Name: Hymenobacter bucti DK6-66
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 159882

Type strain:

Species: Hymenobacter bucti

Strain Designation: DK6-66

Culture col. no.: CGMCC 1.15795, KCTC 52629

Strain history: <- Jie Lv, Beijing Univ. of Chemical Technology

NCBI tax ID(s): 1844114 (species)

Section

Hymenobacter bucti DK6-66 is an obligate aerobe, psychrophilic, Gram-negative bacterium that forms circular colonies and was isolated from From subsurface sandstone sediment, the permafrost region of the Qilian Mountain.

colony-forming
Gram-negative
rod-shaped
obligate aerobe
psychrophilic
16S sequence
Bacteria

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacteroidota*
	Class	*Cytophagia*
	Order	*Cytophagales*
	Family	*Hymenobacteraceae*
	Genus	*Hymenobacter*
	Species	**Hymenobacter bucti**
	Full Scientific Name (LPSN)	Hymenobacter bucti Chen et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #66610]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative

[Ref.: #66610]	Cell length	1-1.6 µm

[Ref.: #66610]	Cell width	0.5-0.6 µm

[Ref.: #66610]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #66610]	Motility	no
[Ref.: #67771]	Motility	no

[Ref.: #66610]	Colony color	red-pink
[Ref.: #66610]	Colony shape	circular
[Ref.: #66610]	Incubation period	5 days
[Ref.: #66610]	Cultivation medium used	R2A medium

Information on culture and growth conditions Culture and growth conditions

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Culture medium

Reasoner's 2A agar (R2A)

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Culture medium growth

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Culture medium

LB (Luria-Bertani) MEDIUM

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Culture medium growth

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Culture medium

Nutrient agar (NA)

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Culture medium growth

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Culture medium

tryptic soy agar (TSA)

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Culture medium growth

		Temperature
[Ref.: #66610]	optimum	22 °C
[Ref.: #66610]	growth	10-28 °C
[Ref.: #67771]	growth	22 °C

[Ref.: #66610]	Temperature range	psychrophilic
[Ref.: #67771]	Temperature range	psychrophilic

	pH	Kind of pH		pH
[Ref.: #66610]			optimum	7
[Ref.: #66610]			growth	6.0-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #66610]	Oxygen tolerance	obligate aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #66610]	Ability of spore formation	no
[Ref.: #67771]	Ability of spore formation	no

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #66610]		NaCl		growth	0-0.5	%(w/v)
[Ref.: #66610]		NaCl		optimum	0	%(w/v)

