title: Nocardioides cavernae sp. nov., an actinobacterium isolated from a karst cave.
abstract: A novel actinobacterial strain, designated YIM A1136T, was isolated from a soil sample collected from a karst cave in Xingyi county, Guizhou province, south-western China. The taxonomic position of the strain was investigated using a polyphasic approach. Cells of the strain were aerobic, Gram-staining-positive and rod-shaped. Colonies of the strain were circular, convex, opaque and yellowish-white in colour. On the basis of 16S rRNA gene sequence analysis, strain YIM A1136T was most closely related to the type strains Nocardioides ganghwensis JC2055T (98.3 % sequence similarity), Nocardioides exalbidus RC825T (98.2 %), Nocardioides alpinus Cr7-14T (98.2 %), Nocardioides hwasunensis HFW-21T (98.0 %), Nocardioides oleivorans DSM 16090T (97.9 %) and Nocardioides furvisabuli SBS-26T (97.8 %) and is therefore considered to represent a member of the genus Nocardioides. DNA-DNA hybridization values between strain YIM A1136T and related type strains of the genus Nocardioides were less than 70 %. ll-Diaminopimelic acid was the diagnostic diamino acid in the cell-wall peptidoglycan. The whole-cell sugars were galactose, glucose, mannose, rhamnose and ribose. The major isoprenoid quinone was MK-8(H4), while the major fatty acids (>10 %) were C16 : 0, summed feature 3 and summed feature 8. The polar lipids comprised diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol and two unidentified phospholipids. The genomic DNA G+C content was 71.4 mol%. On the basis of phenotypic, genotypic and phylogenetic data, strain YIM A1136T merits representation of a novel species of the genus Nocardioides, for which the name Nocardioides cavernae sp. nov. is proposed. The type strain is YIM A1136T (=KCTC 39551T=DSM 29950T).
authors.affiliation: Medical Faculty of Kunming University of Science and Technology, Kunming University of Science and Technology, Kunming 650500, PR China.|State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, PR China.
authors.forename: Ming-Xian
authors.initials: MX
authors.lastname: Han
authors.affiliation: State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, PR China.
authors.forename: Bao-Zhu
authors.initials: BZ
authors.lastname: Fang
authors.affiliation: State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, PR China.
authors.forename: Ye
authors.initials: Y
authors.lastname: Tian
authors.affiliation: College of Biology and Chemistry, Xingyi Normal University for Nationalities, Xingyi 562400, PR China.
authors.forename: Wan-Qin
authors.initials: WQ
authors.lastname: Zhang
authors.affiliation: State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, PR China.
authors.forename: Jian-Yu
authors.initials: JY
authors.lastname: Jiao
authors.affiliation: State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, PR China.
authors.forename: Lan
authors.initials: L
authors.lastname: Liu
authors.affiliation: State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, PR China.
authors.forename: Zi-Tong
authors.initials: ZT
authors.lastname: Zhang
authors.affiliation: State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, PR China.
authors.forename: Min
authors.initials: M
authors.lastname: Xiao
authors.affiliation: Medical Faculty of Kunming University of Science and Technology, Kunming University of Science and Technology, Kunming 650500, PR China.
authors.forename: Da-Qiao
authors.initials: DQ
authors.lastname: Wei
authors.affiliation: State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, PR China.
authors.forename: Wen-Jun
authors.initials: WJ
authors.lastname: Li
mesh_terms: D000192:Actinomycetales / Q000145:classification* / Q000235:genetics / Q000302:isolation & purification; D015373:Bacterial Typing Techniques; D001482:Base Composition; D059552:Caves / Q000382:microbiology*; D002681:China; D004269:DNA, Bacterial / Q000235:genetics; D003960:Diaminopimelic Acid / Q000737:chemistry; D005227:Fatty Acids / Q000737:chemistry; D009693:Nucleic Acid Hybridization; D010743:Phospholipids / Q000737:chemistry; D010802:Phylogeny; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D017422:Sequence Analysis, DNA; D012988:Soil Microbiology; D024482:Vitamin K 2 / Q000031:analogs & derivatives / Q000737:chemistry
chemical_list: D004269:DNA, Bacterial; D005227:Fatty Acids; D010743:Phospholipids; D012336:RNA, Ribosomal, 16S; D024482:Vitamin K 2; C024223:vitamin MK 8; D003960:Diaminopimelic Acid