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  • 1
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    Online Resource
    Dickeya poaceiphila sp. nov., a plant-pathogenic bacterium isolated from sugar cane (Saccharum officinarum)
    Microbiology Society ; 2020
    In:  International Journal of Systematic and Evolutionary Microbiology Vol. 70, No. 8 ( 2020-08-01), p. 4508-4514
    Details
    In: International Journal of Systematic and Evolutionary Microbiology, Microbiology Society, Vol. 70, No. 8 ( 2020-08-01), p. 4508-4514
    Abstract: The genus Dickeya is an important group of plant pathogens that currently comprises 10 recognized species. Although most Dickeya isolates originated from infected cultivated plants, they are also isolated from water. The genomic sequence of the Australian strain NCPPB 569 T clearly established its separation from the previously characterized Dickeya species. The average nucleotide identity and digital DNA–DNA hybridization values obtained by comparing strain NCPPB 569 T with strains of characterized Dickeya species were lower than 87 and 32 %, respectively, supporting the delineation of a new species. The name Dickeya poaceiphila sp. nov. is proposed for this taxon with the type strain NCPPB 569 T (=CFBP 8731 T ). Two other strains isolated in Australia, CFBP 1537 and CFBP 2040, also belong to this species. Phenotypic and genomic comparisons enabled the identification of traits distinguishing D. poaceiphila isolates from strains of other Dickeya species.
    Type of Medium: Online Resource
    ISSN: 1466-5026 , 1466-5034
    URL: Article
    DOI: 10.1099/ijsem.0.004306
    Language: English
    Publisher: Microbiology Society
    Publication Date: 2020
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    detail.hit.zdb_id: 2056611-6
    SSG: 12
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  • 2
    Online Resource
    Online Resource
    Phylogenetic and genetic variation among Fe(II)-oxidizing acidithiobacilli supports the view that these comprise multiple species with different ferrous iron oxidation pathways
    Microbiology Society ; 2011
    In:  Microbiology Vol. 157, No. 1 ( 2011-01-01), p. 111-122
    Details
    In: Microbiology, Microbiology Society, Vol. 157, No. 1 ( 2011-01-01), p. 111-122
    Abstract: Autotrophic acidophilic iron- and sulfur-oxidizing bacteria of the genus Acidithiobacillus constitute a heterogeneous taxon encompassing a high degree of diversity at the phylogenetic and genetic levels, though currently only two species are recognized ( Acidithiobacillus ferrooxidans and Acidithiobacillus ferrivorans ). One of the major functional disparities concerns the biochemical mechanisms of iron and sulfur oxidation, with discrepancies reported in the literature concerning the genes and proteins involved in these processes. These include two types of high-potential iron–sulfur proteins (HiPIPs): (i) Iro, which has been described as the iron oxidase; and (ii) Hip, which has been proposed to be involved in the electron transfer between sulfur compounds and oxygen. In addition, two rusticyanins have been described: (i) rusticyanin A, encoded by the rusA gene and belonging to the well-characterized rus operon, which plays a central role in the iron respiratory chain; and (ii) rusticyanin B, a protein to which no function has yet been ascribed. Data from a multilocus sequence analysis of 21 strains of Fe(II)-oxidizing acidithiobacilli obtained from public and private collections using five phylogenetic markers showed that these strains could be divided into four monophyletic groups. These divisions correlated not only with levels of genomic DNA hybridization and phenotypic differences among the strains, but also with the types of rusticyanin and HiPIPs that they harbour. Taken together, the data indicate that Fe(II)-oxidizing acidithiobacilli comprise at least four distinct taxa, all of which are able to oxidize both ferrous iron and sulfur, and suggest that different iron oxidation pathways have evolved in these closely related bacteria.
