- Volume 53, Issue 2, 2003
Volume 53, Issue 2, 2003
- Validation List No. 90
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Validation of publication of new names and new combinations previously effectively published outside the IJSEM
The purpose of this announcement is to effect the valid publication of the following new names and new combinations under the procedure described previously [Int J Syst Bacteriol 27(3), iv (1977)]. Authors and other individuals wishing to have new names and/or combinations included in future lists should send two copies of the pertinent reprint or photocopies thereof to the IJSEM Editorial Office for confirmation that all of the other requirements for valid publication have been met. It should be noted that the date of valid publication of these new names and combinations is the date of publication of this list, not the date of the original publication of the names and combinations. The authors of the new names and combinations are as given below, and these authors' names will be included in the author index of the present issue and in the volume author index. Inclusion of a name on these lists validates the name and thereby makes it available in bacteriological nomenclature. The inclusion of a name on this list is not to be construed as taxonomic acceptance of the taxon to which the name is applied. Indeed, some of these names may, in time, be shown to be synonyms, or the organisms may be transferred to another genus, thus necessitating the creation of a new combination.
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- Notification List
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Notification that new names and new combinations have appeared in volume 52, part 6, of the IJSEM
This listing of names published in a previous issue of the IJSEM is provided as a service to bacteriology to assist in the recognition of new names and new combinations. This procedure was proposed by the Judicial Commission [Minute II(ii), Int J Syst Bacteriol 41 (1991), p. 185]. The names given herein have priority according to the page number of the IJSEM on which they were proposed.
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- New Taxa
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- Other Bacteria
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Flavobacterium limicola sp. nov., a psychrophilic, organic-polymer-degrading bacterium isolated from freshwater sediments
Three novel strains of cold-adapted bacteria, ST-82T, ST-10 and ST-92, were isolated from freshwater sediments. These three isolates were very similar to each other in phenotypic and chemotaxonomic traits, as well as in 16S rDNA sequence. The strains were Gram-negative, elongated filament-like rods that formed bright yellow colonies. They showed neither flexirubin pigments nor gliding motility. The strains were able to hydrolyse casein, gelatin, starch, agar, aesculin, urea, uric acid and tyrosine. They also lysed cells of Escherichia coli and Pseudomonas putida. The temperature range for growth was 0–25 °C, with optimum growth occurring at 15–20 °C. For all isolates, protease secretion increased as temperature decreased. Sodium chloride inhibited their growth, although the strains tolerated up to 1·5 % (w/v) NaCl. Menaquinone-6 was the major respiratory quinone. The major cellular fatty acids were C15 : 0, iso-C15 : 0, anteiso-C15 : 0, C15 : 1, iso-C15 : 1, C16 : 1 ω7cis, iso-C16 : 1, iso-C17 : 1, iso-C15 : 0 3-OH and iso-C16 : 0 3-OH. The DNA G+C content was 34·0–34·8 mol%. Phylogenetic analysis based on 16S rDNA sequences suggested that the strains belonged to the genus Flavobacterium and were closely related to Flavobacterium xanthum and Flavobacterium frigidarium, with sequence similarities of 96·9 and 96·3 %, respectively. In physiological and biochemical analyses, the isolates were differentiated from all known members of the genus Flavobacterium. The name Flavobacterium limicola is proposed for these novel strains, and the type strain is ST-82T (=JCM 11473T =DSM 15094T).
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- Proteobacteria
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Elevation of three subspecies of Pectobacterium carotovorum to species level: Pectobacterium atrosepticum sp. nov., Pectobacterium betavasculorum sp. nov. and Pectobacterium wasabiae sp. nov.
More LessA collection of 42 strains belonging to the five subspecies of Pectobacterium carotovorum (subspecies atrosepticum, betavasculorum, carotovorum, odoriferum and wasabiae) and 11 reference and type strains of biovars of Pectobacterium chrysanthemi, Pectobacterium cacticidum and Brenneria paradisiaca were studied by DNA–DNA hybridization, numerical taxonomy of 120 phenotypic characteristics, serology and new phylogenetic analysis of previously reported sequences from a database of aligned 16S rDNA sequences. The P. carotovorum subspecies formed a clade according to neighbour-joining methods, but they formed two paraphyletic clusters according to maximum-likelihood and maximum-parsimony. However, phylogenetic analysis of 16S rDNA sequences alone is not sufficient to justify generic differentiation and therefore, it is proposed to retain the P. carotovorum subspecies in the genus Pectobacterium. The strains of P. carotovorum were distributed in four genomospecies: genomospecies 1, harbouring all strains of subsp. atrosepticum, genomospecies 2, including the strains of subsp. betavasculorum isolated from sugar beet, sunflower, potato, hyacinth and artichoke, genomospecies 3, clustering all strains of subsp. wasabiae isolated from wasabi in Japan, and genomospecies 4, gathering together strains of subsp. carotovorum and strains of subsp. odoriferum. Four strains of P. carotovorum subsp. carotovorum remained unclustered. Biochemical criteria, deduced from a numerical taxonomy study of phenotypic characteristics and serological reactions, allowed discrimination of strains belonging to the four genomospecies. Thus, it is proposed that three genomospecies be elevated to species level as Pectobacterium atrosepticum sp. nov. (type strain CFBP 1526T=LMG 2386T =NCPPB 549T =ICMP 1526T), Pectobacterium betavasculorum sp. nov. (type strain CFBP 2122T=LMG 2464T =NCPPB 2795T =ICMP 4226T) and Pectobacterium wasabiae sp. nov. (type strain CFBP 3304T=LMG 8404T =NCPPB 3701T =ICMP 9121T). Only two subspecies are maintained within P. carotovorum, subsp. carotovorum (type strain CFBP 2046T=LMG 2404T =NCPPB 312T =ICMP 5702T) and subsp. odoriferum (type strain CFBP 1878T=LMG 5863T =NCPPB 3839T =ICMP 11553T), for which discriminating tests are available.
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Reclassification of ‘Pseudomonas fluorescens subsp. cellulosa’ NCIMB 10462 (Ueda et al. 1952) as Cellvibrio japonicus sp. nov. and revival of Cellvibrio vulgaris sp. nov., nom. rev. and Cellvibrio fulvus sp. nov., nom. rev.
