Sphingomonas azotifigens sp. nov., a nitrogen-fixing bacterium isolated from the roots of Oryza sativa

Xie, Cheng-Hui; Yokota, Akira

doi:10.1099/ijs.0.64056-0

Cited by 91 publications

(54 citation statements)

References 24 publications

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“…The chemotaxonomic features of strain V2M44 T , including Q-10 as the major isoprenoid quinone, C 17 : 1 v6c and summed feature 7 as the major fatty acids, the absence of 3-hydroxy fatty acids and the presence of sphingoglycolipid are as expected for species closely related to the genus Sphingomonas (Busse et al, 2003;Denner et al, 1999Denner et al, , 2001Kämpfer et al, 1997;Lee et al, 2001;Reddy & Garcia-Pichel, 2007;Romanenko et al, 2007;Takeuchi et al, 1995;Xie & Yokota, 2006;Yoon et al, 2006). The DNA base composition was determined by thermal denaturation (Marmur & Doty, 1962) and Escherichia coli K-12 T was used as the reference.…”

Section: Cells Of Strain V2m44mentioning

confidence: 70%

“…T from related members of the genus Sphingomonas Taxa: 1, V2M44 T ; 2, S. mali NBRC 15500 T (data from Takeuchi et al, 1995); 3, S. kaistensis PB56 T (Kim et al, 2007); 4, S. oligophenolica S213 T (Ohta et al, 2004); 5, S. dokdonensis DS-4 T (Yoon et al, 2006); 6, S. pituitosa EDIV T (Denner et al, 2001); 7, S. pruni NBRC 15498 T (Takeuchi et al, 1995); 8, S. aerolata NW12 T (Busse et al, 2003); 9, S. asaccharolytica NBRC 15499 T (Takeuchi et al, 1995); 10, S. azotifigens Y39 T (Xie & Yokota, 2006 nidase, a-galactosidase, b-galactosidase, b-glucuronidase, b-glucosidase, a-glucosidase, a-mannosidase and a-fucosidase activities are absent. The predominant cellular fatty acids are C 17 : 1 v6c, summed feature 7 (comprising C 18 : 1 v7c, C 18 : 1 v9t and/or C 18 : 1 v12t), C 16 : 0 , C 17 : 1 v8c and C 15 : 0 2-OH.…”

Section: Cells Of Strain V2m44mentioning

confidence: 99%

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Sphingomonas changbaiensis sp. nov., isolated from forest soil

Zhang

Liu

2010

International Journal of Systematic and Evolutionary Microbiology

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Bacterial strain V2M44T was isolated from forest soil from the Changbai Mountains, HeilongjiangProvince, China. Cells of strain V2M44 T were Gram-negative, rod-shaped and 0.3-0.4 mm in diameter and 1.5-2.5 mm long. The cells were strictly aerobic and were motile by means of peritrichous flagella. Growth occurred at 20-33 6C (optimum, 29-31 6C), at pH 5-8 (optimum, pH 6.0-7.0) and in the presence of 0"0.1 % (w/v) NaCl (optimum, 0.05 %). Strain V2M44 T contained C 17 : 1 v6c (38.9 %) and summed feature 7 (comprising C 18 : 1 v7c, C 18 : 1 v9t and/or C 18 : 1 v12t, 31.5 %) as the major cellular fatty acids and Q-10 as the major respiratory quinone. The major polar lipids were sphingoglycolipid, phosphatidylmonomethylethanolamine, phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol along with two unidentified phospholipids and four unidentified glycolipids. The major component in the polyamine pattern was sym-homospermidine. The DNA G+C content was 65.8 mol%. Analysis of 16S rRNA gene sequences indicated that strain V2M44 T was phylogenetically related to members of the genus Sphingomonas, with sequence similarities ranging from 92.0-95.8 %.Based on these results, it is concluded that strain V2M44 T represents a novel species of the genus Sphingomonas, for which the name Sphingomonas changbaiensis sp. nov. is proposed. The type strain is V2M44 T (5CGMCC 1.7057 T 5NBRC 104936 T ).

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Section: Cells Of Strain V2m44mentioning

confidence: 70%

Section: Cells Of Strain V2m44mentioning

confidence: 99%

Sphingomonas changbaiensis sp. nov., isolated from forest soil

Zhang

Liu

2010

International Journal of Systematic and Evolutionary Microbiology

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“…Although the polar lipids of the type strains of both Sphingomonas echinoides and Sphingomonas oligophenolica have been analysed Ohta et al, 2004) For polyamine analysis, strain C16y T was grown in PYE medium (containing 0.3 % yeast extract, 0.3 % peptone; pH 7) at 20 u C. Polyamines were extracted as described by Busse & Auling (1988) and analysed as described by Busse et al (1997) ] sym-homospermidine (38.9), spermidine (13.0), spermine (3.4), 1,3-diaminopropane (1.6) and putrescine (0.5). The presence of symhomospermidine as a major compound in the polyamine pattern has been considered as a diagnostic feature of the genus Sphingomonas Takeuchi et al, 2001), and species recently assigned to this genus also share this trait (Busse et al, 2003(Busse et al, , 2005Xie & Yokota, 2006; Kämpfer et al, 2007; Huang et al, 2009;Roh et al, 2009;Nigam et al, 2010;Zhang et al, 2010). However, it has been reported that species of the related genus Sphingosinicella also contain sym-homospermidine as the major compound (Geueke et al, 2007) in the polyamine pattern, which hampers the classification of novel strains within this family.…”

Section: Sphingomonas Echinoides Dsm 1805mentioning

confidence: 99%

Sphingomonas glacialis sp. nov., a psychrophilic bacterium isolated from alpine glacier cryoconite

Zhang

Busse

Liu

et al. 2011

International Journal of Systematic and Evolutionary Microbiology

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A non-motile, rod-shaped, yellow bacterium, designated C16y T , was isolated from alpine glacier cryoconite. Cells behaved Gram-positively, were aerobic and psychrophilic (good growth at 1-25 6C). Phylogenetic analysis based on 16S rRNA gene sequences showed that strain C16y T was related to the genus Sphingomonas and had highest 16S rRNA gene sequence similarity with Sphingomonas oligophenolica JCM 12082 T (97.6 %) and Sphingomonas echinoides DSM 1805 T (97.2 %). DNA-DNA hybridization demonstrated that strain C16y T could not be considered as a member of either Sphingomonas oligophenolica or Sphingomonas echinoides. Strain C16y T contained Q-10 as the predominant ubiquinone and C 18 : 1 and C 16 : 0 were the dominant fatty acids. The polar lipid profile contained phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, sphingoglycolipid, five unidentified glycolipids, two unidentified aminophospholipids and two unidentified lipids. The major polyamines were the triamines sym-homospermidine and spermidine. The G+C content was 67.9 mol%. Combined data from phenotypic, phylogenetic and DNA-DNA relatedness studies demonstrated that strain C16y T is a representative of a novel species of the genus Sphingomonas, for which we propose the name Sphingomonas glacialis sp. nov. The type strain is C16y T (5DSM 22294 T 5CGMCC1.8957 T =CIP 110131 T ).The genus Sphingomonas was first proposed by Yabuuchi et al. (1990), who described five species and two genospecies. On the basis of phylogenetic, chemotaxonomic and physiological analyses, the genus Sphingomonas has been divided into four genera: Sphingomonas, Sphingobium, Novosphingobium and Sphingopyxis (Takeuchi et al., 2001). These genera differ in their polyamine pattern, nucleotide signatures and some phenotypic characteristics (e.g. nitrate reduction) and form four 16S rRNA gene sequence clusters (I-IV) with distance matrix analysis (Takeuchi et al., 2001). However, Yabuuchi et al. (2002) emphasized that the three genera, Sphingobium, Novosphingobium and Sphingopyxis, should be considered as later homotypic synonyms of species of the genus Sphingomonas because there was no phenotypic and phylogenetic evidence to support their proposal. So far, the nomenclature of Takeuchi et al.is generally used (Busse et al., 2003). At the time of writing, the genus Sphingomonas sensu stricto contains 45 species with validly published names. According to emended descriptions (Takeuchi et al., 2001;Yabuuchi et al., 2002;Busse et al., 2003), this genus accommodates aerobic, Gram-stain negative and non-spore-forming bacteria that are characterized chemotaxonomically by the absence of 3-hydroxy fatty acids and by the presence of 2-hydroxymyristic acid (C 14 : 0 2-OH), Q-10 as the respiratory quinone and sym-homospermidine as the key polyamine. Strain C16yT was isolated from an alpine glacier cryoconite collected from the Stubai Glacier near Innsbruck in Tyrol, Austria (altitude 2900 m). The strain was isolated as described previously (Margesin et al., 2002). Strain C16y T wa...

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“…Currently, more than 30 species with validly published names in the genus Sphingomonas sensu stricto have been isolated from various environments, including natural mineral water (Lee et al, 2001), plants (Takeuchi et al, 1995;Xie & Yokota, 2006) and soil (Ohta et al, 2004;Reddy & Garcia-Pichel, 2007;Yoon et al, 2006).…”

mentioning

confidence: 99%

Sphingomonas aestuarii sp. nov., isolated from tidal flat sediment

Roh

Kim

Nam

et al. 2009

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLO

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A novel bacterium (strain K4 T ) belonging to the genus Sphingomonas was isolated from tidal flat sediment in Korea. Its morphology, physiology, biochemical features and 16S rRNA gene sequence were characterized. Colonies of this strain are yellow in colour and the cells are rodshaped, exhibiting negative Gram staining. The strain grows at 0-5 % (w/v) NaCl and 20-35 6C, with optimal growth occurring at 0 % (w/v) NaCl and 30 6C. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain K4 T is associated with the genus Sphingomonas.Within the phylogenetic tree, this novel strain shares a branching point with Sphingomonas asaccharolytica Y-345 T , with which it shares 97.3 % 16S rRNA gene sequence similarity. The polyamine pattern predominantly contains the Sphingomonas-specific triamine symhomospermidine. Combined analysis of 16S rRNA gene sequences, DNA-DNA relatedness, physiological and biochemical test results identified genotypic and phenotypic differences between strain K4 T and other Sphingomonas species. On the basis of these differentiating features, it is concluded that strain K4 T (5KCTC 22050 T 5DSM 19475 T ) represents a novel species of the genus Sphingomonas, for which the name Sphingomonas aestuarii sp. nov. is proposed.

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Sphingomonas azotifigens sp. nov., a nitrogen-fixing bacterium isolated from the roots of Oryza sativa

Cited by 91 publications

References 24 publications

Sphingomonas changbaiensis sp. nov., isolated from forest soil

Sphingomonas changbaiensis sp. nov., isolated from forest soil

Sphingomonas glacialis sp. nov., a psychrophilic bacterium isolated from alpine glacier cryoconite

Sphingomonas aestuarii sp. nov., isolated from tidal flat sediment

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