| phylogenetic analysis of the genera alteromonas, shewanella, and moritella using genes coding for small-subunit rrna sequences and division of the genus alteromonas into two genera, alteromonas (emended) and pseudoalteromonas gen. nov., and proposal of twelve new species combinations. | small-subunit ribosomal dna sequences were determined for 17 strains belonging to the genera alteromonas, shewanella, vibrio, and pseudomonas, and these sequences were analyzed by phylogenetic methods. the resulting data confirmed the existence of the genera shewanella and moritella, but suggested that the genus alteromonas should be split into two genera. we propose that a new genus, the genus pseudoalteromonas, should be created to accommodate 11 species that were previously alteromonas specie ... | 1995 | 7547295 |
| isolation and characterization of alginate-derived oligosaccharides with root growth-promoting activities. | lytic digestion of poly(mannuronate), poly(guluronate), and alginate with an alginate lyase from alteromonas macleodii was used to prepare mixtures of unsaturated oligosaccharides. four oligosaccharides isolated from the alginate lyase-lysate by anion-exchange chromatography on q-sepharose were found to be the major components of the root growth-promoting lysate. the oligosaccharides were analyzed by nmr and sims and identified as di- and tri-saccharides having o-(4-deoxy-l-erythro-hex-4-enopyra ... | 1994 | 8039175 |
| [structure of the repeating unit of acid polysaccharide from alteromonas macleodii 2mm6]. | an acidic polysaccharide from alteromonas macleodii 2mm6 is shown to consist of tetrasaccharide repeating units containing d-galactose, 3-o-acetyl-2-acetamido-2-deoxy-d-glucose, 2-acetamido-2-deoxy-l-guluronic acid and 3,6-dideoxy-3-(4-hydroxybutyramido)-d-galactose residues. on the basis of sugar analysis, 1h and 13c nmr-spectroscopy data including noe and one-dimensional hohaha experiments, the following structure was suggested for the polysaccharide repeating unit: [formula: see text] r: -co- ... | 1993 | 8373454 |
| description of a new polymer-secreting bacterium from a deep-sea hydrothermal vent, alteromonas macleodii subsp. fijiensis, and preliminary characterization of the polymer. | a deep-sea, aerobic, mesophilic, heterotrophic bacterium was isolated from fluid collected near an active hydrothermal vent. on the basis of phenotypic and phylogenetic analyses and dna-dna relatedness, strain st716 could be assigned to the species alteromonas macleodii as a new subspecies. this bacterium secreted an unusual high-molecular-weight polysaccharide in the presence of glucose in batch cultures. the viscosity of this exopolysaccharide is of the same order of magnitude as that of xanth ... | 1996 | 8572714 |
| phenotypic diversity of pseudoalteromonas citrea from different marine habitats and emendation of the description. | four strains of marine, aerobic, agar-decomposing bacteria with one polar flagellum and with dna g + c contents of 38.9-40.2 mol% were isolated from the far-eastern mussels crenomytilus grayanus and patinopecten yessoensis. these four strains were identified as pseudoalteromonas; however, they were phenotypically different from species described previously according to carbon compound utilization tests and the biolog identification system. high agar-decomposing activity was found in two strains, ... | 1998 | 9542094 |
| structural studies of an exopolysaccharide produced by alteromonas macleodii subsp. fijiensis originating from a deep-sea hydrothermal vent. | the structure of the exopolysaccharide produced by alteromonas macleodii subsp. fijiensis recovered from a deep-sea hydrothermal vent has been investigated. by means of chemical analysis and nmr studies, the repeating unit of the polymer was deduced to be a branched hexasaccharide with the structure shown. [formula: see text] | 1998 | 9836450 |
| diversity of free-living and attached bacteria in offshore western mediterranean waters as depicted by analysis of genes encoding 16s rrna. | in a previous study (s. g. acinas, f. rodríguez-valera, and c. pedrós-alió, fems microbiol. ecol. 24:27-40, 1997), community fingerprinting by 16s rdna restriction analysis applied to mediterranean offshore waters showed that the free-living pelagic bacterial community was very different from the bacterial cells aggregated or attached to particles of more than about 8 micrometer. here we have studied both assemblages at three depths (5, 50, and 400 m) by cloning and sequencing the 16s rdna obtai ... | 1999 | 9925576 |
| successional changes in the genetic diversity of a marine bacterial assemblage during confinement. | the successional changes in the genetic diversity of mediterranean bacterioplankton subjected to confinement were studied in an experimental 300 1 seawater enclosure. five samples were taken at different times and analyzed by polymerase chain reaction-denaturing gradient gel electrophoresis (pcr-dgge) fingerprinting to rapidly monitor changes in the bacterial genetic diversity. dgge analysis clearly showed variations between the samples. three of the five samples, with different dgge banding pat ... | 2000 | 10795685 |
