Name: Chitinophaga humicola Ktm-2
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 158622

Type strain:

Species: Chitinophaga humicola

Strain Designation: Ktm-2

Culture col. no.: KEMB 9005-693, KACC 19388, JCM 32158

Strain history: J. Kim; Kyonggi Univ., South Korea; Ktm-2.

NCBI tax ID(s): 2072567 (species)

Section

Chitinophaga humicola Ktm-2 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from oil-contaminated soil.

colony-forming
Gram-negative
rod-shaped
aerobe
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	*Chitinophagia*
	Order	*Chitinophagales*
	Family	*Chitinophagaceae*
	Genus	*Chitinophaga*
	Species	**Chitinophaga humicola**
	Full Scientific Name (LPSN)	Chitinophaga humicola Chaudhary and Kim 2018

Information on morphological and physiological properties Morphology

[Ref.: #65347]	Gram stain	negative

[Ref.: #65347]	Cell shape	rod-shaped

[Ref.: #65347]	Motility	no

[Ref.: #65347]	Colony size	0.5-1 mm
[Ref.: #65347]	Colony color	yellow
[Ref.: #65347]	Colony shape	circular
[Ref.: #65347]	Cultivation medium used	tryptic soy agar

Information on culture and growth conditions Culture and growth conditions

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Culture medium

tryptic soy agar

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Culture medium growth

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Culture medium

Reasoner's 2A agar (R2A)

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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

veal infusion agar

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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

Marine agar (MA)

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Culture medium growth

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Culture medium

MacConkey agar

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Culture medium growth

		Temperature
[Ref.: #65347]	growth	15-40 °C
[Ref.: #65347]	optimum	25-35 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #65347]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #65347]			optimum	7-8
[Ref.: #65347]			growth	4.5-10

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

aerobe

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Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #65347]		NaCl		growth	0-2	%
[Ref.: #65347]		NaCl		optimum	0	%

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Observation

quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #65347]	3-hydroxybenzoate ChEBI	-	assimilation
[Ref.: #65347]	3-hydroxybutyrate ChEBI	-	assimilation
[Ref.: #65347]	4-hydroxybenzoate ChEBI	-	assimilation
[Ref.: #65347]	4-nitrophenyl beta-D-galactopyranoside ChEBI	+	assimilation
[Ref.: #65347]	adipate ChEBI	-	assimilation
[Ref.: #65347]	carboxymethylcellulose ChEBI	-	hydrolysis
[Ref.: #65347]	casein	-	hydrolysis
[Ref.: #65347]	cellobiose ChEBI	+	carbon source
[Ref.: #65347]	chitin ChEBI	-	hydrolysis
[Ref.: #65347]	D-galactose ChEBI	+	carbon source
[Ref.: #65347]	D-glucose ChEBI	+	assimilation
[Ref.: #65347]	D-mannitol ChEBI	-	assimilation
[Ref.: #65347]	D-mannose ChEBI	+	assimilation
[Ref.: #65347]	D-ribose ChEBI	-	assimilation
[Ref.: #65347]	D-sorbitol ChEBI	-	assimilation
[Ref.: #65347]	decanoate ChEBI	-	assimilation
[Ref.: #65347]	dna ChEBI	+	hydrolysis
[Ref.: #65347]	esculin ChEBI	+	hydrolysis
[Ref.: #65347]	esculin ferric citrate	+	assimilation
[Ref.: #65347]	ethanol ChEBI	-	carbon source
[Ref.: #65347]	fructose ChEBI	-	carbon source
[Ref.: #65347]	gelatin ChEBI	-	fermentation
[Ref.: #65347]	gelatin ChEBI	-	hydrolysis
[Ref.: #65347]	glucose ChEBI	-	fermentation
[Ref.: #65347]	glutamate ChEBI	-	carbon source
[Ref.: #65347]	glycerol ChEBI	+	carbon source
[Ref.: #65347]	glycine ChEBI	-	carbon source
[Ref.: #65347]	glycogen ChEBI	-	assimilation
[Ref.: #65347]	itaconate ChEBI	-	assimilation
[Ref.: #65347]	L-alanine ChEBI	-	assimilation
[Ref.: #65347]	L-arabinose ChEBI	-	assimilation
[Ref.: #65347]	L-arginine ChEBI	-	carbon source
[Ref.: #65347]	L-arginine ChEBI	-	fermentation
[Ref.: #65347]	L-fucose ChEBI	+	assimilation
[Ref.: #65347]	L-histidine ChEBI	-	assimilation
[Ref.: #65347]	L-methionine ChEBI	-	carbon source
[Ref.: #65347]	L-proline ChEBI	-	assimilation
[Ref.: #65347]	L-rhamnose ChEBI	+	assimilation
[Ref.: #65347]	L-serine ChEBI	-	assimilation
[Ref.: #65347]	L-tryptophan ChEBI	-	assimilation
[Ref.: #65347]	lactate ChEBI	-	assimilation
[Ref.: #65347]	lactose ChEBI	-	carbon source
[Ref.: #65347]	leucine ChEBI	-	carbon source
[Ref.: #65347]	malate ChEBI	-	assimilation
[Ref.: #65347]	maltose ChEBI	+	assimilation
[Ref.: #65347]	melibiose ChEBI	+	assimilation
[Ref.: #65347]	myo-inositol ChEBI	-	assimilation
[Ref.: #65347]	N-acetylglucosamine ChEBI	+	assimilation
[Ref.: #65347]	nitrate ChEBI	+	reduction
[Ref.: #65347]	phenylacetate ChEBI	-	assimilation
[Ref.: #65347]	potassium 2-dehydro-D-gluconate	-	assimilation
[Ref.: #65347]	potassium 5-dehydro-D-gluconate	-	assimilation
[Ref.: #65347]	potassium gluconate ChEBI	-	assimilation
[Ref.: #65347]	propionate ChEBI	-	assimilation
[Ref.: #65347]	pyruvate ChEBI	+	carbon source
[Ref.: #65347]	salicin ChEBI	+	assimilation
[Ref.: #65347]	sodium acetate ChEBI	-	assimilation
[Ref.: #65347]	sodium citrate ChEBI	-	assimilation
[Ref.: #65347]	sodium malonate ChEBI	-	assimilation
[Ref.: #65347]	starch ChEBI	-	hydrolysis
[Ref.: #65347]	suberic acid ChEBI	-	assimilation
[Ref.: #65347]	succinate ChEBI	-	carbon source
[Ref.: #65347]	sucrose ChEBI	+	assimilation
[Ref.: #65347]	threonine ChEBI	-	carbon source
[Ref.: #65347]	tween 40 ChEBI	+	hydrolysis
[Ref.: #65347]	tween 80 ChEBI	+	hydrolysis
[Ref.: #65347]	tyrosine ChEBI	-	hydrolysis
[Ref.: #65347]	urea ChEBI	-	fermentation
[Ref.: #65347]	valerate ChEBI	-	assimilation
[Ref.: #65347]	valine ChEBI	-	carbon source
[Ref.: #65347]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #65347]	acetoin ChEBI	no
[Ref.: #65347]	hydrogen sulfide ChEBI	no
[Ref.: #65347]	indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #65347]		acetoin ChEBI	-
[Ref.: #65347]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #65347]	acid phosphatase	+	3.1.3.2
[Ref.: #65347]	alkaline phosphatase	+	3.1.3.1
[Ref.: #65347]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #65347]	alpha-fucosidase	+	3.2.1.51
[Ref.: #65347]	alpha-galactosidase	-	3.2.1.22
[Ref.: #65347]	alpha-glucosidase	+	3.2.1.20
[Ref.: #65347]	beta-galactosidase	+	3.2.1.23
[Ref.: #65347]	beta-glucosidase	+	3.2.1.21
[Ref.: #65347]	beta-glucuronidase	-	3.2.1.31
[Ref.: #65347]	catalase	-	1.11.1.6
[Ref.: #65347]	cystine arylamidase	+	3.4.11.3
[Ref.: #65347]	cytochrome oxidase	+	1.9.3.1
[Ref.: #65347]	esterase (C 4)	+
[Ref.: #65347]	esterase Lipase (C 8)	+
[Ref.: #65347]	leucine arylamidase	+	3.4.11.1
[Ref.: #65347]	lipase (C 14)	+
[Ref.: #65347]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #65347]	naphthol-AS-BI-phosphohydrolase	-
[Ref.: #65347]	trypsin	+	3.4.21.4
[Ref.: #65347]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #65347]

