Sphingomonas histidinilytica sp. nov., isolated from a hexachlorocyclohexane dump site (original) (raw)
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Sphingomonas laterariae sp. nov., isolated from a hexachlorocyclohexane-contaminated dump site
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, 2012
A Gram-staining-negative, non-motile, cream-coloured and rod-shaped bacterium, designated strain LNB2 T , was isolated from a hexachlorocyclohexane-contaminated dump site in the village of Ummari, in northern India. The taxonomic position of the novel strain was investigated by using a polyphasic approach. In a phylogenetic analysis based on 16S rRNA gene sequences, strain LNB2 T appeared to be most closely related to Sphingomonas haloaromaticamans A175 T (98.0 % sequence similarity) and Sphingomonas histidinilytica UM2 T (97.3 %). In DNA-DNA hybridizations, the levels of DNA-DNA relatedness between the novel strain and S. haloaromaticamans A175 T and S. histidinilytica UM2 T were found to be low (8.6 % and 5.6 %, respectively). The genomic DNA G+C content of strain LNB2 T was 61.0 mol%. The novel strain's predominant fatty acids were summed feature 8 (C 18 : 1 v7c and/or C 18 : 1 v6c), C 16 : 0 , summed feature 3 (C 16 : 1 v7c and/or C 16 : 1 v6c), C 14 : 0 2-OH, C 17 : 1 v6c and 11-methyl C 18 : 1 v7c. The major ubiquinone was Q-10, the predominant polyamine was homospermidine, and the major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, sphingoglycolipid, phosphatidylethanolamine and phosphatidyldimethylethanolamine. Based on the phylogenetic, biochemical and chemotaxonomic evidence and the results of the DNA-DNA hybridizations, strain LNB2 T represents a novel species of the genus Sphingomonas, for which the name Sphingomonas laterariae sp. nov. is proposed. The type strain is LNB2 T (5MTCC 10873 T 5CCM 7880 T 5DSM 25432 T ).
Sphingomonas indica sp. nov., isolated from hexachlorocyclohexane (HCH)-contaminated soil
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, 2012
A bacterial strain, designated Dd16T, was isolated from a hexachlorocyclohexane (HCH) dumpsite at Lucknow, India. Cells of strain Dd16T were Gram-stain-negative, non-motile, rod-shaped and yellow-pigmented. Phylogenetic analysis based on 16S rRNA gene sequences showed that the strain belonged to the genus Sphingomonas in the family Sphingomonadaceae , as it showed highest sequence similarity to Sphingomonas asaccharolytica IFO 15499T (95.36 %), Sphingosinicella vermicomposti YC7378T (95.30), ‘Sphingomonas humi’ PB323 (95.20 %), Sphingomonas sanxanigenens NX02T (95.14 %) and Sphingomonas desiccabilis CP1DT (95.00 %). The major fatty acids were summed feature 3 (C16 : 1ω7c/C16 : 1ω6c) C14 : 0 2-OH, summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c) and C16 : 0. The polar lipid profile of strain Dd16T also corresponded to those reported for species of the genus Sphingomonas (phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylcholine, phosphatidylglycerol, and a sphingoglycolipi...
… of systematic and …, 2005
Hexachlorocyclohexane-degrading bacterial strains Sphingomonas paucimobilis B90A, UT26 and Sp+, having similar lin genes, represent three distinct species, Sphingobium indicum sp. nov., Sphingobium japonicum sp. nov. and Sphingobium francense sp. nov., and reclassification of [Sphingomonas] chungbukensis as Sphingobium chungbukense comb. nov.
International Journal of Systematic and Evolutionary Microbiology, 2005
Hexachlorocyclohexane-degrading bacterial strains Sphingomonas paucimobilis B90A, UT26 and Sp+, having similar lin genes, represent three distinct species, Sphingobium indicum sp. nov., Sphingobium japonicum sp. nov. and Sphingobium francense sp. nov., and reclassification of [Sphingomonas] chungbukensis as Sphingobium chungbukense comb. nov.
Sphingopyxis ummariensis sp. nov., isolated from a hexachlorocyclohexane dump site
International journal of systematic and evolutionary microbiology, 2010
A Gram-negative, motile, rod-shaped, yellow-pigmented bacterium, strain UI2 T , was isolated from a hexachlorocyclohexane (HCH) dump site located in Ummari, in northern India. 16S rRNA gene sequence analysis revealed that strain UI2 T belongs to the genus Sphingopyxis and showed highest 16S rRNA gene sequence similarity with Sphingopyxis terrae IFO 15098 T (98.6 %). DNA-DNA relatedness values between strain UI2 T and Sphingopyxis terrae IFO 15098 T and other related strains were found to be less than 46 %. The major cellular fatty acids of strain UI2 T were C 18 : 1 v7c (28.3 %), C 16 : 0 (14.4 %), 11-methyl C 18 : 1 v7c (10.9 %), C 17 : 1 v6c (9.6 %) and summed feature 3 (consisting of C 16 : 1 v7c and/or C 15 : 0 iso 2-OH; 14.7 %). The DNA G+C content of strain UI2 T was 68 mol%. On the basis of DNA-DNA hybridization, phenotypic characteristics and phylogenetic analysis, strain UI2 T is found to represent a novel species of the genus Sphingopyxis, for which the name Sphingopyxis ummariensis sp. nov. is proposed. The type strain is UI2 T (5CCM 7428 T 5MTCC 8591 T ).
Sphingomonas agri sp. nov., a bacterium isolated from soil
International Journal of Systematic and Evolutionary Microbiology
A Gram-reaction-negative, aerobic, non-motile, white (translucent) and rod-shaped bacterium (designated HKS-06 T) isolated from soil was characterized by a polyphasic approach to clarify its taxonomic position. Strain HKS-06 T was observed to grow optimally at 30 C and at pH 6.5-7.0 on R2A agar medium. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain HKS-06 T belongs to the genus Sphingomonas and is most closely related to Sphingomonas lutea JS5 T (97.4 % similarity). The G+C content of the genomic DNA was 64.1 mol%. Chemotaxonomic data [major quinone (Q-10), major polar lipids (phosphatidylethanolamine, phosphatidylglycerol, sphingoglycolipid, phosphatidylcholine, unknown polar lipid) and major fatty acids (summed feature 8, comprising C 18 : 1 !7c/!6c and/or C 18 : 1 !6c, C 18 : 0 3-OH and C 16 : 0)] supported the affiliation of strain HKS-06 T to the genus Sphingomonas. Moreover, the physiological and biochemical results and low level of DNA-DNA relatedness [between strain HKS06 T and S. lutea JS5 T (20.24±1.2 %)] allowed the phenotypic and genotypic differentiation of strain HKS-06 T from recognized species of the genus Sphingomonas. The new isolate therefore represents a novel species, for which the name Sphingomonas agri sp. nov. is proposed. The type strain is HKS-06 T (=KACC 18880 T =LMG 29563 T).
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, 2003
Sphingomonas aurantiaca sp. nov., Sphingomonas aerolata sp. nov. and Sphingomonas faeni sp. nov., air-and dustborne and Antarctic, orangepigmented, psychrotolerant bacteria, and emended description of the genus Sphingomonas Seven psychrotolerant, Gram-negative bacterial strains, five dust-and airborne isolates (MA101b T , MA306a, MA405/90, MA-olki T and NW12 T ) and two from the Antarctic (Ant 20 and M3C203B-B), were subjected to a polyphasic characterization to determine their taxonomic position. High 16S rDNA sequences similarities (99?3-100?0 %) demonstrated that they were closely related to each other. Phylogenetic evaluation of their 16S rDNA sequences revealed that they are members of the genus Sphingomonas sensu stricto, encompassing a separate branch within this genus. They shared 94?4-96?6 % 16S rDNA sequence similarity with species of this genus. All Sphingomonas-specific signature nucleotides were also detected. The presence of the major ubiquinone Q-10, sym-homospermidine as the predominant polyamine, Sphingomonadaceae-specific sphingoglycolipid in the polar lipid patterns and a fatty acid profile containing C 14 : 0 2-OH and lacking 3-OH fatty acids were in agreement with identification of these strains as members of the genus Sphingomonas sensu stricto. Results from DNA-DNA hybridizations and comparison of protein patterns indicated that the seven strains are members of three distinct species. One species is represented by strains MA101b T , MA306a and MA405/90, the second by strains NW12 T , Ant 20 and M3C203B-B and the third by one strain, MA-olki T . Their distinction at the species level was also supported by results of biochemical characterization and partly supported by riboprints and genomic fingerprints. On the basis of these results, three novel species of the genus Sphingomonas are proposed: Sphingomonas aurantiaca sp. nov., consisting of strains MA101b T (=DSM 14748 T =LMG 21377 T ), MA306a and MA405/90 (=DSM 14749=LMG 21378), Sphingomonas faeni sp. nov. MA-olki T The EMBL accession numbers for the 16S rDNA sequences of Sphingomonas aurantiaca strains MA101b T , MA306a and MA405/90, Sphingomonas faeni MA-olki T and Sphingomonas aerolata NW12 T are respectively AJ429236-AJ429240.
International journal of systematic and evolutionary microbiology, 2012
In the present study, a yellow-pigmented, Gram-negative, short rod-shaped novel bacterium that was capable of degrading a wide range of polycyclic aromatic hydrocarbons (naphthalene, phenanthrene and pyrene) was isolated from agricultural soil located in Yunlin County, Taiwan. Comparative 16S rRNA gene sequence analysis positioned the novel strain in the genus Sphingomonas as an independent lineage adjacent to a subclade containing Sphingomonas fennica K101 T , Sphingomonas histidinilytica UM2 T , Sphingomonas wittichii RW1 T and Sphingomonas haloaromaticamans A175 T . 16S rRNA gene sequence analysis of strain CC-Nfb-2 T showed highest sequence similarity to S. fennica K101 T (96.2 %), S. histidinilytica UM2 T (96.1 %), S. wittichii RW1 T (95.9 %), S. haloaromaticamans A175 T (95.7 %), and Sphingobium ummariense RL-3 T (94.7 %); lower sequence similarities were observed with strains of all other Sphingomonas species. The strain contained phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, sphingoglycolipid and diphosphatidylglycerol. The predominant fatty acids were summed feature 8 (C 18 : 1 v7c and/or C 18 : 1 v6c) C 16 : 0 and 11-methyl C 18 : 1 v7c; C 14 : 0 2-OH was the major 2-hydroxy fatty acid. Previously, these lipids have been found to be characteristic of members of the genus Sphingomonas. The serine palmitoyl transferase gene (spt) was also detected and sphingolipid synthesis was confirmed. The predominant isoprenoid quinone system was ubiquinone (Q-10) and the isolate contained sym-homospermidine as the major polyamine. The DNA G+C content of the isolate was 62.8±0.8 mol%. On the basis of chemotaxonomic, phenotypic and phylogenetic data, strain CC-Nfb-2 T represents a novel species within the genus Sphingomonas, for which the name Sphingomonas formosensis sp. nov. is proposed; the type strain is CC-Nfb-2 T (5BCRC 80272 T 5DSM 24164 T ).
Sphingomonas flavus sp. nov. isolated from road soil
Archives of microbiology, 2015
A yellow-colored, Gram-negative, strictly aerobic, non-motile, rod-shaped bacterium, designated THG-MM5(T), was isolated from road soil in Yongin-si, Gyeonggi-do, Republic of Korea. Based on 16S rRNA gene sequence, strain THG-MM5(T) was moderately related to Sphingomonas sediminicola KACC 15039(T) (96.1 %), Sphingomonas ginsengisoli KACC 16858(T) (96.1 %) and Sphingomonas jaspsi KACC 13230(T) (96.0 %). Chemotaxonomic data revealed that strain THG-MM5(T) possesses ubiquinone-10 as the only respiratory quinone, sym-homospermidine as the major polyamine and summed feature 3 (C16:1 ω7c and/or C16:1 ω6c), C18:1 ω7c and C16:0 as the major fatty acids. The polar lipid profile included sphingoglycolipid. The DNA G + C content was 60.7 mol%. These data, together with phenotypic characterization, corroborated the affiliation of strain THG-MM5(T) to the genus Sphingomonas. Thus, the isolate represents a novel species, for which the name Sphingomonas flavus sp. nov. is proposed, with THG-MM5(T)...