Name: Aridibacter kavangonensis Ac_23_E3
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 24777

Type strain:

Species: Aridibacter kavangonensis

Strain Designation: Ac_23_E3

Culture col. no.: DSM 26558, LMG 27597

Strain history: <- P. Wüst, Leibniz-Institut DSMZ GmbH, Germany; Ac_23_E3

NCBI tax ID(s): 1384639 (species)

SI-ID 388706

LMG 27597, DSM 26558

Section

Aridibacter kavangonensis Ac_23_E3 is a mesophilic, Gram-negative, rod-shaped bacterium that was isolated from sandy subtropical savannah soil .

Gram-negative
rod-shaped
mesophilic
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	*Acidobacteriota*
	Class	*Blastocatellia*
	Order	*Blastocatellales*
	Family	*Blastocatellaceae*
	Genus	*Aridibacter*
	Species	**Aridibacter kavangonensis**
	Full Scientific Name (LPSN)	Aridibacter kavangonensis Huber et al. 2014

Information on morphological and physiological properties Morphology

[Ref.: #21408]	Gram stain	negative

[Ref.: #21408]	Cell length	2.75 µm

[Ref.: #21408]	Cell width	0.65 µm

[Ref.: #21408]	Cell shape	rod-shaped

[Ref.: #21408]	Motility	no

[Ref.: #21408]	Colony size	0.25 mm
[Ref.: #21408]	Colony color	white pinkish hue, translucent
[Ref.: #21408]	Colony shape	circular, convex with enitre margins
[Ref.: #21408]	Incubation period	7 days
[Ref.: #21408]	Cultivation medium used	agar solidified soil solution equivalent (Angle et.al. 1991) SSE/HD 1:10 pH 8 (Foesel et al., 2013). buffered by HEPPS 10 mM

[Ref.: #21408]	Colony color	white
[Ref.: #21408]	Cultivation medium used	liquid soil solution equivalent (Angle et.al. 1991) SSE/HD 1:10 pH 8 (Foesel et al., 2013). buffered by HEPPS 10 mM

[Ref.: #21337]	Incubation period	8-14 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #21337]

Culture medium

SSE/HD1:10 (DSMZ Medium 1426)

[Ref.: #21337]

Culture medium growth

[Ref.: #21337]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21337]

Culture medium composition

expand / minimize

[Ref.: #21408]

Culture medium

agar solidified soil solution equivalent (Angle et.al. 1991) SSE/HD 1:10 pH 8 (Foesel et al., 2013). buffered by HEPPS 10 mM

[Ref.: #21408]

Culture medium

liquid soil solution equivalent (Angle et.al. 1991) SSE/HD 1:10 pH 8 (Foesel et al., 2013). buffered by HEPPS 10 mM

		Temperature
[Ref.: #21337]	growth	28 °C
[Ref.: #21408]	maximum	47 °C
[Ref.: #21408]	minimum	12 °C
[Ref.: #21408]	optimum	26.5 °C

[Ref.: #21337]	Temperature range	mesophilic
[Ref.: #21408]	Temperature range	thermophilic
[Ref.: #21408]	Temperature range	psychrophilic
[Ref.: #21408]	Temperature range	mesophilic

		pH
[Ref.: #21408]	maximum	10
[Ref.: #21408]	minimum	3.5
[Ref.: #21408]	optimum	6.75

Information on physiology and metabolism Physiology and metabolism

[Ref.: #21408]