More Less‘Pseudomonas fluorescens subsp. cellulosa’ NCIMB 10462 has been demonstrated by a polyphasic taxonomic approach to be a member of the genus Cellvibrio. 16S rDNA sequence analysis suggests that this is the only genus that could accept this specimen. The sequence is 95·5 % similar to that of Cellvibrio mixtus subsp. mixtus ACM 2601T (the type strain of the type species of the genus), which is its closest relation. The genomic DNA G+C content was determined to be 53·3 mol%, which is similar to the values obtained for the validly described Cellvibrio species. DNA–DNA hybridization experiments have shown that strain NCIMB 10462T (=NCDO 2697T) represents a novel species; therefore, it is proposed that it be designated as the type strain of the novel species Cellvibrio japonicus sp. nov. This study also used 16S rDNA analysis, DNA–DNA hybridization experiments and phenotypic testing to revive the species Cellvibrio vulgaris sp. nov., nom. rev. and Cellvibrio fulvus sp. nov., nom. rev. C. vulgaris NCIMB 8633T (=LMG 2848T) and C. fulvus NCIMB 8634T (=LMG 2847T) are the proposed type strains.
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Microvirga subterranea gen. nov., sp. nov., a moderate thermophile from a deep subsurface Australian thermal aquifer
More LessA strictly aerobic bacterium, strain FaiI4T, was isolated from free-flowing geothermal waters of a bore (bore register no. 3768) tapping the Great Artesian Basin of Australia. The non-sporulating, Gram-negative cells of strain FaiI4T produced light-pink colonies, were rod-shaped (1×1·5–4 µm) and were motile by a single polar flagellum. Strain FaiI4T grew optimally at 41 °C at a pH of 7·0 and had an absolute requirement for yeast extract. The strain grew on casein hydrolysate, tryptone, gelatin, xylose and acetate in a medium supplemented with 0·06 or 0·006 % yeast extract. Weak acid production was detected from glucose and arabinose. Catalase was produced. Nitrite was produced from nitrate. Strain FaiI4T was sensitive to antibiotics that inhibit growth of bacteria. The G+C content was 63·5±0·5 mol%. Strain FaiI4T was a member of the class ‘Alphaproteobacteria’, phylum Proteobacteria, placed almost equidistantly between Methylobacterium species, Chelatococcus asaccharovorans and Bosea thiooxidans (similarity value of 93 %) as its nearest phylogenetic relatives. Phylogenetic and phenotypic evidence suggest that strain FaiI4T (=ATCC BAA-295T =DSM 14364T) should be placed as the type strain of a species in a newly created genus, for which the name Microvirga subterranea gen. nov., sp. nov. is proposed.
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Idiomarina baltica sp. nov., a marine bacterium with a high optimum growth temperature isolated from surface water of the central Baltic Sea
More LessTwo bacterial strains isolated from the Baltic Sea, OS145T and OS146, were characterized on the basis of their physiological and biochemical features, their fatty acid profiles and their phylogenetic position based on 16S rDNA sequence analyses. The strains were isolated from the upper oxic water column of the central Baltic Sea. Phylogenetic analyses of the 16S rDNA gene sequences revealed a clear affiliation of the novel strains with members of the genus Idiomarina, of the Gammaproteobacteria. Closest sequence similarity was seen with Idiomarina abyssalis and Idiomarina zobellii (95–96 %). The mean G+C content of the DNA of strains OS145T and OS146 was 49·7 mol%. Both strains were non-pigmented, Gram-negative, polarly flagellated organisms that were strictly aerobic. Growth of the strains was observed at salinities ranging from 0·8 to 10 % NaCl. Temperature range for growth was rather broad and high for marine bacteria: both strains grew between 8 and 46 °C, showed good growth between 20 and 44 °C, and had an optimum between 30 and 40 °C. The fatty acids of the two strains were dominated by iso-branched fatty acids (54–80 %), with a high abundance of C15 : 0 iso (36 %), C16 : 1 ω7c , C17 : 0 iso and C17 : 1 iso ω9c . Growth temperature (8–40 °C) influenced the fatty acid composition of the strains in a way that the content of iso-branching fatty acids increased with increasing temperatures, while the mono-unsaturated fatty acids increased with decreasing temperatures. Salinity (1·7–10 % NaCl) had only a minor effect on the fatty acid composition. According to their morphology, physiology, fatty acid composition and 16S rDNA sequences, strains OS145T and OS146 fitted well into the genus Idiomarina, but could be easily distinguished from the recognized species of the genus. Because of their unique nature, it is proposed that the strains isolated from the Baltic Sea represent a novel species, for which the name Idiomarina baltica (type strain OS145T=DSM 15154T =LMG 21691T) is proposed.
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Psychrobacter pulmonis sp. nov., isolated from the lungs of lambs
Unusual Gram-negative, catalase- and oxidase-positive, coccus-shaped bacteria isolated from the lungs of two lambs were characterized by phenotypic and molecular-genetic methods. Comparative 16S rRNA gene sequencing studies demonstrated that the unknown isolates were genealogically highly related to each other (99·8 % sequence similarity) and represent a novel subline within the genus Psychrobacter. The unknown bacterium was phylogenetically closely related to, but distinct from, Psychrobacter phenylpyruvicus, Psychrobacter immobilis, Psychrobacter glacincola and Psychrobacter urativorans. The novel Psychrobacter isolates were readily distinguished from all other Psychrobacter species and other Gram-negative, oxidase-positive bacteria usually responsible for lung infections in sheep by physiological and biochemical tests. Based on molecular-genetic and phenotypic evidence, it is proposed that the unknown Psychrobacter isolates from lambs be classified as Psychrobacter pulmonis sp. nov. The type strain is strain S-606T (=CECT 5989T =CCUG 46240T).
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Paracoccus seriniphilus sp. nov., an l-serine-dehydratase-producing coccus isolated from the marine bryozoan Bugula plumosa
A novel marine Gram-negative, non-motile, non-spore-forming, aerobic bacterium, associated with the bryozoan Bugula plumosa, was isolated in a screening programme for strains containing enzymes able to convert the amino acid l-serine. Strain MBT-A4T produced l-serine dehydratase and was able to grow on l-serine as the sole carbon and nitrogen source. The nearest phylogenetic neighbour was Paracoccus marcusii, as determined by 16S rDNA sequence analysis (97·6 % similarity). The DNA–DNA reassociation value obtained for Paracoccus marcusii DSM11574T and MBT-A4T was 32·6 %. The major ubiquinone was Q-10. Based on genotypic, chemotaxonomic and physiological characteristics, a new species of the genus Paracoccus is proposed, Paracoccus seriniphilus sp. nov., the type strain being strain MBT-A4T (=DSM 14827T =CIP 107400T).