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Observation

quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #66610]	adipate ChEBI	-	assimilation
[Ref.: #66610]	amygdalin ChEBI	+	builds acid from
[Ref.: #66610]	arabinose ChEBI	-	assimilation
[Ref.: #66610]	arbutin ChEBI	+	builds acid from
[Ref.: #66610]	carboxymethylcellulose ChEBI	-	hydrolysis
[Ref.: #66610]	casein	-	hydrolysis
[Ref.: #66610]	cellobiose ChEBI	+	builds acid from
[Ref.: #66610]	D-arabitol ChEBI	-	builds acid from
[Ref.: #66610]	D-fucose ChEBI	-	builds acid from
[Ref.: #66610]	D-xylose ChEBI	-	builds acid from
[Ref.: #66610]	decanoate ChEBI	-	assimilation
[Ref.: #66610]	erythritol ChEBI	-	builds acid from
[Ref.: #66610]	esculin ChEBI	+	builds acid from
[Ref.: #66610]	fructose ChEBI	+	builds acid from
[Ref.: #66610]	galactitol ChEBI	-	builds acid from
[Ref.: #66610]	galactose ChEBI	-	builds acid from
[Ref.: #66610]	gelatin ChEBI	-	hydrolysis
[Ref.: #66610]	gentiobiose ChEBI	-	builds acid from
[Ref.: #66610]	gentiobiose ChEBI	+	builds acid from
[Ref.: #66610]	glucose ChEBI	+	builds acid from
[Ref.: #66610]	glucose ChEBI	+	fermentation
[Ref.: #66610]	glycerol ChEBI	-	builds acid from
[Ref.: #66610]	glycogen ChEBI	+	builds acid from
[Ref.: #66610]	inulin ChEBI	-	builds acid from
[Ref.: #66610]	L-arabitol ChEBI	-	builds acid from
[Ref.: #66610]	L-fucose ChEBI	-	builds acid from
[Ref.: #66610]	L-xylose ChEBI	-	builds acid from
[Ref.: #66610]	lactose ChEBI	-	builds acid from
[Ref.: #66610]	lyxose ChEBI	-	builds acid from
[Ref.: #66610]	malate ChEBI	-	assimilation
[Ref.: #66610]	maltose ChEBI	+	builds acid from
[Ref.: #66610]	mannitol ChEBI	-	assimilation
[Ref.: #66610]	mannose ChEBI	-	assimilation
[Ref.: #66610]	melezitose ChEBI	-	builds acid from
[Ref.: #66610]	melibiose ChEBI	-	builds acid from
[Ref.: #66610]	methyl alpha-D-glucopyranoside ChEBI	-	builds acid from
[Ref.: #66610]	methyl alpha-D-mannoside ChEBI	-	builds acid from
[Ref.: #66610]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from
[Ref.: #66610]	nitrate ChEBI	+	reduction
[Ref.: #66610]	phenylacetate ChEBI	-	assimilation
[Ref.: #66610]	potassium 2-dehydro-D-gluconate	-	builds acid from
[Ref.: #66610]	potassium 5-dehydro-D-gluconate	-	builds acid from
[Ref.: #66610]	potassium gluconate ChEBI	-	assimilation
[Ref.: #66610]	potassium gluconate ChEBI	-	builds acid from
[Ref.: #66610]	raffinose ChEBI	+	builds acid from
[Ref.: #66610]	rhamnose ChEBI	-	builds acid from
[Ref.: #66610]	ribitol ChEBI	-	builds acid from
[Ref.: #66610]	ribose ChEBI	+	builds acid from
[Ref.: #66610]	salicin ChEBI	+	builds acid from
[Ref.: #66610]	sodium citrate ChEBI	-	assimilation
[Ref.: #66610]	sorbitol ChEBI	-	builds acid from
[Ref.: #66610]	sorbose ChEBI	-	builds acid from
[Ref.: #66610]	starch ChEBI	+	builds acid from
[Ref.: #66610]	starch ChEBI	+	hydrolysis
[Ref.: #66610]	sucrose ChEBI	+	builds acid from
[Ref.: #66610]	tagatose ChEBI	-	builds acid from
[Ref.: #66610]	trehalose ChEBI	+	builds acid from
[Ref.: #66610]	turanose ChEBI	-	builds acid from
[Ref.: #66610]	tween 20 ChEBI	-	hydrolysis
[Ref.: #66610]	tween 40 ChEBI	-	hydrolysis
[Ref.: #66610]	tween 80 ChEBI	+	hydrolysis
[Ref.: #66610]	xylitol ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #66610]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #66610]	acid phosphatase	+	3.1.3.2
[Ref.: #66610]	alkaline phosphatase	+	3.1.3.1
[Ref.: #66610]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #66610]	alpha-galactosidase	+	3.2.1.22
[Ref.: #66610]	alpha-glucosidase	+/-	3.2.1.20
[Ref.: #66610]	alpha-mannosidase	-	3.2.1.24
[Ref.: #66610]	beta-D-fucosidase	-	3.2.1.38
[Ref.: #66610]	beta-galactosidase	+	3.2.1.23
[Ref.: #66610]	beta-glucosidase	+	3.2.1.21
[Ref.: #66610]	beta-glucuronidase	-	3.2.1.31
[Ref.: #66610]	catalase	+	1.11.1.6
[Ref.: #66610]	cystine arylamidase	+	3.4.11.3
[Ref.: #66610]	cytochrome oxidase	-	1.9.3.1
[Ref.: #66610]	esterase (C 4)	+
[Ref.: #66610]	esterase Lipase (C 8)	+
[Ref.: #66610]	leucine arylamidase	+	3.4.11.1
[Ref.: #66610]	lipase (C 14)	+/-
[Ref.: #66610]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #66610]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #66610]	trypsin	-	3.4.21.4
[Ref.: #66610]	urease	-	3.5.1.5
[Ref.: #66610]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #67771]	Sample type/isolated from	From subsurface sandstone sediment, the permafrost region of the Qilian Mountain
[Ref.: #67771]	Geographic location (country and/or sea, region)	Qinghai Province
[Ref.: #67771]	Country	China
[Ref.: #67771]	Country ISO 3 Code	CHN
[Ref.: #67771]	Continent	Asia
[Ref.: #67771]	Geographic location	38.0928°/99.1708°

[Ref.: #66610]	Sample type/isolated from	subsurface sandstone sediment sample in the permafrost region
[Ref.: #66610]	Sampling date	2010-08
[Ref.: #66610]	Geographic location (country and/or sea, region)	Qilian Mountains, Qinghai Province, Northwest China
[Ref.: #66610]	Country	China
[Ref.: #66610]	Country ISO 3 Code	CHN
[Ref.: #66610]	Continent	Asia
[Ref.: #66610]	Geographic location	38.0928°/99.1708°
[Ref.: #66610]	Enrichment culture	PYGV
[Ref.: #66610]	Enrichment culture duration	7-14 days
[Ref.: #66610]	Enrichment culture temperature	25 ̊C
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Permafrost
#Environmental	#Terrestrial	#Sandy
#Condition	#Psychrophilic (<10°C)	-

What are isolation sources categories?

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #66610]	Hymenobacter sp. DK6-66 16S ribosomal RNA gene, partial sequence	KX098333	1478	ENA	1844114 tax ID

[Ref.: #66610]	GC-content	60.40 mol%	high performance liquid chromatography (HPLC)
[Ref.: #67771]	GC-content	60.4 mol%	high performance liquid chromatography (HPLC)

Availability in culture collections External links

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Culture collection no.

CGMCC 1.15795, KCTC 52629

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Hymenobacter bucti sp. nov., isolated from subsurface sandstone sediment.	Chen H, Han L, Feng Q, Fan Q, Lv J	Int J Syst Evol Microbiol	10.1099/ijsem.0.002866	2018	*

References

#20215

Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )

#66610

Hanyi Chen, Lu Han, Qingqing Feng, Quiming Fan and Jie Lv: Hymenobacter bucti sp. nov., isolated from subsurface sandstone sediment. IJSEM 68: 2018 ( DOI 10.1099/ijsem.0.002866 , PubMed 30024374 )

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
* These data were automatically processed and therefore are not curated

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