Ability of spore formation

	Salt		Salt conc.
[Ref.: #21408]	NaCl	maximum	1	%
[Ref.: #21408]	NaCl	minimum	0	%
[Ref.: #21408]	NaCl	optimum	0.25	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #21408]	1,2-butandiol	-
[Ref.: #21408]	1,2-propandiol ChEBI	-
[Ref.: #21408]	2,3-butanediol	-
[Ref.: #21408]	2-hydroxybutyrate ChEBI	-
[Ref.: #21408]	2-oxogluconate	-
[Ref.: #21408]	2-oxoglutarate	-
[Ref.: #21408]	2-oxopentanoate ChEBI	-
[Ref.: #21408]	4-hydroxybutyrate ChEBI	-
[Ref.: #21408]	4-oxopentanoate ChEBI	-
[Ref.: #21408]	acetate ChEBI	-
[Ref.: #21408]	acetoin ChEBI	-
[Ref.: #21408]	adipate ChEBI	-
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #21408]	alanine ChEBI	-
[Ref.: #21408]	arabinitol ChEBI	-
[Ref.: #21408]	arabinose ChEBI	-
[Ref.: #21408]	arginine ChEBI	-
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #21408]	ascorbate ChEBI	-
[Ref.: #21408]	aspartate ChEBI	-
[Ref.: #21408]	benzoate ChEBI	-
[Ref.: #21408]	beta-hydroxybutyrate ChEBI	-
[Ref.: #21408]	butanol	-
[Ref.: #21408]	butyrate ChEBI	-
[Ref.: #21408]	casamino acids	+
[Ref.: #21408]	casein hydrolysate	+
[Ref.: #21408]	cellobiose ChEBI	-
[Ref.: #21408]	cellulose ChEBI	+
[Ref.: #21408]	chitin ChEBI	+/-
[Ref.: #21408]	citrate ChEBI	-
[Ref.: #21408]	crotonate ChEBI	-
[Ref.: #21408]	cysteine ChEBI	-
[Ref.: #68369]	D-glucose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #21408]	erythrose ChEBI	-
[Ref.: #21408]	erythrulose ChEBI	-
[Ref.: #68369]	esculin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #21408]	ethanol ChEBI	-
[Ref.: #21408]	ethylene ChEBI	-
[Ref.: #21408]	formate ChEBI	-
[Ref.: #21408]	fructose ChEBI	-
[Ref.: #21408]	fucose ChEBI	-
[Ref.: #21408]	fumarate ChEBI	+
[Ref.: #21408]	fumarate ChEBI	-
[Ref.: #21408]	galactitol ChEBI	-
[Ref.: #21408]	galactose ChEBI	-
[Ref.: #21408]	gluconate ChEBI	-
[Ref.: #68369]	gluconate ChEBI	-	assimilation	* from API 20NE
[Ref.: #21408]	glucosamine ChEBI	-
[Ref.: #21408]	glucose ChEBI	-
[Ref.: #21408]	glucuronate ChEBI	-
[Ref.: #21408]	glutamate ChEBI	-
[Ref.: #21408]	glutamine ChEBI	+/-
[Ref.: #21408]	glycerol ChEBI	-
[Ref.: #21408]	glycine ChEBI	-
[Ref.: #21408]	glycol ChEBI	-
[Ref.: #21408]	glycolate ChEBI	-
[Ref.: #21408]	glyoxylate ChEBI	-
[Ref.: #21408]	hexanoate ChEBI	-
[Ref.: #21408]	histidine ChEBI	-
[Ref.: #21408]	hydroxyproline ChEBI	-
[Ref.: #21408]	isobutyrate ChEBI	-
[Ref.: #21408]	isocitrate ChEBI	-
[Ref.: #21408]	isoleucine ChEBI	-
[Ref.: #21408]	isovalerate ChEBI	+
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #21408]	L-asparagine ChEBI	+/-
[Ref.: #21408]	lactate ChEBI	-
[Ref.: #21408]	lactose ChEBI	+/-
[Ref.: #21408]	laminarin ChEBI	+
[Ref.: #21408]	lysine ChEBI	-
[Ref.: #21408]	lyxose ChEBI	-
[Ref.: #21408]	malate ChEBI	-
[Ref.: #68369]	malate ChEBI	-	assimilation	* from API 20NE
[Ref.: #21408]	maleic acid ChEBI	-
[Ref.: #21408]	malonate ChEBI	-
[Ref.: #21408]	maltose ChEBI	+
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #21408]	mannitol ChEBI	-
[Ref.: #21408]	mannose ChEBI	-
[Ref.: #21408]	melezitose ChEBI	-
[Ref.: #21408]	methanol ChEBI	-
[Ref.: #21408]	methionine ChEBI	-
[Ref.: #21408]	myo-inositol ChEBI	-
[Ref.: #21408]	N-acetylgalactosamine ChEBI	+
[Ref.: #21408]	N-acetylglucosamine ChEBI	-
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #21408]	nicotinate ChEBI	-
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #21408]	octanoate ChEBI	-
[Ref.: #21408]	ornithine ChEBI	-
[Ref.: #21408]	oxaloacetate ChEBI	-
[Ref.: #21408]	peptone	+
[Ref.: #21408]	phenylalanine ChEBI	-
[Ref.: #21408]	proline ChEBI	-
[Ref.: #21408]	propanol ChEBI	-
[Ref.: #21408]	propionate ChEBI	-
[Ref.: #21408]	protocatechuate ChEBI	+
[Ref.: #21408]	pyruvate ChEBI	-
[Ref.: #21408]	raffinose ChEBI	-
[Ref.: #21408]	rhamnose ChEBI	+
[Ref.: #21408]	ribitol ChEBI	-
[Ref.: #21408]	rumen extract	-
[Ref.: #21408]	shikimate ChEBI	-
[Ref.: #21408]	sorbitol ChEBI	-
[Ref.: #21408]	sorbose ChEBI	-
[Ref.: #21408]	starch ChEBI	+/-
[Ref.: #21408]	succinate ChEBI	-
[Ref.: #21408]	sucrose ChEBI	-
[Ref.: #21408]	tartrate ChEBI	-
[Ref.: #21408]	threonine ChEBI	-
[Ref.: #21408]	trehalose ChEBI	-
[Ref.: #21408]	trimethoxybenzoate	+/-
[Ref.: #21408]	tryptophan ChEBI	-
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #21408]	tween 80 ChEBI	-
[Ref.: #21408]	tyrosine ChEBI	-
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #21408]	valine ChEBI	-
[Ref.: #21408]	xylitol ChEBI	-
[Ref.: #21408]	xylose ChEBI	-
[Ref.: #21408]	yeast extract	+
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	+	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	-	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68369]	beta-glucosidase	+	3.2.1.21	* from API 20NE, API zym
[Ref.: #68382]	beta-glucuronidase	+	3.2.1.31	* from API zym
[Ref.: #21337]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68369]	cytochrome oxidase	-	1.9.3.1	* from API 20NE
[Ref.: #21337]	cytochrome-c oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	-		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® 20NE:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #21408]	1	-	-	-	-	-	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-
[Ref.: #21337]	23948	-	-	-	-	-	+	+/-	+	-	-	-	-	-	-	-	-	-	-	-	-	not determinedn.d.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #21408]	1046	-	+	-	+	-	+	+	-	+	+	+	+	-	-	+	-	+	+	-	-

