobacter sp. strain 2.10 (formerly roseobacter gallaeciensis) are marine bacteria often found in association with the alga ulva australis and produce a range of extracellular inhib ...	2007	17965210
[characteristics of adhesion of epiphytic bacteria on leaves of the seagrass zostera marina and on abiotic surfaces].	a comparative study of the adhesion of epiphytic bacteria and marine free-living, saprophytic, and pathogenic bacteria on seagrass leaves and abiotic surfaces was performed to prove the occurrence of true epiphytes of zostera marina and to elucidate the bacterium-plant symbiotrophic relationships. it was shown that in the course of adhesion to the seagrass leaves of two taxonomically different bacteria, cytophaga sp. kmm 3552 and pseudoalteromonas citrea kmm 461, isolated from the seagrass surfa ...	2007	17974207
molecular determination of oxytetracycline-resistant bacteria and their resistance genes from mariculture environments of china.	to assess the diversity of antibiotic-resistant bacteria and their resistance genes in typical maricultural environments.	2007	18045442
molecular structure of endotoxins from gram-negative marine bacteria: an update.	marine bacteria are microrganisms that have adapted, through millions of years, to survival in environments often characterized by one or more extreme physical or chemical parameters, namely pressure, temperature and salinity. the main interest in the research on marine bacteria is due to their ability to produce several biologically active molecules, such as antibiotics, toxins and antitoxins, antitumor and antimicrobial agents. nonetheless, lipopolysaccharides (lpss), or their portions, from g ...	2007	18463721
facilitation of robust growth of prochlorococcus colonies and dilute liquid cultures by "helper" heterotrophic bacteria.	axenic (pure) cultures of marine unicellular cyanobacteria of the prochlorococcus genus grow efficiently only if the inoculation concentration is large; colonies form on semisolid medium at low efficiencies. in this work, we describe a novel method for growing prochlorococcus colonies on semisolid agar that improves the level of recovery to approximately 100%. prochlorococcus grows robustly at low cell concentrations, in liquid or on solid medium, when cocultured with marine heterotrophic bacter ...	2008	18502916
characterization of exopolysaccharides produced by three moderately halophilic bacteria belonging to the family alteromonadaceae.	to study the exopolysaccharides (epss) produced by three novel moderately halophilic species belonging to the family alteromonadaceae to optimize eps yields, characterize their physical and chemical properties and evaluate possible biotechnological applications for these polymers.	2008	18540968
bacterial communities in the initial stage of marine biofilm formation on artificial surfaces.	succession of bacterial communities during the first 36 h of biofilm formation in coastal water was investigated at 3 approximately 15 h intervals. three kinds of surfaces (i.e., acryl, glass, and steel substratum) were submerged in situ at sacheon harbor, korea. biofilms were harvested by scraping the surfaces, and the compositions of bacterial communities were analyzed by terminal restriction fragment length polymorphism (t-rflp), and cloning and sequencing of 16s rrna genes. while community s ...	2008	18545967
monitoring of algicidal bacterium, alteromonas sp. strain a14 in its application to natural cochlodinium polykrikoides blooming seawater using fluorescence in situ hybridization.	the red tide of dinoflagellate, cochlodinium polykrikoides has frequently occurred in coastal waters, causing severe damage to fisheries. in the present study, the algicidal bacterium alteromonas sp. a14 isolated from the southern coast of korea was applied to a red tide of c. polykrikoides in a laboratory experiment. in the experiment, the abundance of the strain a14 was monitored using fluorescence in situ hybridization. inoculation of the a14 at a final cell density of 9.0 x 10(5) cells/ml ca ...	2008	18604496
[department of antibiotics: results of research activity during 80 years--since the foundation till now].	the paper on the occasion of the 80th anniversary of the d.k. zabolotny institute of microbiology and virology at the national academy of sciences of ukraine is dedicated to the research activity of one of its oldest subdivision--the department ofantibiotics. the basic trends of scientific researches and their most important results for the whole period of the department extistance, and more in detail for the recent 5-7 years have been generalized. results of fundamental ecological-taxonomic res ...	2008	18663917
comparative genomics of two ecotypes of the marine planktonic copiotroph alteromonas macleodii suggests alternative lifestyles associated with different kinds of particulate organic matter.	alteromonas macleodii is a common marine heterotrophic gamma-proteobacterium. isolates from this microbe cluster by molecular analysis into two major genotypic groups or ecotypes, one found in temperate latitudes in the upper water column and another that is for the most part found in the deep water column of the mediterranean. here, we describe the genome of one strain of the 'deep ecotype' (altde) isolated from 1000 m in the eastern mediterranean and compare this genome with that of the type s ...	2008	18670397
development of a microplate-based fluorescence immunoassay using quantum dot streptavidin conjugates for enumeration of putative marine bacteria, alteromonas sp., associated with a benthic harpacticoid copepod.	attached bacteria inhabit the surfaces of many marine animals--a process that may play important roles in the survival and transport through aquatic systems. however, efficient detection of these bacteria has been problematic, especially small aquatic animals such as benthic harpacticoid copepod. quantum dots (qd) have recently emerged as a significant tool in immunofluorescence detection because of their unique properties compared to other fluorescent probes. in the present study, a polyclonal ...	2008	18718494
analysis of the pseudoalteromonas tunicata genome reveals properties of a surface-associated life style in the marine environment.	colonisation of sessile eukaryotic host surfaces (e.g. invertebrates and seaweeds) by bacteria is common in the marine environment and is expected to create significant inter-species competition and other interactions. the bacterium pseudoalteromonas tunicata is a successful competitor on marine surfaces owing primarily to its ability to produce a number of inhibitory molecules. as such p. tunicata has become a model organism for the studies into processes of surface colonisation and eukaryotic ...	2008	18813346
photocatalytic disinfection of marine bacteria using fluorescent light.	photocatalytic oxidation (pco) using fluorescent light was used to disinfect two marine bacteria: alteromonas alvinellae and photobacterium phosphoreum. results showed that p. phosphoreum exhibited a lower susceptibility towards pco than a. alvinellae, which was related to their fatty acid profiles and levels of superoxide dismutase (sod) and catalase (cat). results also revealed that cat and sod levels would be triggered by pco reaction. in addition, pco disinfection efficiency could be enhance ...	2008	18842281
sequence specificity of bal 31 nuclease for ssdna revealed by synthetic oligomer substrates containing homopolymeric guanine tracts.	the extracellular nuclease from alteromonas espejiana, bal 31 catalyzes the degradation of single-stranded and linear duplex dna to 5'-mononucleotides, cleaves negatively supercoiled dna to the linear duplex form, and cleaves duplex dna in response to the presence of apurinic sites.	2008	18974878
alteromonas genovensis sp. nov., isolated from a marine electroactive biofilm and emended description of alteromonas macleodii baumann et al. 1972 (approved lists 1980).	thirty-five isolates obtained from a marine electroactive biofilm grown on a stainless steel cathode (genoa, italy) were investigated by a polyphasic taxonomic approach. whole-cell fatty acid methyl ester analysis indicated that the isolates belonged to the class gammaproteobacteria and were closely related or belonging to the genus alteromonas. genomic fingerprinting using the box-pcr primer delineated five clusters of isolates with similar box-pcr fingerprints. this study demonstrated that iso ...	2008	18984698
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
composition and distribution of carrabiose moieties in hybrid kappa-/iota-carrageenans using carrageenases.	hybrid kappa/iota-carrageeans extracted from gigartina skottsbergii, chondracanthus chamissoï, and chondrus crispus were incubated with pseudoalteromonas carrageenovora kappa-carrageenase and alteromonas fortis iota-carrageenase. the degradation products as well as the resistant fraction were fully characterized by chromatography, nmr, and mass spectrometry. the low percentage of degradation observed after treatment by the iota-carrageenase suggests that long segments of iota-carrabiose or block ...	2008	18081251
differential effect of three polyunsaturated aldehydes on marine bacterial isolates.	bioactive polyunsaturated aldehydes (puas) are produced by several marine phytoplankton (mainly diatoms) and have been shown to have a detrimental effect on a wide variety of organisms, including phytoplankton and invertebrates. however, their potential impact on marine bacteria has been largely neglected. we assess here the effect of three puas produced by marine diatoms: 2e,4e-decadienal, 2e,4e-octadienal and 2e,4e-heptadienal, on the growth of 33 marine bacterial strains, including 16 strains ...	2008	18093670
potential for luxs related signalling in marine bacteria and production of autoinducer-2 in the genus shewanella.	the autoinducer-2 (ai-2) group of signalling molecules are produced by both gram positive and gram negative bacteria as the by-product of a metabolic transformation carried out by the luxs enzyme. they are the only non species-specific quorum sensing compounds presently known in bacteria. the luxs gene coding for the ai-2 synthase enzyme was found in many important pathogens. here, we surveyed its occurrence in a collection of 165 marine isolates belonging to abundant marine phyla using conserve ...	2008	18215278
biodiversity of polycyclic aromatic hydrocarbon-degrading bacteria from deep sea sediments of the middle atlantic ridge.	the bacteria involved in the biodegradation of polycyclic aromatic hydrocarbons (pahs) in deep sea subsurface environments are largely unknown. in order to reveal their biodiversity, sediments from 2.2 m under the bottom surface at a water depth of 3542 m were sampled on the middle atlantic ridge with a gravity column sampler. the sediments were promptly enriched with either crude oil or a mixture of pahs (naphthalene, phenanthrene and pyrene) as the sole carbon source, and further enriched with ...	2008	18445026
purification and antibacterial characterization of a novel isoform of the manila clam lectin (mcl-4) from the plasma of the manila clam, ruditapes philippinarum.	in many bivalve molluscs, lectins are present in the hemolymph and are thought to be important for internal host defense mechanisms. for this study, we purified a novel isoform of the manila clam lectin (designated mcl-4) from the plasma of the manila clam, ruditapes philippinarum, using affinity chromatography and gel filtration. native page results showed that the mcl-4 consisted of 70 kda protein. mcl-4 was found to be composed of 58-kda and 43-kda bands when examined using sds-page under red ...	2008	18337136
microbes enriched in seawater after addition of coral mucus.	we investigated which microbial taxa in coastal red sea water were stimulated by addition of mucus from the coral fungia sp. decreases in the concentration and c/n ratio of particulate organic material during short-term incubations (50 h) were paralleled by a steep rise in the number of gammaproteobacteria, particularly alteromonadaceae, followed by vibrionaceae. two almost identical genotypes affiliated with alteromonas macleodii accounted for up to >85% of all alteromonadaceae (45% of the tota ...	2008	18344335
[diversity of culturable bacteria associated with the sea urchin hemicentrotus pulcherrimus from naozhou island].	to investigate the diversity of culturable bacteria isolated from the sea urchin hemicentrotus pulcherrimus collected from a tidal flat of naozhou island (20 degrees 52'n - 20 degrees 56'n 110 degrees 33'e - 110 degrees 38'e), leizhou bay, south china sea, china.	2009	20112668
determination of lipid degradation by marine lipase-producing bacteria: critical evaluation of lipase activity assays.	with the aim of obtaining a better understanding of lipids-lipases interactions in bacterioplankton communities in oceans, we used different methods for measuring lipase activities in pure cultures of the marine strain alteromonas macleodii. the decay of tripalmitate added to cultures was followed chemically over time. in an enzymatic approach, lipase activities were measured using the fluorogenic lipid analogs muf-palmitate and elf-palmitate. when hydrolyzed by lipase, the non-fluorescent subst ...	2009	19851799
laboratory scale bioremediation of diesel hydrocarbon in soil by indigenous bacterial consortium.	in vitro experiment was performed by taking petrol pump soils and diesel in flasks with the micronutrients and macronutrients supplements. cemented bioreactors having sterilized soil and diesel was used for in vivo analysis of diesel hydrocarbon degradation. there were two sets of experiments, first having three bioreactors (1) inoculated by ki. pneumoniae subsp. aerogenes with soil and diesel; (2) with addition of nh4no3; and (3) served as control. in second set, one bioreactor was inoculated b ...	2009	19957891
sponge-associated marine bacteria as indicators of heavy metal pollution.	sponges invariably filter a large volume of seawater and potentially accumulate heavy metals and other contaminants from the environment. sponges, being sessile marine invertebrates and modular in body organization, can live many years in the same location and therefore have the capability to accumulate anthropogenic pollutants such as metals over a long period. almost all marine sponges harbor large number of microorganisms within their tissues where they reside in the extra- and intra-cellular ...	2009	17604613
diversity of both the cultivable protease-producing bacteria and their extracellular proteases in the sediments of the south china sea.	protease-producing bacteria are known to play an important role in degrading sedimentary particular organic nitrogen, and yet, their diversity and extracellular proteases remain largely unknown. in this paper, the diversity of the cultivable protease-producing bacteria and their extracellular proteases in the sediments of the south china sea was investigated. the richness of the cultivable protease-producing bacteria reached 10(6) cells/g in all sediment samples. analysis of the 16s rrna gene se ...	2009	19301066
using multiconformation continuum electrostatics to compare chloride binding motifs in alpha-amylase, human serum albumin, and omp32.	ions are a ubiquitous component of the cellular environment, transferring into cells through membrane-embedded proteins. ions bind to proteins to regulate their charge and function. here, using multiconformation continuum electrostatics (mcce), we show that the changes of chloride binding to alpha-amylase, human serum albumin (hsa) and omp32 with ph, and of alpha-amylase with mutation agree well with experimental data. the three proteins represent three different types of binding. in alpha-amyla ...	2009	19340943
coral-associated bacteria and their role in the biogeochemical cycling of sulfur.	marine bacteria play a central role in the degradation of dimethylsulfoniopropionate (dmsp) to dimethyl sulfide (dms) and acrylic acid, dms being critical to cloud formation and thereby cooling effects on the climate. high concentrations of dmsp and dms have been reported in scleractinian coral tissues although, to date, there have been no investigations into the influence of these organic sulfur compounds on coral-associated bacteria. two coral species, montipora aequituberculata and acropora m ...	2009	19346350
alteromonas halophila sp. nov., a new moderately halophilic bacterium isolated from a sea anemone.	a pale yellow-colored, moderately halophilic, gram-negative, catalase- and oxidase-positive, non-sporulating, rod-shaped, motile, aerobic bacterium, designated strain jsm 073008(t), was isolated from a sea anemone (anthopleura xanthogrammica) collected from naozhou island, leizhou bay, south china sea. the organism was able to grow with 1-20% (w/v) total salts (optimum, 5-10%), at ph 6.0-10.0 (optimum, ph 7.5) and 10-40 degrees c (optimum, 25-30 degrees c). the major cellular fatty acids were c( ...	2009	19390988
[phylogenetic diversity of cultivable bacteria associated with a sea anemone from coast of the naozhou island in zhanjiang, china].	to understand the diversity of cultivable bacteria isolated from a sea anemone collected from the coastal water of the naozbou island in the leizhou bay on south china sea.	2009	19445182
aliagarivorans marinus gen. nov., sp. nov. and aliagarivorans taiwanensis sp. nov., facultatively anaerobic marine bacteria capable of agar degradation.	two agarolytic strains of gram-negative, heterotrophic, facultatively anaerobic, marine bacteria, designated aam1t and aat1t, were isolated from seawater samples collected in the shallow coastal region of an-ping harbour, tainan, taiwan. cells grown in broth cultures were straight rods that were motile by means of a single polar flagellum. the two isolates required nacl for growth and grew optimally at about 25-30 degrees c, in 2-4% nacl and at ph 8. they grew aerobically and could achieve anaer ...	2009	19567569
molecular cloning and functional expression of a new amylosucrase from alteromonas macleodii.	the presence of amylosucrase in 12 alteromonas and pseudoalteromonas strains was examined. two alteromonas species (alteromonas addita kctc 12195 and alteromonas macleodii kctc 2957) possessed genes that had high sequence homology to known amylosucrases. genomic clones containing the asase analogs were obtained from a. addita and a. macleodii, and the deduced amino acid sequences of the corresponding genes (aaas and amas, respectively) revealed that they were highly similar to the asases of neis ...	2009	19584557
discovery of [nife] hydrogenase genes in metagenomic dna: cloning and heterologous expression in thiocapsa roseopersicina.	using a metagenomics approach, we have cloned a piece of environmental dna from the sargasso sea that encodes an [nife] hydrogenase showing 60% identity to the large subunit and 64% to the small subunit of a thiocapsa roseopersicina o2-tolerant [nife] hydrogenase. the dna sequence of the hydrogenase identified by the metagenomic approach was subsequently found to be 99% identical to the hyaa and hyab genes of an alteromonas macleodii hydrogenase, indicating that it belongs to the alteromonas cla ...	2009	19633107
