Chryseobacterium profundimaris sp. nov., a new member of the family Flavobacteriaceae isolated from deep-sea sediment

Abstract

A Gram-stain negative, strictly aerobic, rod-shaped, non-motile bacterium, designated strain DY46(T), was isolated from Atlantic Ocean sediment. The isolate was found to grow in medium containing 0-3.0 % (w/v) NaCl (optimally at 0-1.0 %), at 4-37 °C and pH 5.0-8.0. Chemotaxonomic analysis detected MK-6 as the sole isoprenoid quinone. The major fatty acids were identified iso-C15:0, iso-C17:0 3-OH, iso-C17:1 ω9c and summed feature 3 (comprising iso-C15:0 2-OH and/or C16:1 ω7c). The DNA G + C content was determined to be 40.7 mol %. Phylogenetic analyses based on the 16S rRNA gene sequence indicated that strain DY46(T) falls within the cluster comprising Chryseobacterium species. The levels of 16S rRNA gene sequence similarity between strain DY46(T) and the type strains of the Chryseobacterium species with validly published names ranged from 92.4 to 99.1 %, the high values (>97 %) being with Chryseobacterium takakiae A1-2(T) (99.1 %), C. taiwanense BCRC 17412(T) (98.0 %), C. taeanense PHA3-4(T) (97.3 %), C. hispalense DSM 25574(T) (97.3 %), C. camelliae THG C4-1(T) (97.2 %), C. gregarium DSM 19109(T) (97.1 %) and C. wanjuense R2A10-2(T) (97.0 %). The DNA-DNA relatedness values between strain DY46(T) and the type strains of the above closely related species were 47, 57, 24, 34, 6, 40 and 21 %, respectively. On the basis of phenotypic and genotypic characteristics, strain DY46(T) represents a novel member within the genus Chryseobacterium, for which the name Chryseobacterium profundimaris is proposed. The type strain is DY46(T) (=CGMCC 1.12663(T) = JCM 19801(T)).

Analysis of 1,000 Type-Strain Genomes Improves Taxonomic Classification of Bacteroidetes

“…The description is as before (Xu et al, 2015) with the following modification. The G+C content of the type-strain genome is 36.7%, its approximate size 4.33 Mbp, its IMG deposit 2724679817.…”

Mesobacterium pallidum gen. nov., sp. nov., Heliomarina baculiformis gen. nov., sp. nov. and Oricola indica sp. nov., three novel Alphaproteobacteria members isolated from deep-sea water in the southwest Indian ridge

“…The Biolog Gen III Microplate system was used to determine substrate utilization according to the manufacturer's manual. Hydrolysis of starch (1.0 %, w/v), gelatin (1.0 %, w/v), l-tyrosine (0.5 %, w/v), carboxymethyl-cellulose (CMC, 1.0 %, w/v) and Tween 20, 40, 60 and 80 (1.0 %, w/v) were examined according to Xu et al [42]. Nitrate and nitrite reduction was determined by Griess A solution (0.5 g p-aminobenzenesulfonic acid with 150 ml (10 %, v/v) acetic acid), Griess B solution (0.1 g α-naphthylamine with 150 ml (10 %, v/v) acetic acid and 20 ml distilled water) and diphenylamine solution (0.5 g diphenylamine with 100 ml concentrated sulfuric acid and 20 ml distilled water) following cultivation in liquid medium added with 0.5 % (w/v) nitrate or 0.01 % (w/v) nitrite for 5 days.…”

Pontibrevibacter nitratireducens gen. nov., sp. nov., a member of the family Rhodobacteraceae isolated from seawater of the Indian Ocean and intertidal zone

“…PHB granules was detected by fluorescence microscopy (DMi8; Leica) after staining with Nile blue [35]. Oxidase activity was tested by oxidation of p -aminodimethylaniline oxalate solution (1 %, w/v) [36], and catalase activity was identified from the formation of bubbles in the hydrogen peroxide solution (3 %, v/v) [37]. Hydrolysis of gelatin (1 %, w/v), starch (0.2 %, w/v), casein (100 g l −1 skimmed milk; BD), Tween 20, Tween 40 and Tween 80 (1 %, w/v) was examined according to Xu et al [37].…”

“…Growth at different pH (5.0-10.5 with 0.5 pH unit intervals) was determined in marine broth 2216 by adding appropriate biological buffers: MES (pH 5.0-6.0), PIPES (pH 6.5-7.5), Tricine (pH 8.0-8.5) and CAPSO (pH 9.0-10.5). The temperature range (4,10,15,20,25,30,35,37,40,45 and 50 °C) for growth was investigated in MB. Cell motility was tested using a semisolid agar medium (per litre: 5 g agar, 37.4 g marine broth 2216) [34].…”