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

[Ref.: #21337]	Sample type/isolated from	sandy subtropical savannah soil (17° 53' 37.93'' S 20° 14' 50.71'' E, 1069 m above sea level)
[Ref.: #21337]	Geographic location (country and/or sea, region)	Kavango region, Mashare
[Ref.: #21337]	Country	Namibia
[Ref.: #21337]	Country ISO 3 Code	NAM
[Ref.: #21337]	Continent	Africa

[Ref.: #21408]	Sample type/isolated from	subtropical savannah soils ,sandy fallow pH 7.3 - 8.2, 1069 m above sea level
[Ref.: #21408]	Sampling date	2011-00-00
[Ref.: #21408]	Geographic location (country and/or sea, region)	Kavango region, Mashare
[Ref.: #21408]	Country	Namibia
[Ref.: #21408]	Country ISO 3 Code	NAM
[Ref.: #21408]	Continent	Africa
[Ref.: #21408]	Geographic location	-17.8939°/20.2474°
[Ref.: #21408]	Enrichment culture	liquid soil solution equvivalent
[Ref.: #21408]	Enrichment culture composition	liquid soil solution equvivalent (Angle et.al. 1991) SSE/HD 1:10 pH 8 (Foesel et al., 2013). buffered by HEPPS 10 mM
[Ref.: #21408]	Enrichment culture duration	6 weeks
[Ref.: #21408]	Enrichment culture temperature	25 ̊C
[Ref.: #21408]	Isolation/enrichment procedure	isolated by constantly streaking out on SSE/HD 1 : 10 solidified with purified agar (15 g/l Oxoid) starting from an enrichnent culture
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Sandy
#Environmental	#Terrestrial	#Soil
#Climate	#Temperate	#Subtropical

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KF245633 (>99% sequence identity) for Aridibacter kavangonensis from Microbeatlas

Aquatic Samples	9
Soil Samples	101
Animal Samples	13
Plant Samples	20
Total Samples	143

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #21408]	Biosafety level	1
[Ref.: #21337]	Biosafety level	1	Risk group (German classification) According to TRBA 466

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.: #21337]	Aridibacter kavangonensis strain Ac_23_E3 16S ribosomal RNA gene, partial sequence	KF245633	1484	ENA	1384639 tax ID

[Ref.: #21337]

GC-content

52.6 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #21337]

Culture collection no.

DSM 26558, LMG 27597

[Ref.: #88602]

SI-ID 388706

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Aridibacter nitratireducens sp. nov., a member of the family Blastocatellaceae, class Blastocatellia, isolated from an African soil.	Huber KJ, Geppert AM, Gross U, Luckner M, Wanner G, Cooper P, Abakah J, Janssen I, Overmann J	Int J Syst Evol Microbiol	10.1099/ijsem.0.002318	2017	*
Phylogeny	Aridibacter famidurans gen. nov., sp. nov. and Aridibacter kavangonensis sp. nov., two novel members of subdivision 4 of the Acidobacteria isolated from semiarid savannah soil.	Huber KJ, Wust PK, Rohde M, Overmann J, Foesel BU	Int J Syst Evol Microbiol	10.1099/ijs.0.060236-0	2014	*

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 )

#21337

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 26558

#21408

Huber K.J. , Wüst P. , Rohde M. , Overmann J., Foesel B. U.,: Aridibacter famidurans gen. nov., sp. nov. and Aridibacter kavangonensis sp. nov., two novel members of subdivision 4 of the Acidobacteria isolated from semiarid savannah soil. IJSEM 64: 1866 - 1875 2014 ( DOI 10.1099/ijs.0.060236-0 , PubMed 24573163 )

#68369

Automatically annotated from API 20NE .

#68382

Automatically annotated from API zym .

#69479

João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .

#88602

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID388706.1 )

* These data were automatically processed and therefore are not curated

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