- Volume 59, Issue 5, 2009
Volume 59, Issue 5, 2009
- New Taxa
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- Proteobacteria
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Oceanicola pacificus sp. nov., isolated from a deep-sea pyrene-degrading consortium
A taxonomic study was carried out on a Gram-negative, rod-shaped, non-motile, halophilic bacterium, designated strain W11-2BT, which was isolated from a pyrene-degrading consortium that was enriched from sediment from the Pacific Ocean. Growth was observed at salinities of 0.5–10 % and at temperatures of 10–41 °C. Strain W11-2BT was unable to degrade Tween 80 or gelatin. 16S rRNA gene sequence comparisons showed that strain W11-2BT was related most closely to Oceanicola nanhaiensis SS011B1-20T (95.8 % similarity) and Oceanicola batsensis HTCC2597T (95.7 %); levels of 16S rRNA gene sequence similarity between strain W11-2BT and the type strains of other species tested were below 95.2 %. The dominant fatty acids of strain W11-2BT were C18 : 1 ω7c (32.1 % of the total), C19 : 0 cyclo (20.9 %), C18 : 1 ω7c 11-methyl (19.5 %), C18 : 0 (7.3 %), C17 : 0 (6.6 %) and C16 : 0 (3.8 %). The G+C content of the chromosomal DNA was 64.6 mol%. The above data were in good agreement with those of members of the genus Oceanicola. Based on morphology, physiology, fatty acid composition and 16S rRNA gene sequence data, strain W11-2BT is considered to represent a novel species of the genus Oceanicola, for which the name Oceanicola pacificus sp. nov. is proposed. The type strain is W11-2BT (=CCTCC AB 208224T=LMG 24619T=MCCC 1A01034T).
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Marinobacterium nitratireducens sp. nov. and Marinobacterium sediminicola sp. nov., isolated from marine sediment
More LessTwo strains, CN44T and CN47T, isolated from marine sediment of the East China Sea, were characterized by using a polyphasic approach. The isolates were Gram-negative, strictly aerobic, non-spore-forming rods. The chemotaxonomic characteristics of these isolates included the presence of C18 : 1 ω7c, C16 : 0, iso-C15 : 0 2-OH and/or C16 : 1 ω7c and C10 : 0 3-OH as the major cellular fatty acids and Q-8 as the predominant ubiquinone. The DNA G+C contents of strains CN44T and CN47T were 62.5 and 56.3 mol%, respectively. Phylogenetic analyses based on 16S rRNA gene sequences revealed that strain CN44T was related to members of the genus Marinobacterium. The most closely related described organism was the type strain of Marinobacterium rhizophilum (95.3 % sequence similarity). Strain CN47T showed the highest sequence similarity to the type strain of Marinobacterium stanieri (97.8 %) and <97 % similarity to other type strains of described Marinobacterium species. The level of DNA–DNA relatedness between strain CN47T and M. stanieri DSM 7027T was 46 %. On the basis of phenotypic and genotypic properties, strains CN44T and CN47T represent two novel species within the genus Marinobacterium, for which the names Marinobacterium nitratireducens sp. nov. (type strain, CN44T =CGMCC 1.7286T =JCM 15523T) and Marinobacterium sediminicola sp. nov. (type strain, CN47T =CGMCC 1.7287T =JCM 15524T) are proposed.
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Sphingomonas japonica sp. nov., isolated from the marine crustacean Paralithodes camtschatica
More LessA Sphingomonas-like bacterium, strain KC7T, was isolated from a marine crustacean specimen obtained from the Sea of Japan and subjected to a polyphasic study. Comparative 16S rRNA gene sequence analysis positioned the novel strain in the genus Sphingomonas as an independent lineage adjacent to a subclade containing Sphingomonas trueperi LMG 2142T, Sphingomonas pituitosa EDIVT and Sphingomonas azotifigens NBRC 15497T. Strain KC7T shared highest 16S rRNA gene sequence similarity (96.1 %) with S. trueperi LMG 2142T, Sphingomonas dokdonensis DS-4T and S. azotifigens NBRC 15497T; similarities to strains of other recognized Sphingomonas species were lower (96.0–93.9 %). The strain contained sphingoglycolipid and the predominant fatty acids were C16 : 1, C16 : 0 and C18 : 1; 2-OH C14 : 0 was the major 2-hydroxy fatty acid. Previously, these lipids have been found to be characteristic of members of the genus Sphingomonas sensu stricto. On the basis of phylogenetic analysis and physiological and biochemical characterization, strain KC7T represents a novel species of the genus Sphingomonas, for which the name Sphingomonas japonica sp. nov. is proposed. The type strain is KC7T (=KMM 3038T =NRIC 0738T =JCM 15438T).
