Hexachlorocyclohexane-degrading bacterial strains Sphingomonas paucimobilis B90A, UT26 and Sp+, having similar lin genes, represent three distinct species (original) (raw)
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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.
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, 2001
Phylogenetic analyses of 16S rRNA gene sequences by distance matrix and parsimony methods indicated that the currently known species of the genus Sphingomonas can be divided into four clusters. Some chemotaxonomic and phenotypic differences were noted among these clusters. Three new genera, Sphingobium, Novosphingobium and Sphingopyxis, are proposed in addition to the genus Sphingomonas sensu stricto. The genus Sphingobium is proposed to accommodate Sphingomonas chlorophenolica, Sphingomonas herbicidovorans and Sphingomonas yanoikuyae. The genus Novosphingobium is proposed for Sphingomonas aromaticivorans, Sphingomonas capsulata, Sphingomonas rosa, Sphingomonas stygia, Sphingomonas subarctica and Sphingomonas subterranea. Sphingomonas macrogoltabidus and Sphingomonas terrae are reclassified in the genus Sphingopyxis. The type species of Sphingobium, Novosphingobium and Sphingopyxis are Sphingobium yanoikuyae, Novosphingobium capsulatum and Sphingopyxis macrogoltabida, respectively.
Sphingobium baderi sp. nov., isolated from a hexachlorocyclohexane dump site
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, 2013
A Gram-stain-negative ; , rod-shaped and white-coloured bacterial strain, designated LL03 T , was isolated from hexachlorocyclohexane-contaminated soil at Spolana, Neratovice, Czech Republic, where lindane was formerly produced. Strain LL03 T was found to be a degrader of a-, c-and disomers of hexachlorocyclohexane, although no significant degradation activity was observed for the b-isomer. A neighbour-joining tree based on 16S rRNA gene sequences showed that strain LL03 T occupied a distinct phylogenetic position in the Sphingobium cluster, showing the highest similarity with Sphingobium wenxiniae CC-FH12-1 T < (99.2 %). The DNA G+C content of strain LL03 T was 67.0 mol%. DNA-DNA relatedness values of strain LL03 T with its close phylogenetic neighbours were below the threshold level of 70 %, supporting its identification as a representative of a novel species of the genus Sphingobium. The predominant respiratory quinone was ubiquinone Q-10. The polar lipid profile of strain LL03 T also corresponded to those reported for other Sphingobium species (phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylcholine, phosphatidylglycerol, phosphatidylmonomethylethanolamine and sphingoglycolipid), supporting its identification as a member of the genus Sphingobium. Spermidine was identified as the major polyamine. The predominant fatty acids were 16 : 0, summed feature 3 (16 : 1v7c and/ or 16 : 1v6c), summed feature 8 (18 : 1v7c and/or 18 : 1v6c) and 14 : 0 2-OH. The polar lipid pattern, the presence of spermidine and ubiquinone Q-10, the predominance of the cellular fatty acids C 18 : 1 v7c, C 16 : 0 and C 14 : 0 2-OH and the G+C content of the genomic DNA supported the affiliation of the strain to the genus Sphingobium. The results obtained after DNA-DNA hybridization, biochemical and physiological tests clearly distinguished it from closely related species of the genus Sphingobium. Therefore, strain LL03 T represents a novel species of the genus Sphingobium for which the name Sphingobium baderi LL03 T sp. nov. is proposed; the type strain is LL03 T (5CCM 7981 T 5DSM 25433 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...
Sphingomonas histidinilytica sp. nov., isolated from a hexachlorocyclohexane dump site
International Journal of Systematic and Evolutionary Microbiology, 2009
A Gram-negative, non-spore-forming, cream-coloured bacterial strain, UM2T, was isolated from an open hexachlorocyclohexane (HCH) dump site at Ummari village in Lucknow, India. Data generated from a polyphasic approach including phenotypic, genotypic and chemotaxonomic analyses confirmed that strain UM2T belonged to the genus Sphingomonas. The highest similarity found to the 16S rRNA gene sequence of strain UM2T was 99.4 %, with Sphingomonas wittichii DSM 6014T, whereas the DNA–DNA relatedness value between these strains was 31 %, indicating that they represent separate species. The DNA G+C content of UM2T was 66.9 mol%. The respiratory pigment ubiquinone Q-10 was present. The predominant fatty acids were summed feature 8 (C18 : 1 ω6c and/or C18 : 1 ω7c; 32.9 %), C19 : 0 cyclo ω8c (15.5 %) and C16 : 0 (12.1 %). The major polar lipids were phosphatidylcholine, phosphatidylglycerol and phosphatidyldimethylethanolamine. sym-Homospermidine was the major polyamine observed. On the basis o...
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 ).