Name: Acidicapsa acidisoli SK-11
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133383

Type strain:

Species: Acidicapsa acidisoli

Strain Designation: SK-11

Culture col. no.: DSM 100508, NBRC 111227

Strain history: <- A. Tonouchi, Faculty Agriculture and Life Sci., Hirosaki Univ., Japan; SK-11 <- H. Matsuo

NCBI tax ID(s): 1615681 (species)

SI-ID 397255

DSM 100508

Section

Acidicapsa acidisoli SK-11 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from soil of a deciduous forest.

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

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	*Terriglobia*
	Order	*Terriglobales*
	Family	*Acidobacteriaceae*
	Genus	*Acidicapsa*
	Species	**Acidicapsa acidisoli**
	Full Scientific Name (LPSN)	Acidicapsa acidisoli Matsuo et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #25290]	Gram stain	negative

[Ref.: #25290]	Cell length	1.0-1.4 µm

[Ref.: #25290]	Cell width	0.7-1.0 µm

[Ref.: #25290]	Cell shape	rod-shaped

[Ref.: #25290]	Motility	no

[Ref.: #25290]	Colony size	0.4-2.8 mm
[Ref.: #25290]	Colony color	white
[Ref.: #25290]	Colony shape	circular
[Ref.: #25290]	Incubation period	10 days
[Ref.: #25290]	Cultivation medium used	modified IS medium (MIS medium)

Information on culture and growth conditions Culture and growth conditions

[Ref.: #25290]

Culture medium

modified IS medium (MIS medium)

[Ref.: #25290]

Culture medium growth

[Ref.: #25290]

Culture medium

YNG

[Ref.: #25290]

Culture medium growth

[Ref.: #25290]

Culture medium composition

expand / minimize

[Ref.: #64146]

Culture medium

ACIDICAPSA MEDIUM (GYS MEDIUM) (DSMZ Medium 1671)

[Ref.: #64146]

Culture medium growth

[Ref.: #64146]

Culture medium link

Medium recipe at MediaDive

[Ref.: #64146]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #25290]	growth	10-35 °C
[Ref.: #25290]	optimum	25-30 °C
[Ref.: #64146]	growth	25 °C

[Ref.: #25290]	Temperature range	mesophilic
[Ref.: #64146]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #25290]			optimum	5
[Ref.: #25290]			growth	4.0-5.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #25290]