| evaluation of phospholipid and fatty acid compositions as chemotaxonomic markers of alteromonas-like proteobacteria. | the cellular phospholipids (pls) and fatty acids (fas) were investigated in type and environmental strains of pseudoalteromonas, alteromonas macleodii, a. infernus, and in three type strains of marinomonas, m. communis, m. vaga, m. mediterranea. a total of 40 strains (19 strains in this study and 21 reported in previous papers), including idiomarina abyssalis, i. zobellii, and glaciecola punicea, g. pallidula, aerobic alteromonas-like proteobacteria showed genus-characteristic patterns of phosph ... | 2000 | 11014871 |
| characterization of facultative oligotrophic bacteria from polar seas by analysis of their fatty acids and 16s rdna sequences. | one hundred and seventy three bacterial strains, isolated previously after enrichment under oligotrophic, psychrophylic conditions from arctic (98 strains) and antarctic seawater (75 strains), were characterized by gas-liquid chromatographic analysis of their fatty acid compositions. by numerical analysis, 8 clusters, containing 2 to 59 strains, could be delineated, and 8 strains formed separate branches. five clusters contained strains from both poles, two minor clusters were confined to arctic ... | 2001 | 11403404 |
| microbial communities in the chemocline of a hypersaline deep-sea basin (urania basin, mediterranean sea). | the urania basin is a hypersaline sulfidic brine lake at the bottom of the eastern mediterranean sea. since this basin is located at a depth of approximately 3,500 m below the sea surface, it receives only a small amount of phytoplankton organic carbon. in the present study, the bacterial assemblages at the interface between the hypersaline brine and the overlaying seawater were investigated. the sulfide concentration increased from 0 to 10 mm within a vertical interval of 5 m across the interfa ... | 2001 | 11722884 |
| microbial diversity in smoked salmon examined by a culture-independent molecular approach--a preliminary study. | microbial biodiversity in sliced vacuum-packed cold smoked salmon was investigated using culture-independent molecular biology techniques. sliced smoked salmon was stored for 25 days after being packed at 4 degrees c. dna was extracted from sliced vacuum-packed cold smoked salmon. pcr dna amplification were carried out using universal eubacterial primers corresponding to escherichia coli 16s rrna gene. 16s rrna genes were amplified, cloned in e. coli and compared using amplification ribosomal dn ... | 2001 | 11759756 |
| phylogenetic composition of bacterioplankton assemblages from the arctic ocean. | we analyzed the phylogenetic composition of bacterioplankton assemblages in 11 arctic ocean samples collected over three seasons (winter-spring 1995, summer 1996, and summer-fall 1997) by sequencing cloned fragments of 16s rrna genes. the sequencing effort was directed by denaturing gradient gel electrophoresis (dgge) screening of samples and the clone libraries. sequences of 88 clones fell into seven major lineages of the domain bacteria: alpha(36%)-, gamma(32%)-, delta(14%)-, and epsilon(1%)-p ... | 2002 | 11823184 |
| prevalence and microdiversity of alteromonas macleodii-like microorganisms in different oceanic regions. | the presence, prevalence and variability of microorganisms related to the species alteromonas macleodii, a well known culturable gamma-proteobacterium, has been studied in different seawater samples from diverse geographical locations, in both the northern and southern hemispheres, and tested with two molecular techniques (rrna hybridization and gene cloning and sequencing). results show that a. macleodii-like microorganisms are present in high proportions in north atlantic and, especially, medi ... | 2002 | 11966824 |
| bacterial distribution and phylogenetic diversity in the changjiang estuary before the construction of the three gorges dam. | the bacterial community structure in the changjiang estuary was studied for comparison with future changes, related to the construction of the three gorges dam. population densities of bacteria in the surface water at station c1 estimated by cfu on marine agar plates and by dapi direct count, were 2.8 x 10(4) ml(-1) and 4.2 x 10(5) ml(-1), respectively. physicochemical properties of water, such as temperature and salinity, suggested that station c1 was affected by freshwater from the changjiang ... | 2002 | 11984631 |
| structure of o-specific polysaccharide from pseudoalteromonas nigrifaciens strain kmm 161. | on mild acid degradation of the lipopolysaccharide of the marine microorganism pseudoalteromonas nigrifaciens kmm 161 an o-specific polysaccharide containing d-galactose, 2-acetamido-2-deoxy-d-glucose, 3,6-dideoxy-3-(4-hydroxybutyramido)-d-galactose, and 2-acetamido-2-deoxy-l-guluronic acid residues was obtained. from the results of smith degradation, o-deacetylation of the polysaccharide, and nmr spectroscopy the following structure of the tetrasaccharide repeating unit of the o-specific polysa ... | 2002 | 12126475 |
| a novel polymer produced by a bacterium isolated from a deep-sea hydrothermal vent polychaete annelid. | the objective of the present work was to describe an aerobic, mesophilic and heterotrophic marine bacterium, designated hyd657, able to produce an exopolysaccharide (eps). it was isolated from a east pacific rise deep-sea hydrothermal vent polychaete annelid. | 2002 | 12147080 |