Fatty acid	Percentage
C15:0 iso	47.5
C16:1ω5c	22.1
C17:0 iso 3OH	12.7
C16:1ω7c and/or C16:1ω6c	6.7
C15:0 iso 3OH	3.3
C16:0	1.4
C17:0 3OH	1.4
C14:0	1
C17:1 iso I and/or C17:1 anteiso B	0.9
C17:0 iso	0.6
C15:0 2OH	0.6
C16:0 iso	0.4
C16:0 iso 3OH	0.3

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

[Ref.: #65347]	Sample type/isolated from	oil-contaminated soil
[Ref.: #65347]	Geographic location (country and/or sea, region)	Biratnagar, Morang
[Ref.: #65347]	Country	Nepal
[Ref.: #65347]	Country ISO 3 Code	NPL
[Ref.: #65347]	Continent	Asia
[Ref.: #65347]	Isolation/enrichment procedure	modified culture technique with six-well polycarbonate Transwell plates

[Ref.: #67770]	Sample type/isolated from	Oil-contaminated soil sample of Biratnagar
[Ref.: #67770]	Geographic location (country and/or sea, region)	Morang
[Ref.: #67770]	Country	Nepal
[Ref.: #67770]	Country ISO 3 Code	NPL
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Contamination	#Oil (Fuel)
#Environmental	#Terrestrial	#Soil

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.: #65347]	16S rRNA gene sequence	MF405103		GenBank

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GC-content

52.1 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

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Culture collection no.

KEMB 9005-693, KACC 19388, JCM 32158

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Chitinophaga chungangae sp. nov., isolated from a Korean grape garden and its potential to biosynthesize ginsenoside Rg2.	Huq MA, Akter S	Arch Microbiol	10.1007/s00203-021-02533-x	2021	*
Phylogeny	Chitinophaga humicola sp. nov., isolated from oil-contaminated soil.	Chaudhary DK, Kim J	Int J Syst Evol Microbiol	10.1099/ijsem.0.002577	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 )

#65347

Dhiraj Kumar Chaudhary, Jaisoo Kim: Chitinophaga humicola sp. nov., isolated from oil-contaminated soil. IJSEM 68: 751 - 757 2018 ( DOI 10.1099/ijsem.0.002577 , PubMed 29458467 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;
* These data were automatically processed and therefore are not curated

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