Oxygen tolerance

aerobe

[Ref.: #25290]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #25290]		NaCl		growth	0.0-0.4	%
[Ref.: #25290]		NaCl		optimum	0.0-0.1	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #25290]	arbutin ChEBI	+	growth
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #25290]	carboxymethylcellulose ChEBI	-	growth
[Ref.: #25290]	casamino acids	+	growth
[Ref.: #25290]	cellobiose ChEBI	+	growth
[Ref.: #25290]	chitin ChEBI	-	growth
[Ref.: #25290]	D-arabinose ChEBI	+	growth
[Ref.: #25290]	D-fructose ChEBI	+	growth
[Ref.: #25290]	D-fucose ChEBI	+	growth
[Ref.: #25290]	D-galactose ChEBI	+	growth
[Ref.: #25290]	D-galacturonic acid ChEBI	+	growth
[Ref.: #25290]	D-glucose ChEBI	+	growth
[Ref.: #68369]	D-glucose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #25290]	D-mannitol ChEBI	-	growth
[Ref.: #68369]	D-mannitol ChEBI	-	assimilation	* from API 20NE
[Ref.: #25290]	D-mannose ChEBI	+	growth
[Ref.: #68369]	D-mannose ChEBI	-	assimilation	* from API 20NE
[Ref.: #25290]	D-ribose ChEBI	-	growth
[Ref.: #25290]	D-sorbitol ChEBI	-	growth
[Ref.: #25290]	D-tagatose ChEBI	-	growth
[Ref.: #25290]	D-trehalose ChEBI	+	growth
[Ref.: #25290]	D-xylose ChEBI	+	growth
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #25290]	esculin ChEBI	-	growth
[Ref.: #68369]	esculin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #25290]	gelatin ChEBI	-	degradation
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	-	assimilation	* from API 20NE
[Ref.: #25290]	inulin ChEBI	+	growth
[Ref.: #25290]	L-arabinose ChEBI	+	growth
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #25290]	L-fucose ChEBI	+	growth
[Ref.: #25290]	L-rhamnose ChEBI	+	growth
[Ref.: #25290]	L-sorbose ChEBI	-	growth
[Ref.: #25290]	lactose ChEBI	+	growth
[Ref.: #25290]	lignin ChEBI	-	growth
[Ref.: #68369]	malate ChEBI	-	assimilation	* from API 20NE
[Ref.: #25290]	maltose ChEBI	+	growth
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #25290]	melezitose ChEBI	+	growth
[Ref.: #25290]	melibiose ChEBI	+	growth
[Ref.: #25290]	myo-inositol ChEBI	-	growth
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #25290]	nitrate ChEBI	-	reduction
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #25290]	pectin ChEBI	+	growth
[Ref.: #25290]	peptone	+	growth
[Ref.: #25290]	polygalacturonic acid ChEBI	-	growth
[Ref.: #25290]	raffinose ChEBI	+	growth
[Ref.: #25290]	ribitol ChEBI	-	growth
[Ref.: #25290]	salicin ChEBI	+	growth
[Ref.: #25290]	starch ChEBI	+	growth
[Ref.: #25290]	sucrose ChEBI	+	growth
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #25290]	turanose ChEBI	+	growth
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #25290]	xylan ChEBI	+	growth
[Ref.: #25290]	xylitol ChEBI	-	growth
[Ref.: #25290]	yeast extract	+	growth
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #25290]	hydrogen sulfide ChEBI	no
[Ref.: #25290]	indole ChEBI	no
[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.: #25290]	acid phosphatase	+	3.1.3.2
[Ref.: #25290]	alkaline phosphatase	+	3.1.3.1
[Ref.: #25290]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #25290]	alpha-fucosidase	+	3.2.1.51
[Ref.: #25290]	alpha-galactosidase	+	3.2.1.22
[Ref.: #25290]	alpha-glucosidase	-	3.2.1.20
[Ref.: #25290]	alpha-mannosidase	-	3.2.1.24
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #25290]	beta-galactosidase	+	3.2.1.23
[Ref.: #25290]	beta-glucosidase	+	3.2.1.21
[Ref.: #68369]	beta-glucosidase	+	3.2.1.21	* from API 20NE
[Ref.: #25290]	beta-glucuronidase	+	3.2.1.31
[Ref.: #25290]	catalase	+	1.11.1.6
[Ref.: #25290]	cystine arylamidase	+	3.4.11.3
[Ref.: #25290]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68369]	cytochrome oxidase	-	1.9.3.1	* from API 20NE
[Ref.: #25290]	esterase (C 4)	+
[Ref.: #25290]	esterase Lipase (C 8)	+
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #25290]	leucine arylamidase	+	3.4.11.1
[Ref.: #25290]	lipase (C 14)	-
[Ref.: #25290]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #25290]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #25290]	trypsin	+	3.4.21.4
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE
[Ref.: #25290]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #25290]

Fatty acid	Percentage
C15:0 iso	55.4
iso-C17:1ω9c/ 10-methyl-hexadecanoic acid	17.7
C17:0 iso	16.7
C16:0	2.9
C16:1ω7c / C16:1ω6c	2.2
C16:0 iso	1
iso-C15:1H/C13:0 3-OH	0.6
C17:1 iso I / C17:1 anteiso B	0.6
C18:1ω9c	0.5
C18:0	0.5
C17:0	0.5

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.: #64146]	24221	-	-	-	-	-	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-