| [antibiotic properties of the pseudoalteromonas genus bacteria isolated from the black sea water and molluscs]. | antagonistic properties of 41 strains of alteromonas-like bacteria isolated from the black sea water and molluscs have been studied. being grown on the rich medium "b" for marine bacteria, 21% of strains have shown high antagonistic activity against phytopathogenic fungi; 6% of strains inhibited the growth of bacillus subtilis, proteus vulgaris and candida albicans. spectrum of antagonistic activity was essentially changed on synthetic "bm" medium with acetate, glutamate, alpha-alanine as a sing ... | 2002 | 12190034 |
| polyamine distribution patterns within the families aeromonadaceae, vibrionaceae, pasteurellaceae, and halomonadaceae, and related genera of the gamma subclass of the proteobacteria. | polyamines of the four families and the five related genera within the gamma subclass of the class proteobacteria were analyzed by hplc with the objective of developing a chemotaxonomic system. the production of putrescine, diaminopropane, cadaverine, and agmatine are not exactly correlated to the phylogenetic genospecies within 36 strains of the genus aeromonas (the family aeromonadaceae) lacking in triamines. the occurrence of norspermidine was limited but not ubiquitous within the family vibr ... | 1997 | 12501353 |
| a novel, highly viscous polysaccharide excreted by an alteromonas isolated from a deep-sea hydrothermal vent shrimp. | a deep-sea, mesophilic, aerobic, and heterotrophic microorganism, able to produce an extracellular polysaccharide, was isolated from a shrimp collected near an active hydrothermal vent of the mid-atlantic ridge. on the basis of phenotypic and phylogenetic analyses and dna/dna relatedness, this strain could be assigned to the species alteromonas macleodii as a variant of the fijiensis subspecies. it was selected for its ability to exhibit a swarming mucoid phenotype on specific media. the bacteri ... | 2003 | 12732953 |
| degradation of chlorinated biphenyl, dibenzofuran, and dibenzo-p-dioxin by marine bacteria that degrade biphenyl, carbazole, or dibenzofuran. | marine bacterial strains (bp-ph, car-sf, and dbf-mak) were isolated using biphenyl, carbazole (car), or dibenzofuran (df) respectively as substrates for growth. their 16s ribosomal dna sequences showed that the species closest to strain bp-ph, strain car-sf, and strain dbf-mak are alteromonas macleodii (96.3% identity), neptunomonas naphthovorans (93.1% identity), and cycloclasticus pugetii (97.3% identity), respectively. the metabolites produced suggested that strain car-sf degrades car via dio ... | 2003 | 12834291 |
| alteromonas marina sp. nov., isolated from sea water of the east sea in korea. | two gram-negative, motile, non-spore-forming and moderately halophilic rods (strains sw-47(t) and sw-49) were isolated from sea water of the east sea in korea and subjected to a polyphasic taxonomic study. the two strains grew optimally between 30 and 37 degrees c, and grew at 4 and 44 degrees c but not at temperatures above 45 degrees c. they grew optimally in the presence of 2-5 % (w/v) nacl, but did not grow in the absence of nacl. strains sw-47(t) and sw-49 had ubiquinone-8 (q-8) as the pred ... | 2003 | 13130060 |
| aestuariibacter salexigens gen. nov., sp. nov. and aestuariibacter halophilus sp. nov., isolated from tidal flat sediment, and emended description of alteromonas macleodii. | two strictly aerobic, halophilic strains of the gamma-proteobacteria, designated jc2042(t) and jc2043(t), were obtained from a sediment sample of getbol, the korean tidal flat. comparative 16s rdna sequence studies revealed that the test strains were related most closely to the type strains of the genera alteromonas (93.5-95.5 %) and glaciecola (91.1-93.3 %). phylogenetic analyses demonstrated that strains jc2042(t) and jc2043(t) formed a distinct monophyletic clade within the family alteromonad ... | 2004 | 15023977 |
| low-molecular-weight, biologically active compounds from marine pseudoalteromonas species. | we have examined the ability of marine proteobacteria from the pseudoalteromonas genus and alteromonas macleodii to produce low-molecular-weight, biologically active compounds with antimicrobial and surface-active properties. a new marine bacterium, pseudoalteromonas issachenkonii, exhibited a high level of biological activity and produced antifungal and hemolytic compounds. a detailed spectroscopic investigation based on uv, ir, high-resolution mass spectrometry, and 2d 1h and 13c nuclear magne ... | 2004 | 15170241 |
| alteromonas stellipolaris sp. nov., a novel, budding, prosthecate bacterium from antarctic seas, and emended description of the genus alteromonas. | seven novel, cold-adapted, strictly aerobic, facultatively oligotrophic strains, isolated from antarctic sea water, were investigated by using a polyphasic taxonomic approach. the isolates were gram-negative, chemoheterotrophic, motile, rod-shaped cells that were psychrotolerant and moderately halophilic. buds were produced on mother and daughter cells and on prosthecae. prostheca formation was peritrichous and prosthecae could be branched. phylogenetic analysis based on 16s rrna gene sequences ... | 2004 | 15280285 |