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Psychrobacter jeotgali sp. nov., isolated from jeotgal, a traditional Korean fermented seafood
More LessTwo Gram-negative, non-motile, non-spore-forming and moderately halophilic cocci (strains YKJ-103T and YKJ-105) were isolated from the traditional Korean fermented seafood, jeotgal. The two strains grew optimally at 25–30 °C and grew at 4 and 36 °C, but not above 37 °C. They grew in the presence of 0–10 % (w/v) NaCl with an optimum of 2–3 % (w/v) NaCl. Strains YKJ-103T and YKJ-105 were chemotaxonomically characterized by having ubiquinone-8 (Q-8) as the predominant isoprenoid quinone and C18 : 1 ω9c as the major fatty acid. The polar lipid analysis indicated the presence of diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The DNA G+C contents of strains YKJ-103T and YKJ-105 were 44 and 43 mol%, respectively. Strains YKJ-103T and YKJ-105 showed no difference in their 16S rDNA sequences, and their mean level of DNA–DNA relatedness was 92·3 %. Phylogenetic analysis based on 16S rDNA sequences showed that the two strains form a distinct phylogenetic lineage within the cluster comprising Psychrobacter species. Strains YKJ-103T and YKJ-105 exhibited 16S rDNA similarities of 96·6 % with the type strain of Psychrobacter proteolyticus, the closest Psychrobacter species, and of 94·5–95·9 % with type strains of other Psychrobacter species. On the basis of phenotypic properties, phylogenetic and genomic data, strains YKJ-103T and YKJ-105 should be placed in the genus Psychrobacter as members of a new species, for which the name Psychrobacter jeotgali sp. nov. is proposed. The type strain of the new species is strain YKJ-103T (=KCCM 41559T =JCM 11463T).
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Taxonomic study of Cellvibrio strains and description of Cellvibrio ostraviensis sp. nov., Cellvibrio fibrivorans sp. nov. and Cellvibrio gandavensis sp. nov.
More LessThirty-one cellulolytic bacterial isolates from soils that were phenotypically very similar and phylogenetically highly related to Cellvibrio strains were further characterized using a polyphasic taxonomic approach. By using repetitive extragenic palindromic DNA-PCR fingerprinting, six different fingerprints could be recognized among the isolates. Representative strains and four reference strains of the genus Cellvibrio were used for DNA–DNA hybridization, which yielded eight DNA hybridization groups at a cut-off level of 70 % DNA binding. One group was formed by three isolates and Cellvibrio vulgaris LMG 2848T and a second group consisted of Cellvibrio mixtus strains ACM 2601T and ACM 2603. Two isolates and Cellvibrio fulvus LMG 2847T constituted single-member groups. For the remaining groups, three novel species are proposed: Cellvibrio fibrivorans sp. nov. (six strains, type strain LMG 18561T =ACM 5172T), Cellvibrio ostraviensis sp. nov. (eight strains, type strain LMG 19434T =ACM 5173T) and Cellvibrio gandavensis sp. nov. (12 strains, type strain LMG 18551T =ACM 5174T). The novel Cellvibrio species could be differentiated from each other and from C. mixtus, C. vulgaris and C. fulvus on the basis of phenotypic features, their fatty acid compositions and the G+C content of their DNA.
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Sphingopyxis chilensis sp. nov., a chlorophenol-degrading bacterium that accumulates polyhydroxyalkanoate, and transfer of Sphingomonas alaskensis to Sphingopyxis alaskensis comb. nov.
More LessThe taxonomic position of a chlorophenol-degrading bacterium, strain S37T, was investigated. The 16S rDNA sequence indicated that this strain belongs to the genus Sphingopyxis, exhibiting high sequence similarity to the 16S rDNA sequences of Sphingomonas alaskensis LMG 18877T (98·8 %), Sphingopyxis macrogoltabida LMG 17324T (98·2 %), Sphingopyxis terrae IFO 15098T (95 %) and Sphingomonas adhaesiva GIFU 11458T (92 %). These strains (except Sphingopyxis terrae IFO 15098T, which was not investigated) and the novel isolate accumulated polyhydroxyalkanoates consisting of 3-hydroxybutyric acid and 3-hydroxyvaleric acid from glucose as carbon source. The G+C content of the DNA of strain S37T was 65·5 mol%. The major cellular fatty acids of this strain were octadecenoic acid (18 : 1ω7c), heptadecenoic acid (17 : 1ω6c) and hexadecanoic acid (16 : 0). The results of DNA–DNA hybridization experiments and its physiological characteristics clearly distinguished the novel isolate from all known Sphingopyxis species and indicated that the strain represents a novel Sphingopyxis species. Therefore, the species Sphingopyxis chilensis sp. nov. is proposed, with strain S37T (=LMG 20986T =DSM 14889T) as the type strain. The transfer of Sphingomonas alaskensis to the genus Sphingopyxis as Sphingopyxis alaskensis comb. nov. is also proposed.
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Vibrio ruber sp. nov., a red, facultatively anaerobic, marine bacterium isolated from sea water
More LessA red, heterotrophic, marine bacterium, designated strain VR1T, was isolated from a sea-water sample collected in the shallow coastal region of Keelung, Taiwan. Cells of the novel strain were facultatively anaerobic, Gram-negative rods that were motile by means of a polar flagellum. The strain grew optimally at 25–30 °C and pH 6–7. Growth required the presence of NaCl, the optimal concentration being about 2 %. The red pigment produced by the cells was identified as prodigiosin. Strain VR1T grew anaerobically by fermenting glucose and other carbohydrates and producing acids and gases. The strain did not require either vitamins or other organic growth factors for growth. It contained 2-OH-16 : 0 and 3-OH-14 : 0 as the major cellular fatty acids. The DNA G+C content was 45·8 mol%. Phenotypic and chemotaxonomic characterization indicated that strain VR1T represents a novel species in the genus Vibrio. Strain VR1T is phenotypically similar to Vibrio gazogenes. However, the reduction of nitrate to nitrite, the ability to utilize d-arabinose, melibiose and l-glycine as sole carbon sources, the inability to utilize sorbitol as a sole carbon source, resistance to O/129 and susceptibility to erythromycin and novobiocin allow differentiation between V. gazogenes and strain VR1T. The name Vibrio ruber sp. nov. is proposed for the novel species, with strain VR1T (=CCRC 17186T =JCM 11486T) as the type strain.
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Shewanella marinintestina sp. nov., Shewanella schlegeliana sp. nov. and Shewanella sairae sp. nov., novel eicosapentaenoic-acid-producing marine bacteria isolated from sea-animal intestines
More LessThree novel Shewanella species are described on the basis of phenotypic, chemotaxonomic and phylogenetic studies. A total of six novel halophilic, aerobic organisms with the ability to produce eicosapentaenoic acid (EPA) were isolated from various sea animals in Japan. Cells of all six isolates were Gram-negative, rod-shaped and motile by means of polar flagella. They were able to produce large amounts of EPA (about 20 % of the total fatty acids) and had isoprenoid quinones Q-7 and Q-8 as major components. Analysis of the nearly complete 16S rRNA gene sequences of the novel isolates showed that they are very close phylogenetically (sequence similarity >99 %) and the closest species was Shewanella pealeana, with 97 % sequence similarity. However, analysis of gyrB sequences indicated that the novel isolates were divided into three groups at sufficient phylogenetic distance to indicate that they are different species (<90 % sequence similarity). DNA–DNA hybridization experiments supported this conclusion. The first group (three strains) had positive reactions for lipase, DNase, ONPG and trimethylamine oxide (TMAO) reduction and had G+C contents of 43 mol% (determined by HPLC). The second group (two strains) was positive for urease, DNase, ONPG and TMAO reduction but not lipase. Their G+C content was 45 mol%. The third group (one strain) was negative for ONPG, DNase and TMAO reduction and had a G+C content of 43 mol%. Strains of the second group, but not those of the first or third groups, grew at 32 °C. On the basis of the polyphasic taxonomic data, the novel strains isolated from intestines of sea animals are placed in three novel species of the genus Shewanella: Shewanella marinintestina sp. nov. (type strain: JCM 11558T=LMG 21403T), Shewanella schlegeliana sp. nov. (type strain: JCM 11561T=LMG 21406T) and Shewanella sairae sp. nov. (type strain: JCM 11563T=LMG 21408T).
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Psychromonas profunda sp. nov., a psychropiezophilic bacterium from deep Atlantic sediments
A psychropiezophilic bacterium, strain 2825T (=LMG 21260T =JCM 11437T), isolated from deep Atlantic sediments at a depth of 2770 m and a temperature of 2 °C, was found by polyphasic analysis to represent a novel species of the genus Psychromonas, Psychromonas profunda sp. nov. It is a strict psychrophile and a moderate piezophile, whose degree of piezophily is increased markedly when the temperature is raised to 10 °C. The piezophily of P. profunda is intermediate between that of the type species, Psychromonas antarctica, which is not piezophilic, and that of Psychromonas kaikoae, which is an obligate piezophile.
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Moritella profunda sp. nov. and Moritella abyssi sp. nov., two psychropiezophilic organisms isolated from deep Atlantic sediments
Strains 2674T (=LMG 21259T =JCM 11435T) and 2693T (=LMG 21258T =JCM 11436T) were isolated from Atlantic sediments at a temperature of 2 °C and a depth of 2815 m off the West African coast. Polyphasic evidence indicates that the two strains belong to the genus Moritella and represent distinct species, for which the names Moritella profunda sp. nov. (for strain 2674T) and Moritella abyssi sp. nov. (for strain 2693T) are proposed. The moderate piezophily of the two organisms is intermediate between that of the type species, Moritella marina, which is not piezophilic, and Moritella yayanosii, an obligate piezophile. Both are strict psychrophiles with slightly different cardinal temperatures: at 0·1 MPa, maximal growth rates are observed at 2 °C (M. profunda) and 4 °C (M. abyssi) with maximum temperatures of 12 °C (M. profunda) or 14 °C (M. abyssi). The optimal pressure is lower than that at the site of isolation, and raising the temperature to 10 °C makes the organisms more piezophilic.
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Psychromonas arctica sp. nov., a novel psychrotolerant, biofilm-forming bacterium isolated from Spitzbergen
More LessUsing starch as a carbon source at a cultivation temperature of 4 °C, a number of Gram-negative, aerobic strains was isolated from sea-ice and sea-water samples collected at Spitzbergen in the Arctic. Analysis of the genetic diversity of the novel isolates by random amplification of polymorphic DNA (RAPD) and ERIC fingerprinting revealed a homogenic group of biofilm-forming bacteria that contained small extrachromosomal elements. As a representative of the group, strain Pull 5.3T, isolated from a sea-water sample, was used for detailed characterization. The results of phylogenetic analysis indicated that the newly isolated strain is a member of the γ-subclass of the Proteobacteria and belongs to the genus Psychromonas. On the basis of DNA–DNA hybridization experiments, chemotaxonomic studies and phenotypic characterization, strain Pull 5.3T (=CECT 5674T =DSM 14288T) clearly represents a novel species, for which the name Psychromonas arctica sp. nov. is proposed.
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Pannonibacter phragmitetus gen. nov., sp. nov., a novel alkalitolerant bacterium isolated from decomposing reed rhizomes in a Hungarian soda lake
Three alkalitolerant bacterial strains were isolated from the surface of decomposing rhizomes of reed [Phragmites australis (Cav.) Trin. et Steudel] in Lake Fertő (Hungary). Cells of the novel isolates were Gram-negative, motile rods and formed star-shaped aggregates. They were facultatively anaerobic and chemo-organotrophic. Bacteriochlorophyll a was not synthesized under aerobic conditions. The strains were catalase and oxidase positive, produced acid from d-glucose under aerobic and anaerobic conditions and reduced nitrate to nitrogen. They tolerated pH values from 7·0 to 11·0 and grew in the absence of NaCl as well as in up to 5 % (w/v) NaCl. The G+C content of the DNA was 64·6 mol% and the major isoprenoid quinone was Q-10. The dominant cellular fatty acid was C18 : 1 ω7c. The cell membrane contained phosphatidyl glycerol, diphosphatidyl glycerol, phosphatidyl ethanolamine, phosphatidyl serine and one unknown phospholipid as polar lipids. Polyphasic taxonomic characterization revealed that strain C6/19T is most closely related to the Stappia–Roseibium cluster in the α-subclass of the Proteobacteria (showing 95·8–93·6 % 16S rDNA sequence similarity). According to the phylogenetic and phenotypic evidence presented, a new genus and species is proposed, Pannonibacter phragmitetus gen. nov., sp. nov. The type strain is C6/19T (=DSM 14782T=NCAIM B02025T).
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Marinobacter litoralis sp. nov., a moderately halophilic bacterium isolated from sea water from the East Sea in Korea
More LessA Gram-negative, motile, non-spore-forming and moderately halophilic rod-shaped strain, SW-45T, was isolated from sea water of the East Sea in Korea. The organism grew optimally at 30–37 °C and grew at 4 and 46 °C. It grew in the presence of 0·5–18 % (v/w) NaCl, with an optimum of 2–7 % NaCl. Strain SW-45T was chemotaxonomically characterized by having ubiquinone-9 (Q-9) as the major respiratory lipoquinone and C16 : 0, C18 : 1 ω9c and C16 : 1 ω9c as the predominant fatty acids. The DNA G+C content was found to be 55 mol%. Phylogenetic analysis based on 16S rDNA sequences showed that strain SW-45T forms a coherent cluster with the clade comprising the two Marinobacter species. 16S rDNA sequence similarities between strain SW-45T and the Marinobacter species was 94·9 % to Marinobacter hydrocarbonoclasticus DSM 8798T and 95·3 % to Marinobacter aquaeolei DSM 11845T. Levels of DNA–DNA relatedness between strain SW-45T and the type strains of M. hydrocarbonoclasticus and M. aquaeolei were respectively 4·3 and 5·5 %. On the basis of phenotypic properties, phylogeny and genomic data, strain SW-45T (=KCCM 41591T =JCM 11547T) should be placed in the genus Marinobacter as a member of a novel species, for which the name Marinobacter litoralis sp. nov. is proposed. As part of this study, the major respiratory lipoquinone of M. hydrocarbonoclasticus and M. aquaeolei was also found to be Q-9.
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Shewanella fidelis sp. nov., isolated from sediments and sea water
Two marine bacterial strains, KMM 3582T and KMM 3589, isolated respectively from sediments of the South China Sea and sea water of the Sea of Japan, have been characterized. Comparative 16S rDNA sequence-based phylogenetic analysis placed the two strains in a separate branch of the γ-Proteobacteria within the members of the genus Shewanella. KMM 3582T showed the highest similarity (97·1 and 97·4 %, respectively) to Shewanella pealeana and Shewanella gelidimarina. The G+C contents of the DNAs of the two strains studied were 45·0 mol%. The level of DNA–DNA relatedness between the two strains was 82 %, indicating that they represent a single genospecies. These organisms were slightly pinkish, Gram-negative, polarly flagellated, facultatively anaerobic, mesophilic (with temperature range from 4 to 30 °C), neutrophilic and haemolytic and were able to degrade alginate, gelatin and DNA. The novel organisms were susceptible to gentamicin, lincomycin, oleandomycin, streptomycin and polymyxin. The predominant fatty acids were characteristic for shewanellae: 13 : 0-i, 15 : 0-i, 16 : 0 and 16 : 1ω7. Eicosapentaenoic acid, 20 : 5ω3, was not detected. Phylogenetic evidence, together with phenotypic characteristics, showed that the two bacteria constitute a novel species of the genus Shewanella. The name Shewanella fidelis sp. nov. is proposed, with the type strain KMM 3582T (=LMG 20551T =ATCC BAA-318T).
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Pseudoalteromonas phenolica sp. nov., a novel marine bacterium that produces phenolic anti-methicillin-resistant Staphylococcus aureus substances
More LessFour strains of aerobic, Gram-negative rods, motile by means of a single polar flagellum, that produced phenolic anti-methicillin-resistant Staphylococcus aureus (MRSA) substances and brown-pigmented colonies, were isolated from sea water. The G+C content of the DNA ranged from 39·9 to 40·6 mol%. The isolates grew at 18–37 °C and pH 6·5–9·5 (optimal pH 7·5–9) and in medium containing 1–5 % (w/v) NaCl (optimal NaCl concentration 2–3·5 %). The isolates grew optimally in medium dissolved in 40–100 % artificial sea water. Based on 16S rDNA similarities, the novel strains were closely related to Pseudoalteromonas luteoviolacea and Pseudoalteromonas piscicida, with 96·3 and 95·7 % sequence similarity, respectively. However, the strains could be differentiated from P. lutioviolacea by seven traits and from P. piscicida by 10 traits. Analysis of DNA–DNA relatedness to these related species revealed low levels of DNA hybridization (19·6 % to P. luteoviolacea and 22·4 % to P. piscicida). However, the type strain, O-BC30T, and the other three bacterial isolates showed high DNA relatedness to each other, ranging from 84·8 to 93·7 %. Based on the results of phenotypic characterization, phylogenetic analysis based on 16S rDNA sequences and DNA–DNA hybridization, it is concluded that these isolates represent a novel species in the genus Pseudoalteromonas. Because the type strain, O-BC30T (=IAM 14989T =KCTC 12086T), produces phenolic anti-MRSA substances, the name proposed for this novel species is Pseudoalteromonas phenolica sp. nov.
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Ramlibacter tataouinensis gen. nov., sp. nov., and Ramlibacter henchirensis sp. nov., cyst-producing bacteria isolated from subdesert soil in Tunisia
Ramlibacter gen. nov. is proposed for two aerobic, chemo-organotrophic, cyst-producing soil bacterial strains. These bacteria are Gram-negative, non-flagellated rods or cysts, isolated from subdesert soil in Tataouine, Tunisia. Phylogenetic analyses of the rrs sequences of the two strains showed that they do not constitute a robust clade at the genus level with any previously described bacteria and that they are a deep branch of a clade also grouping the genera Acidovorax and Hydrogenophaga within the β-Proteobacteria. They belong to two different species, as verified by DNA–DNA hybridization (23·5 % reassociation). The type species of the genus is Ramlibacter tataouinensis sp. nov., with the type strain TTB310T (=DSM 14655T =ATCC BAA-407T =LMG 21543T). The second species is Ramlibacter henchirensis sp. nov., with the type strain TMB834T (=DSM 14656T =ATCC BAA-408T =LMG 21542T). The G+C contents of R. tataouinensis and R. henchirensis are 69·6 and 66·6 mol%, respectively.
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- Gram-Positive Bacteria
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Mycobacterium shottsii sp. nov., a slowly growing species isolated from Chesapeake Bay striped bass (Morone saxatilis)
Slowly growing, non-pigmented mycobacteria were isolated from striped bass (Morone saxatilis) during an epizootic of mycobacteriosis in the Chesapeake Bay. Growth characteristics, acid-fastness and results of 16S rRNA gene sequencing were consistent with those of the genus Mycobacterium. A unique profile of biochemical reactions was observed among the 21 isolates. A single cluster of eight peaks identified by analysis of mycolic acids (HPLC) resembled those of reference patterns but differed in peak elution times from profiles of reference species of the Mycobacterium tuberculosis complex. One isolate (M175T) was placed within the slowly growing mycobacteria by analysis of aligned 16S rRNA gene sequences and was proximate in phylogeny to Mycobacterium ulcerans and Mycobacterium marinum. However, distinct nucleotide differences were detected in the 16S rRNA gene sequence among M175T, M. ulcerans and M. marinum (99·2 % similarity). Isolate M175T could be differentiated from other slowly growing, non-pigmented mycobacteria by its inability to grow at 37 °C, production of niacin and urease, absence of nitrate reductase and resistance to isoniazid (1 µg ml−1), thiacetazone and thiophene-2-carboxylic hydrazide. Based upon these genetic and phenotypic differences, isolate M175T (=ATCC 700981T =NCTC 13215T) is proposed as the type strain of a novel species, Mycobacterium shottsii sp. nov.
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Characterization of endospore-forming bacteria associated with entomopathogenic nematodes, Heterorhabditis spp., and description of Paenibacillus nematophilus sp. nov.