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

[Ref.: #25290]	Sample type/isolated from	soil of a deciduous forest
[Ref.: #25290]	Sampling date	2013-06-14
[Ref.: #25290]	Geographic location (country and/or sea, region)	Shirakami Natural Science Park of the Shirakami Institute for Environmen- tal Sciences, Hirosaki University, Kawaratai, Nishimeya village, Nakatsugaru District, Aomori
[Ref.: #25290]	Country	Japan
[Ref.: #25290]	Country ISO 3 Code	JPN
[Ref.: #25290]	Continent	Asia
[Ref.: #25290]	Geographic location	40.0000°/140.0000°
[Ref.: #25290]	Enrichment culture	IS medium
[Ref.: #25290]	Enrichment culture composition	Nutrient broth (Oxoid) 0.065 g/l, MgSO4x7H2O 1.0 g/l, 2-(N-morpholino)ethanesulfonic acid (MES) 2.0 g/l, cyclo- heximide 0.1 g/l, soil extract, 500 ml/l, gellan gum 8.0 g/l, pH 5.0
[Ref.: #25290]	Enrichment culture duration	60 days
[Ref.: #25290]	Enrichment culture temperature	30 ̊C
[Ref.: #25290]	Isolation/enrichment procedure	serial dilution method

[Ref.: #64146]	Sample type/isolated from	acidic soil of a deciduous forest
[Ref.: #64146]	Geographic location (country and/or sea, region)	Aomori Prefecture, Nakatsugaru District, Nishimera Village, Kawaratai, Shirakami Natural Science Park of the Hirosaki University (N40 30.916, E140 12.894; 346 m elevation above the sea level)
[Ref.: #64146]	Country	Japan
[Ref.: #64146]	Country ISO 3 Code	JPN
[Ref.: #64146]	Continent	Asia
[Ref.: #64146]	Geographic location	40.5153°/140.2150°
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Forest
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence LC027464 (>99% sequence identity) for Acidicapsa acidisoli subclade from Microbeatlas

Aquatic Samples	132
Soil Samples	2616
Animal Samples	71
Plant Samples	127
Total Samples	2946

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

[Ref.: #64146]

Biosafety level

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.: #64146]	Acidicapsa acidisoli gene for 16S ribosomal RNA, partial sequence	LC027464	1465	ENA	1615681 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Acidicapsa acidisoli SK-11	GCA_025685625	contig	GenBank	1615681 tax ID	*

[Ref.: #64146]

GC-content

56.9 mol%

high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Acidicapsa acidisoli SK-11 NCBI: GCA_025685625.1
[Ref.: #69480]	motile	no	72.285	yes
[Ref.: #69480]	flagellated	no	89.297	yes
[Ref.: #69480]	gram-positive	no	97.1	yes
[Ref.: #69480]	anaerobic	no	98.46	yes
[Ref.: #69480]	aerobic	yes	80.9	yes
[Ref.: #69480]	halophile	no	95.223	yes
[Ref.: #69480]	spore-forming	no	89.787	yes
[Ref.: #69480]	glucose-ferment	no	91.337	no
[Ref.: #69480]	thermophile	no	96.301	yes
[Ref.: #69480]	glucose-util	yes	67.864	no

Availability in culture collections External links

[Ref.: #64146]

Culture collection no.

DSM 100508, NBRC 111227

[Ref.: #91423]

SI-ID 397255

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Acidicapsa acidisoli sp. nov., from the acidic soil of a deciduous forest.	Matsuo H, Kudo C, Li J, Tonouchi A	Int J Syst Evol Microbiol	10.1099/ijsem.0.001688	2017	*

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 )

#25290

H. K. Matsuo, C.,Li, J.,Tonouchi, A.: Acidicapsa acidisoli sp. nov., from the acidic soil of a deciduous forest. IJSEM 67: 862 - 867 2017 ( DOI 10.1099/ijsem.0.001688 , PubMed 27902281 )

#64146

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 100508

#66792

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#68369

Automatically annotated from API 20NE .

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#91423

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-ID397255.1 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Acidicapsa acidisoli in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF