Nocardioides allogilvus sp. nov., a novel actinobacterium isolated from a karst cave

Abstract

A novel actinobacterium, designated strain CFH 30205, was isolated from a soil sample collected from a karst cave in Luoyang, Henan Province, China. The taxonomic position of the strain was investigated by using a polyphasic approach. Cells of the strain were aerobic, Gram-stain-positive, non-motile and rod-shaped. The strain was found to be catalase- and oxidase-positive. Strain CFH 30205 grew optimally at 28 °C, pH 9.0 and in the presence of up to 1.5 % NaCl (w/v). On the basis of 16S rRNA gene sequence analysis, strain CFH 30205 was most closely related to the type strains of Nocardioides terrigena DS-17 (97.6 % sequence similarity) and Nocardioides sediminis MSL-01 (97.0 %). The DNA G+C content was determined to be 69.9 mol%. ll-2,6-Diaminopimelic acid was the diagnostic diamino acid in the cell-wall peptidoglycan. The whole-cell sugars were mannose, xylose and galactose. The major isoprenoid quinone was MK-8 (H4), and the major fatty acids (>10 %) were iso-C16 : 0 and anteiso-C14 : 0. The polar lipids comprised diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol and an unidentified phospholipid. On the basis of phenotypic, genotypic and phylogenetic data, strain CFH 30205 merits representation of a novel species of the genus Nocardioides, for which the name Nocardioides allogilvus sp. nov. is proposed. The type strain is CFH 30205 (=KCTC 49020=CGMCC 4.7457).

Nocardioides coralli sp. nov., an actinobacterium isolated from stony coral in the South China Sea

“…Members of the genus Nocardioides are Gram-stain-positive, aerobic, motile or non-motile, and coccoid or rod-shaped. The chemotaxonomic markers that characterize the genus Nocardioides include MK-8(H 4 ) as the predominant menaquinone, iso-C 16 : 0 as the major fatty acid, and diphosphatidylglycerol (DPG), phosphatidylglycerol (PG) and/or phosphatidylinositol (PI) as the major polar lipids [15,16]. Only 76 genomes of effectively published Nocardioides species are in the NCBI databank, with mean and median genome sizes of 4.57 and 4.49 Mb, with the smallest genome size (2.96 Mbp) found in N. baekrokdamisoli DSM 100725 T (isolated from soil of a crater lake), and the largest genome size (6.50 Mb) found in N. immobilis CCTCC AB2017083 T (isolated from iron mine soil).…”

Nocardioides dongkuii sp. nov. and Nocardioides lijunqiniae sp. nov., isolated from faeces of Tibetan antelope (Pantholops hodgsonii) and leaves of dandelion (Taraxacum officinale), respectively, on the Qinghai–Tibet Plateau

“…At the time of writing, this genus encompasses 122 validly published species with correct names (www.bacterio.net/genus/nocardioides). Nocardioides strains were isolated from various habitats including soil [2, 3], mud [4], marine sediment [5], glacier [6], caves [7], fresh water [8, 9], wastewater [10], faeces of wild animal [11–13], plant leaves [14] and roots [15]. Members of Nocardioides are Gram-stain-positive, rod- or coccus-shaped, non-acid-fast and either motile or non-motile with typical features including a high DNA G+C content (64.0–74.9 mol%), MK-8(H 4 ) as the predominant respiratory quinone, iso-C 16 : 0 as the major fatty acid and ll -2,6-diaminopimelic acid as the cell-wall peptidoglycan [16].…”

Nocardioides stalactiti sp. nov., isolated from a cave stalactite surface

“…ll -Diaminopimelic acid is the diagnostic amino acid of the peptidoglycan. The fatty acid profile includes both branched- and straight-chain fatty acids and iso-C 16 : 0 is the dominant fatty acid [3–14]. During a research programme on the biodiversity of prokaryotes in karst caves, strain 1.0914 T was isolated from a cave stalactite sample collected in Guizhou Province, southwest PR China.…”