More LessEndospore-forming bacteria were isolated from insect-pathogenic nematodes, Heterorhabditis spp., from three diverse geographical locations. Spindle-shaped sporangia of these bacteria adhere to the free-living infective stage of the nematode, which carries them to new insect hosts, where the bacterium reproduces. These isolates were characterized based on phenotypic and chemotaxonomic properties and 16S rRNA gene sequences. Analysis of the 16S rRNA gene placed the isolates within the genus Paenibacillus. The isolates shared higher sequence similarities with each other (95·1–100 %) than they did with any other named species within the genus (89·2–94 %). Paenibacillus macquariensis, Paenibacillus azoreducens, Paenibacillus amylolyticus and Paenibacillus durus were among the species with highest sequence similarity to these isolates. The isolates shared a high degree of phenotypic similarity and were easily distinguished from closely related members of the genus. Anteiso-C15 : 0 and C16 : 0 were among the major fatty acid types and the DNA G+C content was approximately 44 mol% in all isolates. DNA–DNA similarity studies revealed genomic heterogeneity among the isolates, such that they are likely to represent more than one species. Two of the isolates (both from a Heterorhabditis megidis isolate from Estonia) are phenotypically distinguishable from the others and are proposed as a single species, Paenibacillus nematophilus sp. nov. The type strain for this novel species is NEM1aT (=DSM 13559T=NCIMB 13845T). The other isolates, although closely related to the proposed species, are likely to represent at least one, but most likely two, novel species.
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Bacillus decolorationis sp. nov., isolated from biodeteriorated parts of the mural paintings at the Servilia tomb (Roman necropolis of Carmona, Spain) and the Saint-Catherine chapel (Castle Herberstein, Austria)
More LessMicrobial growths causing discoloration on the Roman wall paintings of the Servilia tomb at the necropolis of Carmona (Spain) and the medieval wall paintings of the Saint-Catherine chapel at Castle Herberstein (Austria) were investigated and from four different samples, a group of ten strains with similar characteristics was isolated. The isolates were characterized in a polyphasic taxonomic study, including 16S rDNA sequence analysis, (GTG)5-PCR genomic fingerprinting, DNA–DNA hybridization, DNA base ratio, fatty acid analysis, morphological and biochemical characterization. The data obtained attribute the isolates to a novel species of the genus Bacillus, for which the name Bacillus decolorationis sp. nov. is proposed. The type strain is strain LMG 19507T (=DSM 14890T).
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Solirubrobacter pauli gen. nov., sp. nov., a mesophilic bacterium within the Rubrobacteridae related to common soil clones
A novel bacterium, strain B33D1T, isolated from agricultural soil, was characterized taxonomically and phylogenetically. Strain B33D1T was a Gram-positive, aerobic rod of medium length that formed long chains on a common laboratory medium. However, B33D1T grew poorly on the surface of agar plates and was sensitive to desiccation. The optimal growth temperature was 30 °C (range 19–38 °C). The organism grew well on a variety of sugars and was capable of utilizing a few amino acids as sole carbon sources. Phylogenetically, the most closely related described species to strain B33D1T was Rubrobacter xylanophilus, which possessed 86 % 16S rRNA sequence similarity. However, a number of 16S rRNA gene clones derived from soil samples possessed up to 93 % sequence similarity. These results placed strain B33D1T within the subclass Rubrobacteridae of the phylum Actinobacteria. The novel genus and species Solirubrobacter pauli gen. nov., sp. nov. is proposed, with strain B33D1T (=ATCC BAA-492T=DSM 14954T) as the type strain.
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Virgibacillus carmonensis sp. nov., Virgibacillus necropolis sp. nov. and Virgibacillus picturae sp. nov., three novel species isolated from deteriorated mural paintings, transfer of the species of the genus Salibacillus to Virgibacillus, as Virgibacillus marismortui comb. nov. and Virgibacillus salexigens comb. nov., and emended description of the genus Virgibacillus
A group of 13 strains was isolated from samples of biofilm formation on the mural paintings of the Servilia tomb (necropolis of Carmona, Spain) and the Saint-Catherine chapel (castle at Herberstein, Austria). The strains were subjected to a polyphasic taxonomic study, including (GTG)5-PCR, 16S rDNA sequence analysis, DNA–DNA hybridizations, DNA base ratio determination, analysis of fatty acids, polar lipids and menaquinones and morphological and biochemical characterization. In a phylogenetic tree based on neighbour-joining of 16S rDNA sequences, the strains are divided in two major groups, representing three novel species according to DNA–DNA relatedness, that are positioned at approximately equal distances from Virgibacillus and Salibacillus. After comparison of the novel results with existing data, the transfer of the species of Salibacillus to Virgibacillus is proposed, with the resulting new combinations Virgibacillus marismortui comb. nov. and Virgibacillus salexigens comb. nov. Additionally, three novel species are described, for which the names Virgibacillus carmonensis sp. nov., Virgibacillus necropolis sp. nov. and Virgibacillus picturae sp. nov. are proposed. The respective type strains are LMG 20964T (=DSM 14868T), LMG 19488T (=DSM 14866T) and LMG 19492T (=DSM 14867T). Finally, an emended description of the genus Virgibacillus is given.
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Lactobacillus versmoldensis sp. nov., isolated from raw fermented sausage
More LessLactobacillus versmoldensis sp. nov. (KU-3T) was isolated from raw fermented sausages. The new species was present in high numbers, and frequently dominated the lactic acid bacteria (LAB) populations of the products. 16S rDNA sequence data revealed that the isolates are closely related to the species Lactobacillus kimchii DSM 13961T, Lactobacillus paralimentarius DSM 13238T, Lactobacillus alimentarius DSM 20249T and Lactobacillus farciminis DSM 20184T. DNA–DNA reassociation data, however, clearly distinguished the new isolates from these species; they showed a low degree of DNA relatedness with the type strains of this group of phylogenetically closely related lactobacilli. These results warrant separate species status for strain KU-3T, for which the name Lactobacillus versmoldensis sp. nov. is proposed. The type strain is KU-3T (=DSM 14857T =NCCB 100034T =ATCC BAA-478T).
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Phylogenetic analysis of some Sporomusa sub-branch members isolated from human clinical specimens: description of Megasphaera micronuciformis sp. nov.
Two unknown, Gram-negative, catalase-negative and strictly anaerobic cocci were isolated from two independent human samples (strains AIP 49.01 and AIP 412.00T). Comparative 16S rRNA gene sequencing demonstrated that these two organisms displayed 99·8 % sequence identity and that they are members of the Sporomusa sub-branch of the low-G+C Gram-positive bacteria. The most closely related 16S rDNA sequences were from Megasphaera sp. oral clone BU057 (99·8 %) and from isolates of Megasphaera cerevisiae and Megasphaera elsdenii (94·5 and 93·8 %, respectively). Phylogenetic analysis based on 16S rDNA sequences showed that these two strains were most closely related to M. elsdenii and belonged to the Megasphaera genus. Differences from previously described Megasphaera species in terms of size, biochemical tests (particularly the analysis of metabolic end products), gas production and DNA G+C content indicated that the two strains studied represent a novel species of anaerobic Gram-negative cocci. The name Megasphaera micronuciformis sp. nov. is proposed for these two isolates. It is also proposed that the uncultured organism previously deposited as Megasphaera sp. oral clone BU057 should be named ‘Candidatus Megasphaera micronuciformis’. The type strain of Megasphaera micronuciformis is AIP 412.00T (=CIP 107280T =CCUG 45952T).