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Haliea rubra sp. nov., a member of the Gammaproteobacteria from the Mediterranean Sea
More LessA novel aerobic, Gram-negative bacterium, designated strain CM41_15aT, was isolated from the surface of coastal waters of the north-western Mediterranean Sea. Cells were non-motile straight rods that formed red colonies on marine agar medium. The G+C content of the genomic DNA was 65 mol %. Phylogenetic analysis of the 16S rRNA gene sequence placed the strain in the genus Haliea within the class Gammaproteobacteria. On the basis of the 16S rRNA gene sequence comparison and physiological and biochemical characteristics, strain CM41_15aT represents a novel species, for which the name Haliea rubra sp. nov. is proposed. The type strain is CM41_15aT (=DSM 19751T=CIP 109758T=MOLA 104T).
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Transfer of Teichococcus ludipueritiae and Muricoccus roseus to the genus Roseomonas, as Roseomonas ludipueritiae comb. nov. and Roseomonas rosea comb. nov., respectively, and emended description of the genus Roseomonas
More LessPhylogenetic analyses based on 16S rRNA gene sequences revealed that Teichococcus ludipueritiae and Muricoccus roseus are closely related to the species of the genus Roseomonas. The type strain of Teichococcus ludipueritiae, 170/96T, exhibited 16S rRNA gene sequence similarity levels of 96.4 % to Roseomonas cervicalis ATCC 49957T, 95.0 % to Roseomonas aquatica TR53T, 94.5 % to Muricoccus roseus 173/96T, 93.4 % to Roseomonas mucosa ATCC BAA-692T and 93.5 % to Roseomonas gilardii subsp. gilardii ATCC 49956T, while Muricoccus roseus 173/96T showed 16S rRNA gene sequence similarity values of 95.7 % to R. mucosa ATCC BAA-692T, 95.7 % to R. aquatica TR53T and 95.3 % to R. gilardii subsp. gilardii ATCC 49956T and R. gilardii subsp. rosea ATCC BAA-691T. Different phylogenetic analysis methods (neighbour-joining, maximum-likelihood and maximum-parsimony) confirmed that both species are within the Roseomonas branch. Neither polyamine patterns (spermidine predominant) nor major characteristics in the polar lipid profiles distinguished the two species from representatives of the genus Roseomonas. The fatty acid composition of the two species exhibited alphaproteobacterial characteristics but, like Roseomonas species, they also showed considerable amounts of the rarely encountered C18 : 1 2-OH. On the other hand, they showed some phenotypic differences, but their features are compatible with the transfer of these two species to the genus Roseomonas. We propose the reclassification of Teichococcus ludipueritiae and Muricoccus roseus as Roseomonas ludipueritiae comb. nov. (type strain 170/96T =CIP 107418T =DSM 14915T) and Roseomonas rosea comb. nov. (type strain 173/96T =CIP 107419T =DSM 14916T), respectively. Emended descriptions of the genus Roseomonas and the species Roseomonas gilardii (and its subspecies Roseomonas gilardii subsp. gilardii and Roseomonas gilardii subsp. rosea), Roseomonas aquatica, Roseomonas cervicalis, Roseomonas mucosa and Roseomonas lacus are provided.
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Phaeobacter caeruleus sp. nov., a blue-coloured, colony-forming bacterium isolated from a marine electroactive biofilm
More LessThree isolates (LMG 24369T, LMG 24370 and R-26156) obtained from a marine electroactive biofilm that was grown on a cathodically polarized electrode were investigated by using a polyphasic taxonomic approach. Whole-cell fatty acid methyl ester and 16S rRNA gene sequence analyses indicated that the isolates were members of the genus Phaeobacter, class Alphaproteobacteria. Genotypic and phenotypic analyses demonstrated that the three isolates represent a novel species of the genus Phaeobacter, for which the name Phaeobacter caeruleus sp. nov. is proposed. The type strain is LMG 24369T (=CCUG 55859T). The DNA G+C content of strain LMG 24369T is 63.6 mol%.
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- Eukaryotic Micro-Organisms
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Wickerhamomyces queroliae sp. nov. and Candida jalapaonensis sp. nov., two yeast species isolated from Cerrado ecosystem in North Brazil
Two novel yeast species, Wickerhamomyces queroliae sp. nov. and Candida jalapaonensis sp. nov., were isolated, respectively, from larvae of Anastrepha mucronata (Diptera: Tephritidae) collected from ripe fruit of Peritassa campestris (‘Bacupari’, Hippocrateaceae) and from flowers of Centropogon cornutus (Campanulaceae) in the Cerrado ecosystem of the state of Tocantins, Brazil. Analysis of the D1/D2 large-subunit rRNA gene sequences placed W. queroliae in the Wickerhamomyces clade near Wickerhamomyces ciferri and Candida silvicultrix. Candida jalapaonensis belongs to the Wickerhamiella clade and is related to Candida drosophilae. The type strain of Wickerhamomyces queroliae is UFMG-05-T200.1T (=CBS 10936T=NRRL Y-48478T) and the type strain of Candida jalapaonensis is UFMG-03-T210T (=CBS 10935T=NRRL Y-48477T).
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Candida mengyuniae sp. nov., a metsulfuron-methyl-resistant yeast
More LessA metsulfuron-methyl-resistant yeast strain, JHLT, was isolated from metsulfuron-methyl-contaminated soil collected in Jiangsu Province, China. Through morphological and physiological analysis as well as a molecular phylogenetic analysis based on the 26S rRNA gene D1/D2 region and internal transcribed spacer (ITS), this strain, which forms a clade with Candida vartiovaarae and a teleomorphic species, Williopsis saturnus, was revealed to represent a novel species in the genus Candida. The name Candida mengyuniae sp. nov. (type strain JHLT=CGMCC 2.3681T=CBS 10845T) is proposed for this novel species.
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Delimitation of the species of the Debaryomyces hansenii complex by intron sequence analysis
More LessThe delineation of species among strains assigned to Debaryomyces hansenii was examined using a gene genealogies-based approach in order to compare spliceosomal intron sequences found in four housekeeping genes (ACT1, TUB2, RPL31 and RPL33). This revealed four distinct groups of strains containing, respectively, D. hansenii var. hansenii CBS 767T, D. hansenii var. fabryi CBS 789T, Candida famata var. flareri CBS 1796T (the anamorph of D. hansenii var. fabryi CBS 789T) and Debaryomyces tyrocola CBS 766T, whose species status was no longer accepted. The sequence divergence between these groups, reaching in some cases over 20 %, unambiguously isolated the groups as separate taxa, leading to a proposal for the reinstatement of the originally described species D. hansenii CBS 767T and D. tyrocola CBS 766T. The variety D. hansenii var. fabryi was further subdivided into two taxa, Debaryomyces fabryi CBS 789T and Candida flareri CBS 1796T (previously C. famata var. flareri and Blastodendrion flareri). The comparison of intron sequences therefore exposed cryptic species whose phenotypic traits are not distinguishable from known species, but which have significantly diverged from the genetic point of view. Hence, we describe the new taxon Debaryomyces macquariensis sp. nov. CBS 5571T is related to, but clearly distinct from, the Debaryomyces species mentioned above. The approach used in this work has also revealed the existence of populations within the newly delineated species D. hansenii and genetic exchanges between these populations, indicating an unexpected genetic diversity within this part of the genus Debaryomyces.
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- International Committee On Systematics Of Prokaryotes
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- Taxonomic Note
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Legitimacy is an essential concept of the International Code of Nomenclature of Prokaryotes – a major revision of the Code is called for
More LessTindall [Int J Syst Evol Microbiol 58 (2008), 1979–1986] claimed that the International Code of Nomenclature of Prokaryotes (the Code) creates a paradox in the application of the term ‘legitimate’ in relation to valid publication, that the term is dispensable and that the paradox would be resolved by revising the Code to avoid its use. Although it is not clearly explained in the Code, the concept of legitimacy is central to the proposal of names. Discarding the concept would fundamentally alter the conceptual structure of the Code and obscure significant distinctions in formal nomenclature. The text of the Code itself is not clear and a careful reading suggests that it would be enhanced by a critical overview involving textual revision and restructuring of some sections. The Judicial Commission is asked not to accept Tindall's suggested revision and it is proposed that the Editorial Board of the International Committee on Systematics of Prokaryotes re-examine the Code from first principles and make such revisions as will avoid in future the confusion, ambiguities and uncertainties indicated here.
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- Errata
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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 53 (2003)
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Volume 52 (2002)
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Volume 51 (2001)
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Volume 50 (2000)
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Volume 49 (1999)
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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 44 (1994)
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Volume 43 (1993)
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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)