Kocuria subflava sp. nov., isolated from marine sediment from the Indian Ocean

• Published in: Antonie van Leeuwenhoek 2015-12, Vol.108 (6), p.1349-1355
• Main Authors: Jiang, Zhao, Zhang, Wei-Hua, Yuan, Chang-Guo, Chen, Jia-Yang, Cao, Li-Xiang, Park, Dong-Jin, Xiao, Min, Kim, Chang-Jin, Li, Wen-Jun
• Format: Article
• Language: English
• Subjects: Aerobiosis; Amino Acids - analysis; Bacterial Typing Techniques; Base Composition; Biomedical and Life Sciences; Cell Wall - chemistry; Cluster Analysis; Cytosol - chemistry; Deoxyribonucleic acid; DNA; DNA, Bacterial - chemistry; DNA, Bacterial - genetics; DNA, Ribosomal - chemistry; DNA, Ribosomal - genetics; fatty acids; Fatty Acids - analysis; Geologic Sediments - microbiology; Gram-positive bacteria; hydrogen; Hydrogen-Ion Concentration; Indian Ocean; isoprenoids; Kocuria polaris; Kocuria rosea; Life Sciences; Lipids; Locomotion; Marine sediments; Medical Microbiology; Microbiology; Micrococcaceae - classification; Micrococcaceae - genetics; Micrococcaceae - isolation & purification; Micrococcaceae - physiology; Molecular Sequence Data; new species; Nucleic Acid Hybridization; nucleotide sequences; Oceans; Original Paper; Peptidoglycan - chemistry; peptidoglycans; phospholipids; Phospholipids - analysis; Phylogenetics; Phylogeny; Plant Sciences; quinones; Quinones - analysis; ribosomal RNA; RNA, Ribosomal, 16S - genetics; Sediment samplers; Sequence Analysis, DNA; Sodium chloride; Sodium Chloride - metabolism; Soil Science & Conservation; Taxonomy; Temperature
• ISSN: 0003-6072; 1572-9699
• DOI: 10.1007/s10482-015-0587-z

A novel Gram-staining positive, catalase-positive, oxidase-negative, aerobic, non-motile coccus, designated strain YIM 13062ᵀ, was isolated from a marine sediment sample collected from the Indian Ocean. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YIM 13062ᵀ belongs to the genus Kocuria, and is closely related to Kocuria polaris NBRC 103063ᵀ (97.8 % similarity), Kocuria rosea NBRC 3768ᵀ (97.6 % similarity) and Kocuria carniphila JCM 14118ᵀ (97.4 % similarity). The strain grew optimally at 28 °C, pH 8.0 and in the presence of 2–4 % (w/v) NaCl. Cell-wall peptidoglycan type was Lys–Ala₃ (type A3α). The major isoprenoid quinones were MK-6(H₂) and MK-7(H₂). The polar lipids of strain YIM 13062ᵀ consisted of diphosphatidylglycerol (DPG), phosphatidylglycerol (PG), one unidentified phospholipid (PL), one unidentified aminophospholipid (APL), two unidentified aminolipids (AL) and four unidentified lipids (L). Major fatty acids of the novel isolate were anteiso-C₁₅:₀, iso-C₁₄:₀ and C₁₈:₁ 2OH. The genomic DNA G+C content of strain YIM 13062ᵀ was 68.0 mol%. The level of DNA–DNA relatedness between strain YIM 13062ᵀ and K. polaris NBRC 103063ᵀ, K. rosea NBRC 3768ᵀ, K. carniphila JCM 14118ᵀ were 53.2, 48.8 and 42.6 %, respectively. On the basis of genotypic and phenotypic data, it is apparent that strain YIM 13062ᵀ represents a novel species of the genus Kocuria, for which the name Kocuria subflava sp. nov. is proposed. The type strain is YIM 13062ᵀ (=CGMCC 4.7252ᵀ=KCTC 39547ᵀ).