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Conexibacter woesei gen. nov., sp. nov., a novel representative of a deep evolutionary line of descent within the class Actinobacteria
More LessA novel Gram-positive bacterial strain was isolated from forest soil. According to its 16S rRNA sequence, this strain is a deep-rooting member of the class Actinobacteria. The 16S rRNA sequence is most closely related (∼94 % identity) to clones of uncultured bacteria detected in different terrestrial environments, while showing only a remote relationship (∼90 % identity or less) to sequences of cultured species. Cells of the first cultured representative of this phylogenetic cluster are small, short rods that are motile by peritrichous flagella, catalase- and oxidase-positive and grow under aerobic conditions. In liquid culture, flagella from different cells can aggregate to form networks, clearly visible under the light microscope. The peptidoglycan contains meso-diaminopimelic acid and is directly cross-linked (type A1γ). Mycolic acids are not present. The polar lipids are phosphatidylinositol and an unidentified phospholipid. Menaquinone MK-7(H4) was detected as the predominant isoprenoid quinone. Oleic, 14-methylpentadecanoic, hexadecanoic and ω6c-heptadecenoic acids are the predominant components of the cellular fatty acid profile. The DNA G+C content is 71 mol%. The distinct phylogenetic position and the unusual combination of chemotaxonomic characteristics justify the proposal of a new genus and species, Conexibacter woesei gen. nov., sp. nov., with the type strain ID131577T (=DSM 14684T =JCM 11494T).
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Jeotgalicoccus halotolerans gen. nov., sp. nov. and Jeotgalicoccus psychrophilus sp. nov., isolated from the traditional Korean fermented seafood jeotgal
More LessTwo Gram-positive, non-motile, non-spore-forming, halotolerant and moderately halophilic cocci (strains YKJ-101T and YKJ-115T) were isolated from the traditional Korean fermented seafood jeotgal, and were investigated using a polyphasic taxonomic approach. Phylogenetic analysis of 16S rDNA sequences showed that strains YKJ-101T and YKJ-115T are most closely related to the cluster comprising two Salinicoccus species. The peptidoglycan type of the strains is A3α, based on l-Lys–Gly3–4–l-Ala(Gly), and the predominant menaquinone is MK-7. Strains YKJ-101T and YKJ-115T have cellular fatty acid profiles containing major amounts of saturated, unsaturated and branched fatty acids; the major fatty acids are anteiso-C15 : 0 and iso-C15 : 0. The cellular polar lipids are phosphatidylglycerol, diphosphatidylglycerol and unidentified phospholipids. Strains YKJ-101T and YKJ-115T have identical DNA G+C contents of 42 mol%. The 16S rDNA similarity between strains YKJ-101T and YKJ-115T is 98 % and the mean level of DNA–DNA relatedness between the two strains is 13·4 %. On the basis of phenotypic and phylogenetic data and genomic distinctiveness, it is proposed that strains YKJ-101T and YKJ-115T should be placed in a new genus, Jeotgalicoccus gen. nov., as two distinct new species, for which the names Jeotgalicoccus halotolerans sp. nov. and Jeotgalicoccus psychrophilus sp. nov. are proposed. The type strains are YKJ-101T (=KCCM 41448T =JCM 11198T) and YKJ-115T (=KCCM 41449T =JCM 11199T), respectively.
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Actinomyces vaccimaxillae sp. nov., from the jaw of a cow
More LessA previously undescribed Actinomyces-like bacterium was isolated from a lesion in the jaw of a cow. Based on its cellular morphology and the results of biochemical testing, the organism was tentatively identified as a member of the genus Actinomyces. Comparative 16S rRNA gene sequencing studies showed that the bacterium represents a hitherto unknown species within the genus Actinomyces, and is related to a group of species that includes Actinomyces turicensis and its close relatives. It is proposed that the unknown organism be classified as Actinomyces vaccimaxillae sp. nov. (the type strain is CCUG 46091T=CIP 107423T).
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- Unicellular Eukaryotes
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Systematics of primary osmotrophic euglenids: a molecular approach to the phylogeny of Distigma and Astasia (Euglenozoa)
More LessNuclear-encoded SSU rRNA genes from nine strains of Distigma and three strains of Astasia were sequenced and analysed phylogenetically with maximum-likelihood and maximum-parsimony methods. It could be demonstrated that the genus Distigma is paraphyletic, consisting of two distinct clades: one comprises four strains of the type species, Distigma proteus, and the other includes four strains of Distigma curvatum, Distigma gracile, Distigma sennii and Distigma elegans. These findings are well corroborated by morphological characteristics. The investigated species of Astasia are closely related to members of the Rhabdomonadida, thus rendering the genus Astasia polyphyletic, with Astasia longa branching within the phototrophs. All of the species investigated cluster in a well-supported group of primary osmotrophic euglenids that are not derived from photosynthetic ancestors. The recovered clades are characterized by their sequence diversity. After different evolutionary rates among lineages had been determined, a modified slow–fast approach was used to differentiate phylogenetic signal from noise. Finally, a revised systematic scheme based on phylogenetic relationships is suggested to render euglenid taxonomy more transparent: primary osmotrophic euglenids are classified as Aphagea, and members of the D. curvatum group are transferred into the new subgenus Parvonema.
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- Evolution, Phylogeny And Biodiversity
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Thermoleophilum album and Thermoleophilum minutum are culturable representatives of group 2 of the Rubrobacteridae (Actinobacteria)
More LessAnalysis of the morphological and genotypic properties of three obligately thermophilic strains of Thermoleophilum album and Thermoleophilum minutum, originally described as green non-sulfur bacteria, indicates that these taxa belong to the Rubrobacter subdivision of the Actinobacteria. EM of the cell wall clearly showed morphology typical of Gram-positive bacteria. A comparison of 16S rRNA gene sequences, including signature nucleotide pairs and secondary structural features considered diagnostic for the subclass Rubrobacteridae, revealed that the three strains of Thermoleophilum were highly similar and should be considered as members of group 2 of this subclass, represented up to now only by uncultured organisms.
