Description of Sphingobium psychrophilum sp. nov., a cold-adapted bacterium isolated from Arctic soil. Issue 3 (17th March 2021)

• Record Type: Journal Article
• Authors: Dahal, Ram Hari; Chaudhary, Dhiraj Kumar; Kim, Dong-Uk; Kim, Jaisoo
• Is Part Of: International journal of systematic and evolutionary microbiology. Volume 71:Issue 3(2021)
• Publication Date: 2021-03-17
• Subjects: Arctic soil -- cold adaptation -- psychrotolerant -- Sphingobium psychrophilum; Microbiology -- Periodicals; Microbiology -- Classification -- Periodicals; 579
• DOI: 10.1099/ijsem.0.004705
• Languages: English
• ISSNs: 1466-5026

Abstract

Abstract : A yellow-coloured, Gram-stain-negative, non-sporulating, psychrotolerant and motile bacterium, designated AR-3-1 T, was isolated from the Arctic soil of Cambridge Bay, Nunavut, Canada. Strain AR-3-1 T could grow at 4–32 °C and pH 5.0– 11.0. Phylogenetic analysis based on its 16S rRNA gene sequence indicated that strain AR-3-1 T formed a lineage within the family Sphingomonadaceae and clustered as a member of the genus Sphingobium . The closest members within this genus were Sphingobium cupriresistens CU4 T (98.1 % sequence similarity), Sphingobium vermicomposti VC-230 T (97.6 %) and Sphingobium lactosutens DS20 T (97.5 %). The only respiratory quinone was the ubiquinone Q-10. Spermidine was the predominant polyamine. The principal cellular fatty acids were summed feature 8 (C18 : 1 ω 7 c and/or C18 : 1 ω 6 c ), summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1 ω 7 c ), C16 : 0 and C14 : 0 2-OH. The major polar lipids were phosphatidylethanolamine, phosphatidylmonomethylethanolamine, phosphatidyldimethylethanolamine, diphosphatidylglycerol, phosphatidylglycerol, sphingoglycolipid and phosphoglycolipid. The DNA G+C content was 63.1 %. The average nucleotide identity and in silico DNA–DNA hybridization relatedness values between strain AR-3-1 T and its most closely related genus members were ≤89.6 and 39.6 %, respectively. The genome was 5 162 327 bp long, with 83 scaffolds and 4824 protein-coding genes. The genome showed six putative biosynthetic gene clusters responsible for various secondary metabolites. Based on this polyphasic study, strain AR-3-1 T represents a novel species within the genus Sphingobium, for which the name Sphingobium psychrophilum sp. nov. is proposed. The type strain is AR-3-1 T (=KACC 21613 T =NBRC 114604 T ).