| alteromonas litorea sp. nov., a slightly halophilic bacterium isolated from an intertidal sediment of the yellow sea in korea. | a gram-negative, motile, non-spore-forming, rod-shaped bacterium, designated strain tf-22t, was isolated from an intertidal sediment in korea. this organism grew optimally at 30-37 degrees c and in the presence of 2-5% (w/v) nacl. it did not grow without nacl or in the presence of more than 14% (w/v) nacl. strain tf-22t was characterized chemotaxonomically as having ubiquinone-8 as the predominant respiratory lipoquinone and c(16 : 0), c(16 : 1) omega7c and/or iso-c(15 : 0) 2-oh and c(18 : 1) om ... | 2004 | 15280291 |
| genetic analysis of housekeeping genes reveals a deep-sea ecotype of alteromonas macleodii in the mediterranean sea. | the genetic diversity of 19 strains belonging to alteromonas macleodii isolated from different geographic areas (pacific and indian ocean, and different parts of the mediterranean sea) and at different depths (from the surface down to 3500 m) has been studied. fragments of the 16s rrna gene, the internal transcribed spacer (its) between 16s and 23s rdna genes, the gyrb and the rpob genes, have been sequenced for each strain. amplified fragment length polymorphisms were used to characterize simil ... | 2005 | 15819847 |
| alteromonas addita sp. nov. | on the basis of phenotypic, genotypic characteristics and analysis of 16s rrna gene sequences, a novel species belonging to the genus alteromonas is described. a non-pigmented, motile, gram-negative bacterium designated r10sw13(t) was isolated from sea water samples collected in chazhma bay (sea of japan, pacific ocean). the novel organism mainly grew between 4 degrees c and 37 degrees c, was neutrophilic and slightly halophilic, tolerating up to 10 % nacl. strain r10sw13(t) was haemolytic and w ... | 2005 | 15879234 |
| [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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| [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 |
| 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 |
| 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 |
| 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 |
| [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 |
| intra- and intergenomic variation of ribosomal rna operons in concurrent alteromonas macleodii strains. | biodiversity estimates based on ribosomal operon sequence diversity rely on the premise that a sequence is characteristic of a single specific taxon or operational taxonomic unit (otu). here, we have studied the sequence diversity of 14 ribosomal rna operons (rrn) contained in the genomes of two isolates (five operons in each genome) and four metagenomic fosmids, all from the same seawater sample. complete sequencing of the isolate genomes and the fosmids establish that they represent strains of ... | 2012 | 23269455 |
| polyclonality of concurrent natural populations of alteromonas macleodii. | we have analyzed a natural population of the marine bacterium, alteromonas macleodii, from a single sample of seawater to evaluate the genomic diversity present. we performed full genome sequencing of four isolates and 161 metagenomic fosmid clones, all of which were assigned to a. macleodii by sequence similarity. out of the four strain genomes, a. macleodii deep ecotype (altde1) represented a different genome, whereas altde2 and altde3 were identical to the previously described altde. although ... | 2012 | 23212172 |
| genomes of surface isolates of alteromonas macleodii: the life of a widespread marine opportunistic copiotroph. | alteromonas macleodii is a marine gammaproteobacterium with widespread distribution in temperate or tropical waters. we describe three genomes of isolates from surface waters around europe (atlantic, mediterranean and black sea) and compare them with a previously described deep mediterranean isolate (altde) that belongs to a widely divergent clade. the surface isolates are quite similar, the most divergent being the black sea (bs11) isolate. the genomes contain several genomic islands with diffe ... | 2012 | 23019517 |
| genomes of alteromonas australica, a world apart. | alteromonas is a genus of marine bacteria that is very easy to isolate and grow in the laboratory. there are genomes available of the species alteromonas macleodii from different locations around the world and an alteromonas sp. isolated from a sediment in korea. we have analyzed the genomes of two strains classified by 16s rrna (>99% similarity) as the recently described species alteromonas australica, and isolated from opposite ends of the world; a. australica de170 was isolated in the south a ... | 2014 | 24942065 |
| deep sequencing approach for investigating infectious agents causing fever. | acute undifferentiated fever (auf) poses a diagnostic challenge due to the variety of possible aetiologies. while the majority of aufs resolve spontaneously, some cases become prolonged and cause significant morbidity and mortality, necessitating improved diagnostic methods. this study evaluated the utility of deep sequencing in fever investigation. dna and rna were isolated from plasma/sera of auf cases being investigated at cairns hospital in northern australia, including eight control samples ... | 2016 | 27180244 |
| comparative genomics reveals adaptation by alteromonas sp. sn2 to marine tidal-flat conditions: cold tolerance and aromatic hydrocarbon metabolism. | alteromonas species are globally distributed copiotrophic bacteria in marine habitats. among these, sea-tidal flats are distinctive: undergoing seasonal temperature and oxygen-tension changes, plus periodic exposure to petroleum hydrocarbons. strain sn2 of the genus alteromonas was isolated from hydrocarbon-contaminated sea-tidal flat sediment and has been shown to metabolize aromatic hydrocarbons there. strain sn2's genomic features were analyzed bioinformatically and compared to those of alter ... | 2012 | 22563400 |
| a hybrid nrps-pks gene cluster related to the bleomycin family of antitumor antibiotics in alteromonas macleodii strains. | although numerous marine bacteria are known to produce antibiotics via hybrid nrps-pks gene clusters, none have been previously described in an alteromonas species. in this study, we describe in detail a novel hybrid nrps-pks cluster identified in the plasmid of the alteromonasmacleodii strain altde1 and analyze its relatedness to other similar gene clusters in a sequence-based characterization. this is a mobile cluster, flanked by transposase-like genes, that has even been found inserted into t ... | 2013 | 24069455 |
| alteromonas naphthalenivorans sp. nov., a polycyclic aromatic hydrocarbon-degrading bacterium isolated from tidal-flat sediment. | a gram-staining-negative and halotolerant bacterium, designated sn2t, capable of biodegrading polycyclic aromatic hydrocarbons, was isolated from a tidal flat contaminated with crude oil in korea. cells were strictly aerobic, catalase- and oxidase-positive, motile rods, with a single polar flagellum. growth was observed at 4-37 °c (optimum, 25-30 °c) at ph 6.0-9.0 (optimum, ph 7.0-7.5) and in the presence of 0.5-9.0% (w/v) nacl (optimum, 2.0%). only ubiquinone 8 was detected as the isoprenoid qu ... | 2015 | 26956597 |
| draft genome sequences of four alteromonas macleodii strains isolated from copper coupons and grown long-term at elevated copper levels. | alteromonas macleodii is a marine bacterium involved in the early stages of biofouling on ship hulls treated with copper as an antifouling agent. we report here the draft genome sequences of an a. macleodii strain isolated from copper coupons and three laboratory mutants grown long-term at elevated copper levels. | 2016 | 27881542 |
| a symbiotic bacterium differentially influences arsenate absorption and transformation in dunaliella salina under different phosphate regimes. | in this study, we investigated the effects of a symbiotic bacterium and phosphate (po4(3-)) nutrition on the toxicity and metabolism of arsenate (as(v)) in dunaliella salina. the bacterium was identified as alteromonas macleodii based on analysis of its 16s rrna gene sequence. when no as(v) was added, a. macleodii significantly enhanced the growth of d. salina, irrespective of po4(3-) nutrition levels, but this effect was reversed after as(v)+po4(3-) treatment (1.12mgl(-1)) for 3 days. arsenic ( ... | 2016 | 27450336 |
| genetic manipulation of competition for nitrate between heterotrophic bacteria and diatoms. | diatoms are a dominant group of eukaryotic phytoplankton that contribute substantially to global primary production and the cycling of important elements such as carbon and nitrogen. heterotrophic bacteria, including members of the gammaproteobacteria, are commonly associated with diatom populations and may rely on them for organic carbon while potentially competing with them for other essential nutrients. considering that bacterioplankton drive oceanic release of co 2 (i.e., bacterial respirati ... | 2016 | 27375600 |
| torn apart and reunited: impact of a heterotroph on the transcriptome of prochlorococcus. | microbial interactions, whether direct or indirect, profoundly affect the physiology of individual cells and ultimately have the potential to shape the biogeochemistry of the earth. for example, the growth of prochlorococcus, the numerically dominant cyanobacterium in the oceans, can be improved by the activity of co-occurring heterotrophs. this effect has been largely attributed to the role of heterotrophs in detoxifying reactive oxygen species that prochlorococcus, which lacks catalase, cannot ... | 2016 | 27258949 |
| transcriptional response of prochlorococcus to co-culture with a marine alteromonas: differences between strains and the involvement of putative infochemicals. | interactions between marine microorganisms may determine the dynamics of microbial communities. here, we show that two strains of the globally abundant marine cyanobacterium prochlorococcus, med4 and mit9313, which belong to two different ecotypes, differ markedly in their response to co-culture with a marine heterotrophic bacterium, alteromonas macleodii strain hot1a3. hot1a3 enhanced the growth of mit9313 at low cell densities, yet inhibited it at a higher concentration, whereas it had no effe ... | 2016 | 27128996 |
| response of bacterial communities from california coastal waters to alginate particles and an alginolytic alteromonas macleodii strain. | alginate is a major cell wall polysaccharide from marine macroalgae and nutrient source for heterotrophic bacteria. alginate can form gel particles in contact with divalent cations as found in seawater. here, we tested the hypothesis that alginate gel particles serve as carbon source and microhabitat for marine bacteria by adding sterile alginate particles to microcosms with seawater from coastal california, a habitat rich in alginate-containing macroalgae. alginate particles were rapidly coloni ... | 2016 | 27059936 |
| why close a bacterial genome? the plasmid of alteromonas macleodii hot1a3 is a vector for inter-specific transfer of a flexible genomic island. | genome sequencing is rapidly becoming a staple technique in environmental and clinical microbiology, yet computational challenges still remain, leading to many draft genomes which are typically fragmented into many contigs. we sequenced and completely assembled the genome of a marine heterotrophic bacterium, alteromonas macleodii hot1a3, and compared its full genome to several draft genomes obtained using different reference-based and de novo methods. in general, the de novo assemblies clearly o ... | 2016 | 27014193 |
| nutritional stress effects under different nitrogen sources on the genes in microalga isochrysis zhangjiangensis and the assistance of alteromonas macleodii in releasing the stress of amino acid deficiency. | the expressions of nine nitrogen assimilation-associated genes, nrt2, nar1, nia2, nir, gln2, glsf, gsn1, gdh, and aat2, in the microalga isochrysis zhangjiangensis were investigated to unveil the effects of limitations of various nitrogen sources (nano3 , nh4 cl, nano2 , and an amino acid mixture) on the microalgae. the results demonstrated that the nrt2, nar1, gln2, gsn1, and aat2 genes were highly expressed in lipid-rich microalgae under inorganic nitrogen-deficient conditions and they decreas ... | 2015 | 26986885 |
| [fatty acid composition alteromonas-like bacteria isolated from the black sea water]. | alteromonas macleodii strains isolated from the black sea water were similar in their fatty acids composition with the type strain of this species. analysis of lipid composition of 10 a. macleodii strains isolated from the deep and surface water layers in different world ocean regions including the black sea water has shown that the deep and surface isolates of this species formed two groups different in their fatty acids profiles. the black sea isolates of pseudoalteromonas haloplanktis, p. cit ... | 2015 | 26638484 |
| draft genome sequence of alteromonas macleodii strain mit1002, isolated from an enrichment culture of the marine cyanobacterium prochlorococcus. | alteromonas spp. are heterotrophic gammaproteobacteria commonly found in marine environments. we present here the draft genome sequence of alteromonas macleodii mit1002, which was isolated from an enrichment culture of the marine cyanobacterium prochlorococcus natl2a. this genome contains a mixture of features previously seen only within either the "surface" or "deep" alteromonas ecotype. | 2015 | 26316635 |
| different utilization of alginate and other algal polysaccharides by marine alteromonas macleodii ecotypes. | the marine bacterium alteromonas macleodii is a copiotrophic r-strategist, but little is known about its potential to degrade polysaccharides. here, we studied the degradation of alginate and other algal polysaccharides by a. macleodii strain 83-1 in comparison to other a. macleodii strains. cell densities of strain 83-1 with alginate as sole carbon source were comparable to those with glucose, but the exponential phase was delayed. the genome of 83-1 was found to harbour an alginolytic system c ... | 2015 | 25847866 |
| heterotrophic bicarbonate assimilation is the main process of de novo organic carbon synthesis in hadal zone of the hellenic trench, the deepest part of mediterranean sea. | ammonium-oxidizing chemoautotrophic members of thaumarchaea are proposed to be the key players in the assimilation of bicarbonate in the dark (abd). however, this process may also involve heterotrophic metabolic pathways, such as fixation of carbon dioxide (co2) via various anaplerotic reactions. we collected samples from the depth of 4900 m at the matapan-vavilov deep (mvd) station (hellenic trench, eastern mediterranean) and used the multiphasic approach to study the abd mediators in this deep ... | 2014 | 25756124 |
| alteromonas gracilis sp. nov., a marine polysaccharide-producing bacterium. | a novel exopolysaccharide-producing bacterium, designated strain 9a2(t), was isolated from pacific ocean sediment. the strain was gram-stain-negative, motile, strictly aerobic, oxidase- and catalase-positive, and required nacl for growth. its major isoprenoid quinone was ubiquinone-8 (q-8), and its cellular fatty acid profile consisted mainly of c16 : 1ω7c, c18 : 1ω9c and c16 : 0. the dna g+c content was 46.6 mol%. 16s rrna gene sequence analysis suggested that strain 9a2(t) is a member of the g ... | 2015 | 25701844 |
| designed surface residue substitutions in [nife] hydrogenase that improve electron transfer characteristics. | photobiological hydrogen production is an attractive, carbon-neutral means to convert solar energy to hydrogen. we build on previous research improving the alteromonas macleodii "deep ecotype" [nife] hydrogenase, and report progress towards creating an artificial electron transfer pathway to supply the hydrogenase with electrons necessary for hydrogen production. ferredoxin is the first soluble electron transfer mediator to receive high-energy electrons from photosystem i, and bears an electron ... | 2015 | 25603181 |
| a hypothetical protein of alteromonas macleodii altde1 (amad1_06475) predicted to be a cold-shock protein with rna chaperone activity. | alteromonas macleodii altde1 is a deep sea protobacteria that is distinct from the surface isolates of the same species. this study was designed to elucidate the biological function of amad1_06475, a hypothetical protein of a. macleodii altde1. the 70 residues protein sequence showed considerable homology with cold-shock proteins (csps) and rna chaperones from different organisms. multiple sequence alignment further supported the presence of conserved csp domain on the protein sequence. the thre ... | 2014 | 25574135 |
| modeling three-dimensional structure of two closely related ni-fe hydrogenases. | the results of homology modeling of hydsl, a nife-hydrogenase from purple sulfur bacterium thiocapsa roseopersicina bbs, and deep-water bacterium alteromonas macleodii deep ecotype are presented in this work. it is shown that the models have larger confidence level than earlier published ones; full-size models of these enzymes are presented for the first time. the c-end fragment of small subunit of t. roseopersicina hydrogenase is shown to have random orientation in relation to the main protein ... | 2015 | 25572109 |
| rna sequencing provides evidence for functional variability between naturally co-existing alteromonas macleodii lineages. | alteromonas macleodii is a ubiquitous gammaproteobacterium shown to play a biogeochemical role in marine environments. two a. macleodii strains (altde and altde1) isolated from the same sample (i.e., the same place at the same time) show considerable genomic differences. in this study, we investigate the transcriptional response of these two strains to varying growth conditions in order to investigate differences in their ability to adapt to varying environmental parameters. | 2014 | 25344729 |
| ecophysiological diversity of a novel member of the genus alteromonas, and description of alteromonas mediterranea sp. nov. | nine non-pigmented, motile, gram-negative bacteria originally designated as alteromonas macleodii deep-sea ecotypes, were isolated from seawater samples collected from four separate locations; two deep-sea sites in the mediterranean sea and surface water of the aegean sea and english channel. the six strains studied in vitro were found to tolerate up to 20 % nacl. the dna-dna relatedness between the deep-sea ecotype strains was found to be between 75 and 89 %, whilst relatedness with the validly ... | 2015 | 25326795 |
| exopolysaccharide biosynthesis and biodegradation by a marine hydrothermal alteromonas sp. strain. | alteromonas macleodii subsp. fijiensis biovar deepsane is a deep-sea ecotype exopolysaccharide-producing bacteria isolated from the polychaete annelid alvinella pompejana. the high molecular weight biopolymer hyd657 produced by this strain, is the first marine exopolysaccharide (eps) to be commercialized for cosmetic use. depolymerization methods are necessary to elucidate the complete structure of this eps and to generate potentially bioactive oligosaccharides. enzymatic methods are useful for ... | 2015 | 25319363 |
| a broad survey reveals substitution tolerance of residues ligating fes clusters in [nife] hydrogenase. | in order to understand the effects of fes cluster attachment in [nife] hydrogenase, we undertook a study to substitute all 12 amino acid positions normally ligating the three fes clusters in the hydrogenase small subunit. using the hydrogenase from alteromonas macleodii "deep ecotype" as a model, we substituted one of four amino acids (asp, his, asn, gln) at each of the 12 ligating positions because these amino acids are alternative coordinating residues in otherwise conserved-cysteine positions ... | 2014 | 24934472 |
| extracellular polysaccharide production by a novel osmotolerant marine strain of alteromonas macleodii and its application towards biomineralization of silver. | the present study demonstrates exopolysaccharide production by an osmotolerant marine isolate and also describes further application of the purified polysaccharide for production of colloidal suspension of silver nanoparticles with narrow size distribution. phylogenetic analysis based on 16s r rna gene sequencing revealed close affinity of the isolate to alteromonas macleodii. unlike earlier reports, where glucose was used as the carbon source, lactose was found to be the most suitable substrate ... | 2014 | 24932690 |
| effects of d-amino acids on the eps production and cell aggregation of alteromonas macleodii strain jl2069. | exopolysaccharide (eps) is produced by many marine bacteria and is important for cell aggregation in the ocean. d-amino acids are important components in bacteria and are recently recognized as signal molecules for regulation of bacterial growth. in this study, the effects of d-amino acids on eps production, cell aggregation, and metabolic activity were investigated using an eps-producing bacterium alteromonas macleodii strain jl2069. eps produced by jl2069 was inhibited by 1 mm of d-ala and d-s ... | 2014 | 24526245 |
| gene cloning and characterization of an α-amylase from alteromonas macleodii b7 for enteromorpha polysaccharide degradation. | enteromorpha polysaccharides (ep) extracted from green algae have displayed a wide variety of biological activities. however, their high molecular weight leads to a high viscosity and low solubility, and therefore, greatly restrains their application. to solve this problem, bacteria from the surface of enteromorpha were screened, and an alteromonas macleodii strain b7 was found to be able to decrease the molecular weight of ep in culture media. proteins harvested from the supernatant of the a. m ... | 2014 | 24262656 |
| novel group of podovirus infecting the marine bacterium alteromonas macleodii. | four novel, closely related podoviruses, which displayed lytic activity against the gamma-proteobacterium alteromonas macleodii, have been isolated and sequenced. alterophages altad45-p1 to p4 were obtained from water recovered near a fish farm in the mediterranean sea. their morphology indicates that they belong to the podoviridae. their linear and dsdna genomes are 100-104 kb in size, remarkably larger than any other described podovirus. the four altad45-phages share 99% nucleotide sequence id ... | 2013 | 24228219 |
| dual organism design cycle reveals small subunit substitutions that improve [nife] hydrogenase hydrogen evolution. | photosynthetic microorganisms that directly channel solar energy to the production of molecular hydrogen are a potential future biofuel system. building such a system requires installation of a hydrogenase in the photosynthetic organism that is both tolerant to oxygen and capable of hydrogen production. toward this end, we have identified the [nife] hydrogenase from the marine bacterium alteromonas macleodii "deep ecotype" that is able to be heterologously expressed in cyanobacteria and has tole ... | 2013 | 23819621 |
| genomic diversity of "deep ecotype" alteromonas macleodii isolates: evidence for pan-mediterranean clonal frames. | we have compared genomes of alteromonas macleodii "deep ecotype" isolates from two deep mediterranean sites and two surface samples from the aegean and the english channel. a total of nine different genomes were analyzed. they belong to five clonal frames (cfs) that differ among them by approximately 30,000 single-nucleotide polymorphisms (snps) over their core genomes. two of the cfs contain three strains each with nearly identical genomes (~100 snps over the core genome). one of the cfs had re ... | 2013 | 23729633 |
| community transcriptomic assembly reveals microbes that contribute to deep-sea carbon and nitrogen cycling. | the deep ocean is an important component of global biogeochemical cycles because it contains one of the largest pools of reactive carbon and nitrogen on earth. however, the microbial communities that drive deep-sea geochemistry are vastly unexplored. metatranscriptomics offers new windows into these communities, but it has been hampered by reliance on genome databases for interpretation. we reconstructed the transcriptomes of microbial populations from guaymas basin, in the deep gulf of californ ... | 2013 | 23702516 |
| organophosphorus acid anhydrolase from alteromonas macleodii: structural study and functional relationship to prolidases. | the bacterial enzyme organophosphorus acid anhydrolase (opaa) is able to catalyze the hydrolysis of both proline dipeptides (xaa-pro) and several types of organophosphate (op) compounds. the full three-dimensional structure of the manganese-dependent opaa enzyme is presented for the first time. this enzyme, which was originally isolated from the marine bacterium alteromonas macleodii, was prepared recombinantly in escherichia coli. the crystal structure was determined at 1.8 å resolution in spac ... | 2013 | 23545636 |
| bioconversion of piceid to piceid glucoside using amylosucrase from alteromonas macleodii deep ecotype. | resveratrol, or its glycoside form piceid, is a dietary antioxidant polyphenolic compound, found in grapes and red wine that has been shown to have protective effects against cardiovascular disease. however, very low water solubility of the compound may limit its application in the food and pharmaceutical industries. the amylosucrase (amas) of alteromonas macleodii deep ecotype was expressed in escherichia coli and showed high glycosyltransferase activity to produce the glucosyl piceid when pice ... | 2012 | 23221533 |
| complete genome sequence of the copiotrophic marine bacterium alteromonas macleodii strain atcc 27126t. | the genome of alteromonas macleodii strain atcc 27126(t) has been resequenced and closed into a single contig. we describe here the genome of this important and globally distributed marine bacterium. | 2012 | 23209244 |
| structural data on a bacterial exopolysaccharide produced by a deep-sea alteromonas macleodii strain. | some marine bacteria collected around deep-sea hydrothermal vents are able to produce, in laboratory conditions, complex and innovative exopolysaccharides. in a previous study, the mesophilic strain alteromonas macleodii subsp. fijiensis biovar deepsane was collected on the east pacific rise at 2600 m depth. it was isolated from a polychaete annelid alvinella pompejana and is able to synthesise and excrete the exopolysaccharide deepsane. biological activities have been screened and some protecti ... | 2012 | 24751009 |
| peculiarities of alteromonas macleodii strains reflects their deep/surface habitation rather than geographical distribution. | the phenotypic, chemotaxonomic and genetic peculiarities of 5 deep strains of alteromonas macleodii (isolated from adriatic and ionian sea water from a depth of 1,000-3,500 m) and 5 strains of the same species isolated from the surface layer of aegean, andaman, black sea and atlantic ocean water near the british shore have been studied. electron microscopy has shown that the deep strains' cells were, on average, two times longer (2.1±0.2×0.7±0.1 µm) than the surface strains' (1.1±0.1×0.6±0.1 µm) ... | 2012 | 22688244 |