    Type of Medium: Online Resource
    ISSN: 1350-0872 , 1465-2080
    URL: Article
    DOI: 10.1099/mic.0.044537-0
    Language: English
    Publisher: Microbiology Society
    Publication Date: 2011
    detail.hit.zdb_id: 2008736-6
    SSG: 12
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  • 3
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    Online Resource
    Mesotoga infera sp. nov., a mesophilic member of the order Thermotogales , isolated from an underground gas storage aquifer
    Microbiology Society ; 2013
    In:  International Journal of Systematic and Evolutionary Microbiology Vol. 63, No. Pt_8 ( 2013-08-01), p. 3003-3008
    Details
    In: International Journal of Systematic and Evolutionary Microbiology, Microbiology Society, Vol. 63, No. Pt_8 ( 2013-08-01), p. 3003-3008
    Abstract: Strain VNs100 T , a novel mesophilic, anaerobic, rod-coccoid-shaped bacterium, having a sheath-like outer structure (toga), was isolated from a water sample collected in the area of an underground gas storage aquifer. It was non-motile with cells appearing singly (2–4 µm long×1–2 µm wide), in pairs or as long chains and stained Gram-negative. Strain VNs100 T was heterotrophic, able to use arabinose, cellobiose, fructose, galactose, glucose, lactose, lactate, mannose, maltose, raffinose, ribose, sucrose and xylose as energy sources only in the presence of elemental sulfur as terminal electron acceptor. Acetate, CO 2 and sulfide were the end products of sugar metabolism. Hydrogen was not detected. Elemental sulfur, but not thiosulfate, sulfate or sulfite, were reduced to sulfide. Strain VNs100 T grew at temperatures between 30 and 50 °C (optimum 45 °C), at pH values between 6.2 and 7.9 (optimum 7.3–7.5) and at NaCl concentrations between 0 and 15 g l −1 (optimum 2 g l −1 ). The DNA G+C content was 47.5 mol%. The main cellular fatty acid was C 16 : 0 . Phylogenetic analysis of the small subunit rRNA gene sequence indicated that strain VNs100 T had as its closest relatives ‘ Mesotoga sulfurireducens ’ (97.1 % similarity) and Mesotoga prima (similarity of 97.1 % and 97.7 % with each of its two genes, respectively) within the order Thermotogales . Hybridization between strain VNS100 T and ‘ M. sulfurireducens ’ and between strain VNS100 T and M. prima showed 12.9 % and 20.6 % relatedness, respectively. Based on phenotypic, phylogenetic and taxonomic characteristics, strain VNs100 T is proposed as a representative of a novel species of the genus Mesotoga in the family Thermotogaceae , order Thermotogales . The name Mesotoga infera sp. nov. is proposed. The type strain is VNs100 T ( = DSM 25546 T  = JCM 18154 T ).
    Type of Medium: Online Resource
    ISSN: 1466-5026 , 1466-5034
    URL: Article
    DOI: 10.1099/ijs.0.047993-0
    Language: English
    Publisher: Microbiology Society
    Publication Date: 2013
    detail.hit.zdb_id: 215062-1
    detail.hit.zdb_id: 2056611-6
    SSG: 12
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  • 4
    Online Resource
    Online Resource
    Halomonas olivaria sp. nov., a moderately halophilic bacterium isolated from olive-processing effluents
    Microbiology Society ; 2014
    In:  International Journal of Systematic and Evolutionary Microbiology Vol. 64, No. Pt_1 ( 2014-01-01), p. 46-54
    Details
    In: International Journal of Systematic and Evolutionary Microbiology, Microbiology Society, Vol. 64, No. Pt_1 ( 2014-01-01), p. 46-54
    Abstract: A moderately halophilic, Gram-stain-negative, non-sporulating bacterium designed as strain TYRC17 T was isolated from olive-processing effluents. The organism was a straight rod, motile by means of peritrichous flagella and able to respire both oxygen and nitrate. Growth occurred with 0–25 % (w/v) NaCl (optimum, 7 %), at pH 5–11 (optimum, pH 7.0) and at 4–50 °C (optimally at 35 °C). It accumulated poly-β-hydroxyalkanoate granules and produced exopolysaccharides. The predominant fatty acids were C 18 : 1 ω7 c , C 16 : 1 ω7 c and C 16 : 0 . Ubiquinone 9 (Q-9) was the only respiratory quinone. The DNA G+C content of TYRC17 T was 53.9 mol%. Phylogenetic analyses of 16S rRNA gene sequences revealed that the strain represents a member of the genus Halomonas and more precisely of the subgroup containing Halomonas sulfidaeris , H. titanicae , H. variabilis , H. zhanjiangensis , H. alkaliantarctica , H. boliviensis and H. neptunia . TYRC17 T showed high 16S-rRNA sequence identities in particular with the three last species listed (99.4–99.5 %). A multilocus sequence analysis (MLSA) using the 23S rRNA, gyrB , rpoD and secA genes allowed clarifying the phylogenetic position of TYRC17 T . This, combined with the level of DNA–DNA hybridization between TYRC17 T and its closest relatives ranging from 21.6 % to 48.4 %, indicated that TYRC17 T did not represent any of these species. On the basis of phenotypic and genotypic characteristics, and also genomic and phylogenetic evidence, it was concluded that strain TYRC17 T represented a novel species of the genus Halomonas . The name Halomonas olivaria sp. nov. is proposed with TYRC17 T ( = DSM 19074 T  = CCUG 53850B T ) as the type strain.
    Type of Medium: Online Resource
    ISSN: 1466-5026 , 1466-5034
    URL: Article
    DOI: 10.1099/ijs.0.049007-0
    Language: English
    Publisher: Microbiology Society
    Publication Date: 2014
    detail.hit.zdb_id: 215062-1
    detail.hit.zdb_id: 2056611-6
    SSG: 12
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