aestuariibacter litoralis sp. nov., isolated from a sandy sediment of the sea of japan.	the phenotypic and phylogenetic characteristics of an aerobic, gram-negative, motile, non-pigmented alteromonas-like bacterium (designated strain kmm 3894(t)), isolated from a sandy sediment sample collected offshore of the sea of japan, were investigated. comparative 16s rrna gene sequence analysis revealed that strain kmm 3894(t) belonged to the genus aestuariibacter and was most closely related to aestuariibacter halophilus jc2043(t) (95.5 % sequence similarity). fatty acid analysis showed c( ...	2010	19651716
structural insights into the dual activities of the nerve agent degrading organophosphate anhydrolase/prolidase.	the organophosphate acid anhydrolase (opaa) is a member of a class of bimetalloenzymes that hydrolyze a variety of toxic acetylcholinesterase-inhibiting organophosphorus compounds, including fluorine-containing chemical nerve agents. it also belongs to a family of prolidases, with significant activity against various xaa-pro dipeptides. here we report the x-ray structure determination of the native opaa (58 kda mass) from alteromonas sp. strain jd6.5 and its cocrystal with the inhibitor mipafox ...	2010	20000741
complete assignment of (1)h and (13)c nmr spectra of standard neo-iota-carrabiose oligosaccharides.	standard eucheuma denticulatum iota-carrageenan was degraded with the alteromonas fortis iota-carrageenase. the most abundant products, the neo-iota-carratetraose and neo-iota-carrahexaose were purified by permeation gel chromatography, and their corresponding (1)h and (13)c nmr spectra were fully assigned.	2010	20038459
phylogenetic diversity and antimicrobial activities of bryozoan-associated bacteria isolated from mediterranean and baltic sea habitats.	to date, only a small number of investigations covering microbe-bryozoa associations have been carried out. most of them have focused on a few bryozoan species and none have covered the antibacterial activities of associated bacteria. in the current study, the proportion and phylogenetic classification of bryozoan-associated bacteria with antimicrobial properties were investigated. twenty-one specimens of 14 different bryozoan species were collected from several sites in the baltic and the medit ...	2010	20153592
biosurfactants, bioemulsifiers and exopolysaccharides from marine microorganisms.	marine biosphere offers wealthy flora and fauna, which represents a vast natural resource of imperative functional commercial grade products. among the various bioactive compounds, biosurfactant (bs)/bioemulsifiers (be) are attracting major interest and attention due to their structural and functional diversity. the versatile properties of surface active molecules find numerous applications in various industries. marine microorganisms such as acinetobacter, arthrobacter, pseudomonas, halomonas, ...	2010	20172021
enzymatic degradation of hybrid iota-/nu-carrageenan by alteromonas fortis iota-carrageenase.	hybrid iota-/nu-carrageenan was water-extracted from eucheuma denticulatum and incubated with alteromonas fortis iota-carrageenase. the degradation products were then separated by anion-exchange chromatography. the three most abundant fractions of hybrid iota-/nu-carrageenan oligosaccharides were purified and their structures were analyzed by nmr. the smallest hybrid was an octasaccharide with a iota-iota-nu-iota structure. the second fraction was composed of two decasaccharides with iota-iota-i ...	2010	20227066
bacterioplankton diversity and community composition in the southern lagoon of venice.	the lagoon of venice is a large water basin that exchanges water with the northern adriatic sea through three large inlets. in this study, the 16s rrna approach was used to investigate the bacterial diversity and community composition within the southern basin of the lagoon of venice and at one inlet in october 2007 and june 2008. comparative sequence analysis of 645 mostly partial 16s rrna gene sequences indicated high diversity and dominance of alphaproteobacteria, gammaproteobacteria and bact ...	2010	20227843
16srrna and enzymatic diversity of culturable bacteria from the sediments of oxygen minimum zone in the arabian sea.	sediment underlying the oxygen minimum zone of the eastern arabian sea is rich in organic matter. bacteria in this sediment-water interface are of great ecological importance as they are responsible for decomposing, mineralizing and subsequent recycling of organic matter. this study has for the first time addressed the phylogenetic and functional description of culturable bacteria of this region. genotypic characterization of the isolates using amplified rdna restriction analysis (ardra) followe ...	2010	20229220
