Nocardioides pacificus sp. nov., isolated from deep sub-seafloor sediment

Abstract

A Gram-stain-positive, strictly aerobic, rod-shaped, non-motile bacterium, designated strain XH274(T), was isolated from a deep sub-seafloor sediment sample collected from the South Pacific Gyre (41° 58' S 163° 11' W) during the Integrated Ocean Drilling Program (IODP) Expedition 329. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain XH274(T) belonged to the genus Nocardioides and shared the highest 16S rRNA gene sequence similarity with Nocardioides kribbensis KSL-2(T) (96.81%), Nocardioides daedukensis MDN22(T) (96.74%) and Nocardioides psychrotolerans RHLT2-1(T) (96.61%). The DNA G+C content of strain XH274(T) was 74.6 mol%. The cell wall of strain XH274(T) contained ll-2,6-diaminopimelic acid as the diagnostic diamino acid, and ribose, glucose, galactose and mannose as the major whole-cell sugars. The major fatty acids were iso-C16 : 0, C18 : 1ω9c and C17 : 1ω8c. The major respiratory quinone was menaquinone-8(H4). The major polar lipids were phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and two unknown phospholipids. On the basis of data from the polyphasic analysis, strain XH274(T) is considered to represent a novel species in the genus Nocardioides, for which the name Nocardioides pacificus sp. nov. is proposed. The type strain is XH274(T) ( = DSM 27278(T) = JCM 19260(T)).