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Helicobacter sp. flexispira 16S rDNA taxa 1, 4 and 5 and Finnish porcine Helicobacter isolates are members of the species Helicobacter trogontum (taxon 6)
More LessThe term ‘flexispira’ refers to micro-organisms with a particular morphology: fusiform-shaped with helical periplasmic fibrils and bipolar tufts of sheathed flagella. Two flexispira taxa have been formally named, Helicobacter bilis and Helicobacter trogontum, a third named species is Helicobacter aurati and eight additional 16S rRNA sequence-based flexispira taxa have been described by Dewhirst et al. (Int J Syst Evol Microbiol 50, 1781–1787, 2000) and given the provisional designation Helicobacter sp. flexispira taxa 1–5, 7, 8 and 10. In the present study, seven gastric or intestinal flexispira isolates from seven Finnish pigs originating from different farms were characterized. Morphologically, all these porcine isolates had typical flexispira morphology. Analysis of the 16S rDNA sequences of five isolates showed that they were most closely related to the sequences of flexispira taxa 4 and 5 and H. trogontum (taxon 6), but less closely related to taxa 1–3 and 8, H. bilis and H. aurati. Phenotypic characterization, analysis of RFLPs of 16S and 23S rDNAs and SDS-PAGE profiles revealed that all of the porcine isolates, reference strains of flexispira taxa 1, 4 and 5 and the type strain of H. trogontum (ATCC 700114T) had highly related characteristics that differed from those of the reference strains of taxa 2, 3 and 8 and H. bilis. Furthermore, a high DNA–DNA binding rate was found, in dot-blot hybridization studies, between the Finnish porcine strains, taxa 1, 4 and 5 reference strains and H. trogontum ATCC 700114T. In conclusion, polyphasic characterization of novel porcine flexispira isolates and previously described taxa 1, 4 and 5 reference strains showed that they all belong to a validly described species, H. trogontum, and that the taxonomy of known flexispiras is less complicated than proposed on the basis of 16S rDNA sequence analysis.
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RNA polymerase β-subunit-based phylogeny of Ehrlichia spp., Anaplasma spp., Neorickettsia spp. and Wolbachia pipientis
More LessSequence analysis of rpoB, the gene encoding the β-subunit of RNA polymerase, was used in a phylogenetic investigation of nine species from the genera Ehrlichia, Neorickettsia, Wolbachia and Anaplasma. The complete nucleotide sequences obtained for Anaplasma phagocytophilum (HGE agent), Ehrlichia chaffeensis, Neorickettsia sennetsu, Neorickettsia risticii, Anaplasma marginale and Wolbachia pipientis were amongst the longest rpoB sequences in GenBank and ranged from 4074 bp for N. sennetsu to 4311 bp for W. pipientis. Additional partial rpoB sequences were obtained for Ehrlichia canis, Ehrlichia ruminantium and Ehrlichia muris. Identical phylogenetic trees were inferred from multiple sequence alignments of the nucleotide sequences and the derived amino acid sequences using either distance, maximum-likelihood or parsimony methods. This study confirms the phylogeny previously inferred from sequence analyses of the 16S rRNA gene, groESL and gltA and allows the confirmation of four monophyletic clades. The rpoB nucleotide sequences were more variable than the 16S rRNA gene and groESL sequences at the species level.
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Molecular systematics of the dimorphic ascomycete genus Taphrina
More LessThe ascomycete genus Taphrina Fries comprises nearly 100 species recognized by their mycelial states when parasitic on different vascular plants. Whereas the filamentous state is strictly phytoparasitic, the yeast state is saprobic and can be cultured on artificial media. Taphrina species are differentiated mainly on the basis of host range and geographical distribution, type and site of infection and morphology of the sexual stage in infected tissue. However, there has been little progress in the systematics of the genus in recent years, mainly because of the scarcity of molecular studies and available cultures. The main aim of the present study was the reappraisal of species boundaries in Taphrina based on the genetic characterization of cultures (yeast states) that represent about one-third of the currently recognized species. The molecular methods used were (i) PCR fingerprinting using single primers for microsatellite regions and (ii) determination of nucleotide sequences of two approx. 600 bp nuclear rDNA regions, the 5′ end of the 26S rRNA gene (D1/D2 domains) and the internal transcribed spacer region (which includes the 5.8S rRNA gene). Sequencing results confirmed the monophyly of the genus (with the probable exclusion of Taphrina vestergrenii) and the combined analysis of the two methods corroborated, in most cases, separation of species defined on the basis of conventional criteria. However, genetic heterogeneity was found within some species and conspecificity was suggested for strains that have been deemed to represent distinct species. Sequences from the ITS region displayed a higher degree of divergence than those of the D1/D2 region between closely related species, but were relatively conserved within species (>99 % identity) and were thus more useful for the effective differentiation of Taphrina species. The results further allowed other topics to be addressed such as the correlation between the molecular phylogenetic clustering of certain species and the respective host plant family and the significance of molecular methods in the accurate diagnosis of the different diseases caused by Taphrina species.
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Volumes and issues
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Volume 74 (2024)
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Volume 73 (2023)
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Volume 72 (2022 - 2023)
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Volume 71 (2020 - 2021)
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Volume 70 (2020)
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Volume 69 (2019)
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Volume 68 (2018)
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Volume 67 (2017)
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Volume 66 (2016)
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Volume 65 (2015)
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Volume 64 (2014)
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Volume 63 (2013)
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Volume 62 (2012)
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Volume 61 (2011)
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Volume 60 (2010)
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Volume 59 (2009)
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Volume 58 (2008)
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Volume 57 (2007)
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Volume 56 (2006)
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Volume 55 (2005)
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Volume 54 (2004)
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Volume 48 (1998)
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Volume 47 (1997)
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Volume 46 (1996)
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Volume 45 (1995)
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Volume 42 (1992)
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Volume 41 (1991)
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Volume 40 (1990)
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Volume 39 (1989)
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Volume 38 (1988)
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Volume 37 (1987)
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Volume 36 (1986)
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Volume 35 (1985)
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Volume 34 (1984)
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Volume 33 (1983)
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Volume 32 (1982)
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Volume 31 (1981)
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Volume 30 (1980)
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Volume 29 (1979)
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Volume 28 (1978)
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Volume 27 (1977)
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Volume 26 (1976)
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Volume 25 (1975)
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Volume 24 (1974)
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Volume 23 (1973)
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Volume 22 (1972)
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Volume 21 (1971)
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Volume 20 (1970)
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Volume 19 (1969)
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Volume 18 (1968)
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Volume 17 (1967)
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Volume 16 (1966)
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Volume 15 (1965)
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Volume 14 (1964)
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Volume 13 (1963)
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Volume 12 (1962)
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Volume 11 (1961)
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Volume 10 (1960)
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Volume 9 (1959)
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Volume 8 (1958)
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Volume 7 (1957)
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Volume 6 (1956)
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Volume 5 (1955)
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Volume 4 (1954)
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Volume 3 (1953)
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Volume 2 (1952)
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Volume 1 (1951)