effect of a transient perturbation on marine bacterial communities with contrasting history.	to evaluate the importance of the bacterial composition on the resilience of the organic matter assimilation in the sea.	2010	20337764
biofilm disruption potential of a glycolipid biosurfactant from marine brevibacterium casei.	the antibiofilm activity of a glycolipid biosurfactant isolated from the marine actinobacterium brevibacterium casei msa19 was evaluated against pathogenic biofilms in vitro. the isolate b. casei msa19 was a potential biosurfactant producer among the 57 stable strains isolated from the marine sponge dendrilla nigra. the biosurfactant production was optimized under submerged fermentation. the purified glycolipid showed a broad spectrum of antimicrobial activity. based on the minimum inhibitory co ...	2010	20528933
identification of catalytic residues and mechanistic analysis of family gh82 iota-carrageenases.	marine polysaccharide degrading enzymes, and iota-carrageenases in particular, have received little attention in the past, although their substrate specificity is of interest for biotechnological applications. this is mostly a consequence of the lack of data about their occurrence in the marine environment. recent metagenomic data mining and the genome sequencing of a marine bacterium, zobellia galactanivorans, led to the identification of three new iota-carrageenase genes belonging to the glyco ...	2010	20681629
microbial community transcriptomes reveal microbes and metabolic pathways associated with dissolved organic matter turnover in the sea.	marine dissolved organic matter (dom) contains as much carbon as the earth's atmosphere, and represents a critical component of the global carbon cycle. to better define microbial processes and activities associated with marine dom cycling, we analyzed genomic and transcriptional responses of microbial communities to high-molecular-weight dom (hmwdom) addition. the cell density in the unamended control remained constant, with very few transcript categories exhibiting significant differences over ...	2010	20807744
[screening and characterization of antibacterial and cytotoxic marine bacteria associated with karlodinium micrum].	antibacterial and cytotoxic activities were screened for marine bacteria which have been isolated from karlodinium micrum, in order to obtain potential strains with antibacterial and cytotoxic activities.	2010	20931872
[structure and function of marinostatin, a serine protease inhibitor].		2010	21226332
catenovulum agarivorans gen. nov. sp. nov., a peritrichously flagellated, catenated, agar-hydrolyzing {gamma}-proteobacterium isolated from the yellow sea.	a novel gram-negative, strictly aerobic, agar-hydrolyzing bacterium designated ym01(t) was isolated from sea water samples collected from the yellow sea (coastal region of qingdao, p.r. china). cells were rod-shaped, peritrichously flagellated and formed long chains by end-to-end. this isolate absolutely required na(+) ions but not sea water for growth, and grew optimally at about 28° c, 2 % nacl and ph 8-9. this isolate could not be cultured in marine broth 2216 without agar. ym01(t) was able t ...	2011	21257691
[nife] hydrogenase from alteromonas macleodii with unusual stability in the presence of oxygen and high temperature.	hydrogenases are enzymes involved in the bioproduction of hydrogen, a clean alternative energy source whose combustion generates water as the only end product. in this article we identified and characterized a [nife] hydrogenase from the marine bacterium alteromonas macleodii "deep ecotype" with unusual stability toward oxygen and high temperature. the a. macleodii hydrogenase (hynsl) can catalyze both h(2) evolution and h(2) uptake reactions. hynsl was expressed in a. macleodii under aerobic co ...	2011	21257809
dependence of the cyanobacterium prochlorococcus on hydrogen peroxide scavenging microbes for growth at the ocean's surface.	the phytoplankton community in the oligotrophic open ocean is numerically dominated by the cyanobacterium prochlorococcus, accounting for approximately half of all photosynthesis. in the illuminated euphotic zone where prochlorococcus grows, reactive oxygen species are continuously generated via photochemical reactions with dissolved organic matter. however, prochlorococcus genomes lack catalase and additional protective mechanisms common in other aerobes, and this genus is highly susceptible to ...	2011	21304826
