Name: Variovorax humicola KACC 18501
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 140831

Type strain:

Species: Variovorax humicola

Culture col. no.: KACC 18501, NBRC 111520, UC 38

NCBI tax ID(s): 1769758 (species)

Section

Variovorax humicola KACC 18501 is an aerobe, chemoautolithotroph, Gram-negative bacterium that forms irregular colonies and was isolated from forest topsoil.

colony-forming
Gram-negative
motile
rod-shaped
aerobe
chemoautolithotroph
16S sequence
Bacteria

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

	Last LPSN update	07-12-2022 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Betaproteobacteria*
	Order	*Burkholderiales*
	Family	*Comamonadaceae*
	Genus	*Variovorax*
	Species	**Variovorax humicola**
	Full Scientific Name (PNU)	Variovorax humicola Nguyen and Kim 2016

Information on morphological and physiological properties Morphology

[Ref.: #43629]	Gram stain	negative
[Ref.: #43629]	Cell length	1.5-2 µm
[Ref.: #43629]	Cell width	0.4-0.6 µm
[Ref.: #43629]	Cell shape	rod-shaped
[Ref.: #43629]	Motility	yes
[Ref.: #43629]	Flagellum arrangement	gliding

[Ref.: #43629]	Colony color	pale yellowish
[Ref.: #43629]	Colony shape	irregular
[Ref.: #43629]	Cultivation medium used	R2A agar plates

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

	Temperatures	Kind of temperature		Temperature
[Ref.: #43629]			growth	4-35 °C
[Ref.: #43629]			optimum	25-30 °C

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Temperature range

mesophilic

	pH	Kind of pH		pH	pH range
[Ref.: #43629]			optimum	7-8
[Ref.: #43629]			growth	4-9	alkaliphile

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

aerobe

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Nutrition type

chemoautolithotroph

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Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43629]		NaCl		growth	0-1	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43629]	3-hydroxybenzoate ChEBI	+	assimilation
[Ref.: #43629]	3-hydroxybutyrate ChEBI	+	assimilation
[Ref.: #43629]	4-hydroxybenzoate ChEBI	+	assimilation
[Ref.: #43629]	4-nitrophenyl beta-D-galactopyranoside ChEBI	-	assimilation
[Ref.: #43629]	adipate ChEBI	-	assimilation
[Ref.: #43629]	D-glucose ChEBI	+	assimilation
[Ref.: #43629]	D-glucose ChEBI	+	builds acid from
[Ref.: #43629]	D-mannitol ChEBI	+	assimilation
[Ref.: #43629]	D-mannose ChEBI	-	assimilation
[Ref.: #43629]	D-ribose ChEBI	-	assimilation
[Ref.: #43629]	D-sorbitol ChEBI	+	assimilation
[Ref.: #43629]	decanoate ChEBI	-	assimilation
[Ref.: #43629]	dna ChEBI	+	hydrolysis
[Ref.: #43629]	esculin ChEBI	-	assimilation
[Ref.: #43629]	esculin ChEBI	-	hydrolysis
[Ref.: #43629]	gelatin ChEBI	-	assimilation
[Ref.: #43629]	glycogen ChEBI	-	assimilation
[Ref.: #43629]	itaconate ChEBI	-	assimilation
[Ref.: #43629]	L-alanine ChEBI	-	assimilation
[Ref.: #43629]	L-arabinose ChEBI	-	assimilation
[Ref.: #43629]	L-arginine ChEBI	-	assimilation
[Ref.: #43629]	L-fucose ChEBI	-	assimilation
[Ref.: #43629]	L-histidine ChEBI	-	assimilation
[Ref.: #43629]	L-proline ChEBI	-	assimilation
[Ref.: #43629]	L-rhamnose ChEBI	+/-	assimilation
[Ref.: #43629]	L-serine ChEBI	-	assimilation
[Ref.: #43629]	L-tryptophan ChEBI	-	assimilation
[Ref.: #43629]	lactate ChEBI	+	assimilation
[Ref.: #43629]	malate ChEBI	+	assimilation
[Ref.: #43629]	maltose ChEBI	-	assimilation
[Ref.: #43629]	melibiose ChEBI	-	assimilation
[Ref.: #43629]	milk	-	hydrolysis
[Ref.: #43629]	myo-inositol ChEBI	-	assimilation
[Ref.: #43629]	N-acetylglucosamine ChEBI	-	assimilation
[Ref.: #43629]	nitrate ChEBI	+/-	reduction
[Ref.: #43629]	phenylacetate ChEBI	+/-	assimilation
[Ref.: #43629]	potassium 2-dehydro-D-gluconate	-	assimilation
[Ref.: #43629]	potassium 5-dehydro-D-gluconate	-	assimilation
[Ref.: #43629]	potassium gluconate ChEBI	-	assimilation
[Ref.: #43629]	propionate ChEBI	-	assimilation
[Ref.: #43629]	salicin ChEBI	-	assimilation
[Ref.: #43629]	sodium acetate ChEBI	-	assimilation
[Ref.: #43629]	sodium citrate ChEBI	-	assimilation
[Ref.: #43629]	sodium malonate ChEBI	-	assimilation
[Ref.: #43629]	starch ChEBI	-	hydrolysis
[Ref.: #43629]	suberic acid ChEBI	-	assimilation
[Ref.: #43629]	sucrose ChEBI	-	assimilation
[Ref.: #43629]	tween 40 ChEBI	+/-	hydrolysis
[Ref.: #43629]	tween 60 ChEBI	-	hydrolysis
[Ref.: #43629]	tween 80 ChEBI	+	hydrolysis
[Ref.: #43629]	urea ChEBI	-	assimilation
[Ref.: #43629]	urea ChEBI	-	hydrolysis
[Ref.: #43629]	valerate ChEBI	-	assimilation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite
[Ref.: #43629]		hydrogen sulfide ChEBI
[Ref.: #43629]		indole ChEBI

