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

Abstract

A novel Gram-staining positive, catalase-positive, oxidase-negative, aerobic, non-motile coccus, designated strain YIM 13062(T), was isolated from a marine sediment sample collected from the Indian Ocean. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YIM 13062(T) belongs to the genus Kocuria, and is closely related to Kocuria polaris NBRC 103063(T) (97.8 % similarity), Kocuria rosea NBRC 3768(T) (97.6 % similarity) and Kocuria carniphila JCM 14118(T) (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 13062(T) 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 13062(T) was 68.0 mol%. The level of DNA-DNA relatedness between strain YIM 13062(T) and K. polaris NBRC 103063(T), K. rosea NBRC 3768(T), K. carniphila JCM 14118(T) were 53.2, 48.8 and 42.6 %, respectively. On the basis of genotypic and phenotypic data, it is apparent that strain YIM 13062(T) represents a novel species of the genus Kocuria, for which the name Kocuria subflava sp. nov. is proposed. The type strain is YIM 13062(T) (=CGMCC 4.7252(T)=KCTC 39547(T)).

Comparative Genomics Provides Insights Into the Marine Adaptation in Sponge-Derived Kocuriaflava S43

“…Taxonomically, Kocuria belongs to the family Micrococcaceae and comprises a group of coccoid actinomycetes with high environmental adaptability. Kocuria species have been recovered from various habitats, particularly marine environments such as sediments ( Bala et al, 2012 ; Jiang et al, 2015 ), seawater ( Seo et al, 2009 ), sponges ( Abdelmohsen et al, 2014 ), and corals ( Mahmoud and Kalendar, 2016 ). In our efforts of isolating actinomycetes from sponges collected from South China Sea ( Li and Liu, 2006 ; Sun et al, 2015 ), Kocuria flava S43 was isolated from a coastal sponge Siphonochalina sp.…”

Draft Genome Sequences of the Kocuria subflava Type Strain KCTC 39547 and Kocuria sp. Strain JC486, a Newly Isolated Strain from a Wild Ass Sanctuary in Gujarat, India

“…Here, we report the genome sequences of two strains belonging to the genus Kocuria , namely, Kocuria subflava KCTC 39547 T , which was previously isolated from marine sediment from the Indian Ocean ( 4 ) and for which the genome sequence was not available, and strain JC486, which was isolated by our group from a sediment sample collected from a salt marsh located in a wild ass sanctuary in Dhrangadhra, Gujarat, India (22°98′N, 71°47′E). One gram of serially diluted (in 0.8 % [wt/vol] NaCl) sample plated (at 10 −5 dilution) on nutrient agar (NA) (HiMedia M001) and incubated for 2 weeks at 30°C yielded yellow colonies, which were further purified by repeated streaking.…”

Kocuria Bacterial Isolates from Radioactive Springs of Jáchymov spa (Joachimsthal) as Sources of Polyunsaturated Fatty Acids

“…To date, more than 18 species of Kocuria were identified based on the 16S rRNA gene studies (Kandi et al, ). Bacteria of this genus were isolated from, for example, freshwater fish gut microbiota (Jami et al, ), marine sediment sample (Bala et al, ), saline and alkaline soils (Wang et al, ), unconsolidated subsurface sediments (Crocker et al, ), saline soil (Tang et al, ), cattail leaves collected in river (Kovacs et al, ), seawater collected on the coast of Korea (Seo et al, ), marine sediment from the Indian Ocean (Jiang et al, ), a deep‐sea hydrothermal plume (Zhang et al, ), and marine sediment (Kim et al, ).…”