heterologous expression of alteromonas macleodii and thiocapsa roseopersicina [nife] hydrogenases in escherichia coli.	hynsl from alteromonas macleodii 'deep ecotype' (altde) is an oxygen-tolerant and thermostable [nife] hydrogenase. its two structural genes (hynsl), encoding small and large hydrogenase subunits, are surrounded by eight genes (hynd, huph and hypcabdfe) predicted to encode accessory proteins involved in maturation of the hydrogenase. a 13 kb fragment containing the ten structural and accessory genes along with three additional adjacent genes (orf2, cyt and orf1) was cloned into an iptg-inducible ...	2011	21349975
effects of a sulfated exopolysaccharide produced by altermonas infernus on bone biology.	the growth and differentiation of bone cells is controlled by various factors, which can be modulated by heparan sulfates. here, we investigated the effects of an oversulfated exopolysaccharide (os-eps) on the bone. we compared the effect of this compound with that of a native eps. long-term administration of os-eps causes cancellous bone loss in mice due, in part, to an increase in the number of osteoclasts lining the trabecular bone surface. no significant difference in cancellous bone volume ...	2011	21385793
major phylogenetic groups of marine bacteria differ in growth response to natural phytoplankton blooms in the western north pacific.	growth and productivity of phytoplankton substantially change organic matter characteristics, which affect bacterial abundance, productivity, and community structure in aquatic ecosystems. we analyzed bacterial community structures and measured activities inside and outside of phytoplankton blooms in the northwest pacific ocean by using bromodeoxyuridine immunocytochemistry fluorescence in situ hybridization (bic-fish). roseobacter/rhodobacter, sar11, betaproteobacteria, alteromonas, sar86, and ...	2011	21515719
composition and variability of biofouling organisms in seawater reverse osmosis desalination plants.	seawater reverse osmosis (swro) membrane biofouling remains a common challenge in desalination industry. however, the marine bacterial community that causes membrane fouling is poorly understood. microbial communities at different stage of treatment processes (intake, cartridge filtration and swro) of a desalination pilot plant were examined by both culture-based and culture-independent approaches. bacterial isolates were identified to match genus shewanella, alteromonas, vibrio and cellulophaga ...	2011	21551282
sterilization of exopolysaccharides produced by deep-sea bacteria: impact on their stability and degradation.	polysaccharides are highly heat-sensitive macromolecules, so high temperature treatments are greatly destructive and cause considerable damage, such as a great decrease in both viscosity and molecular weight of the polymer. the technical feasibility of the production of exopolysaccharides by deep-sea bacteria vibrio diabolicus and alteromonas infernus was previously demonstrated using a bioproduct manufacturing process. the objective of this study was to determine which sterilization method, oth ...	2011	21566796
genome-level homology and phylogeny of shewanella (gammaproteobacteria: lteromonadales: shewanellaceae).	abstract:	2011	21569439
heterologous expression of alteromonas macleodii and thiocapsa roseopersicina [nife] hydrogenases in synechococcus elongatus.	oxygen-tolerant [nife] hydrogenases may be used in future photobiological hydrogen production systems once the enzymes can be heterologously expressed in host organisms of interest. to achieve heterologous expression of [nife] hydrogenases in cyanobacteria, the two hydrogenase structural genes from alteromonas macleodii deep ecotype (altde), hyns and hynl, along with the surrounding genes in the gene operon of hynsl were cloned in a vector with an iptg-inducible promoter and introduced into syne ...	2011	21637846
diversity of protease-producing marine bacteria from sub-antarctic environments.	from seawater and the intestines of benthonic organisms collected from the beagle channel, argentina, 230 marine bacteria were isolated. cultivable bacteria were characterized and classified as psychrotolerant, whereas few isolates were psychrophiles. these isolates were capable of producing proteases at 4 and 15 °c under neutral (ph 7.0), alkaline (ph 10.0) and acidic (ph 4.5) conditions on different media, revealing 62, 33 and 22% producers at cold and 84, 47 and 33% producers at low temperatu ...	2011	21656810
phylogenetic analysis of culturable marine bacteria in sediments from the south korean yellow sea.	biogeochemical and microbiological characterization of marine sediments taken from the yellow sea of south korea was carried out. one hundred and thirty six bacterial strains were isolated, characterized and phylogenetic relationship was evaluated. the gene sequences of 16s rdna regions were examined to study the phylogenetic analysis of bacterial community in the marine sediments. among 136 isolates, 5 bacterial isolates were identified as novel members, remaining 131 isolates were fall into 5 ...	2011	21675219
genetic analysis of the alteromonas macleodii [nife]-hydrogenase.	alteromonas macleodii deep ecotype is a marine, heterotrophic, gammaproteobacterium isolated in the mediterranean sea between depths of 1000 and 3500ôçâm. the sequenced strain was previously reported to contain a [nife] hydrogenase. we verified the presence of this hydrogenase in other strains of a. macleodii deep ecotype that were previously isolated from several bathypelagic microenvironments. we developed a system for the genetic manipulation of a. macleodii deep ecotype using conjugation and ...	2011	21718346
complete genome sequence of the polycyclic aromatic hydrocarbon-degrading bacterium alteromonas sp. strain sn2.	alteromonas sp. strain sn2, able to metabolize polycyclic aromatic hydrocarbons, was isolated from a crude oil-contaminated sea-tidal flat. here we report the complete 4.97-mb genome sequence and annotation of strain sn2. these will advance the understanding of strain sn2's adaptation to the sea-tidal flat ecosystem and its pollutant metabolic versatility.	2011	21705606
net production/consumption of fluorescent coloured dissolved organic matter by natural bacterial assemblages growing on marine phytoplankton exudates.	understanding the distribution of coloured dissolved organic matter (cdom) in the oceans and its role in the global carbon cycle requires a better knowledge of the coloured materials produced and consumed by marine phytoplankton and bacteria. in this work we examined the net uptake/release of cdom by a natural bacterial community growing on dom derived from four phytoplankton species cultured in axenic conditions. fluorescent humic-like substances exuded by phytoplankton (ex/em: 310 nm/392 nm; p ...	2011	21742918
complete genome sequence of the agarase-producing marine bacterium strain s89, representing a novel species of the genus alteromonas.	we report here the annotated genome sequence of the marine bacterium alteromonas sp. s89 and the identification of six genes coding for agar-degrading enzymes. the sequenced alteromonas sp. s89 genome is composed of a 3,864,871-bp circular chromosome that includes 3,236 complete open reading frames.	2011	21914866
Heterologous production of bisucaberin using a biosynthetic gene cluster cloned from a deep sea metagenome.	A siderophore biosynthetic gene cluster was cloned from a metagenomic library generated from deep sea sediment. The gene cluster was successfully expressed in Escherichia coli to produce bisucaberin, a siderophore originally reported from the marine bacterium Alteromonas haloplanktis. The cloned bisucaberin biosynthetic gene cluster was moderately similar to that of the known bisucaberin producer Vibrio salmonicida. However, the cloned gene cluster consists of four genes rather than three genes ...	2011	22051782
transcriptional responses of surface water marine microbial assemblages to deep-sea water amendment.	deep-water nutrient injection in the north pacific subtropical gyre provides an aperiodic yet significant source of inorganic nutrients to the nutrient-limiting surface waters, and has been implicated in phytoplankton bloom formation. here we examined short-term transcriptional responses of surface water picoplankton assemblages in a deep-sea water (dsw) mixing experiment. both flow cytometric and transcriptomic analysis indicated stimulation of an alteromonas-like population in the dsw-amended ...	2011	21981709
comparative metagenomics of bathypelagic plankton and bottom sediment from the sea of marmara.	to extend comparative metagenomic analyses of the deep-sea, we produced metagenomic data by direct 454 pyrosequencing from bathypelagic plankton (1000 m depth) and bottom sediment of the sea of marmara, the gateway between the eastern mediterranean and the black seas. data from small subunit ribosomal rna (ssu rrna) gene libraries and direct pyrosequencing of the same samples indicated that gamma- and alpha-proteobacteria, followed by bacteroidetes, dominated the bacterial fraction in marmara d ...	2011	20668488
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
[The Black Sea bacteria--producers of hydrolytic enzymes].	Investigation of 15 different glycoside activities of 64 strains isolated from water and invertebra of the Black Sea has shown that 64% of the studied strains displayed the capacity to synthesize enzymes with alpha-L-ramnosidase activity which varied from 0.01 to 0.20 un/ml depending on the strain. The greatest number of the enzyme producers was found in representatives of Alteromonas macleodii. Other investigated glycosidase activities: alpha-amylase, beta-N-acetyl-D-glucosaminidase, beta-D-glu ...	2011	22164694