	Enzyme	Enzyme activity	EC number
[Ref.: #43629]	acid phosphatase	+	3.1.3.2
[Ref.: #43629]	alkaline phosphatase	+	3.1.3.1
[Ref.: #43629]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #43629]	alpha-fucosidase	-	3.2.1.51
[Ref.: #43629]	alpha-galactosidase	-	3.2.1.22
[Ref.: #43629]	alpha-glucosidase	+/-	3.2.1.20
[Ref.: #43629]	alpha-mannosidase	-	3.2.1.24
[Ref.: #43629]	beta-galactosidase	-	3.2.1.23
[Ref.: #43629]	beta-glucosidase	-	3.2.1.21
[Ref.: #43629]	catalase	+	1.11.1.6
[Ref.: #43629]	cystine arylamidase	+/-	3.4.11.3
[Ref.: #43629]	cytochrome oxidase	+	1.9.3.1
[Ref.: #43629]	esterase (C 4)	-
[Ref.: #43629]	esterase Lipase (C 8)	-
[Ref.: #43629]	leucine arylamidase	+	3.4.11.1
[Ref.: #43629]	lipase (C 14)	-
[Ref.: #43629]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #43629]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #43629]	trypsin	-	3.4.21.4
[Ref.: #43629]	urease	-	3.5.1.5
[Ref.: #43629]	valine arylamidase	-
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

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Fatty acid	Percentage
C17:1 iso ω9c	34.9
C15:0 iso	25.5
C16:1ω7c / C15:0 iso 2OH	17
C16:1ω5c	3.8
C17:0 iso	3.1
Unknown C13.565	2.5
C16:0	2.2
C15:0 anteiso	1.4
iso-C17:1 / anteiso-C17:1	1.4

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

[Ref.: #43629]	Sample type/isolated from	forest topsoil
[Ref.: #43629]	Geographic location (country and/or sea, region)	Kyonggi University campus, Suwon, Gyeonggi-Do province
[Ref.: #43629]	Country	Republic of Korea
[Ref.: #43629]	Country ISO 3 Code	KOR
[Ref.: #43629]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Forest
#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.: #43629]	16S rRNA gene sequence	KT301941		GenBank

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GC-content

66.2 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

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Culture collection no.

KACC 18501, NBRC 111520, UC 38

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Description of Variovorax humicola sp. nov., isolated from a forest topsoil.	Nguyen TM, Kim J	Int J Syst Evol Microbiol	10.1099/ijsem.0.001082	2016	*

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 )

#43629

Tuan Manh Nguyen, Jaisoo Kim: Description of Variovorax humicola sp. nov., isolated from a forest topsoil. IJSEM 66: 2520 - 2527 2016 ( DOI 10.1099/ijsem.0.001082 , PubMed 27082126 )

* These data were automatically processed and therefore are not curated

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