Name: Acidicapsa dinghuensis 4GSKX
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 159709

Type strain:

Species: Acidicapsa dinghuensis

Strain Designation: 4GSKX

Culture col. no.: CGMCC 1.15449, LMG 29213

NCBI tax ID(s): 2218256 (species)

Section

Acidicapsa dinghuensis 4GSKX is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from upper layer of forest soil .

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 dinghuensis**
	Full Scientific Name (LPSN)	Acidicapsa dinghuensis Ou-Yang et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #66598]	Gram stain	negative

[Ref.: #66598]	Cell length	0.5-1.5 µm

[Ref.: #66598]	Cell width	0.4-0.8 µm

[Ref.: #66598]	Cell shape	rod-shaped

[Ref.: #66598]	Motility	no

[Ref.: #66598]	Colony color	semitransparent beige
[Ref.: #66598]	Colony shape	circular
[Ref.: #66598]	Cultivation medium used	MM1F agar medium

Information on culture and growth conditions Culture and growth conditions

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Culture medium

MM1F agar medium

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Culture medium growth

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Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #66598]			growth	12-37 °C
[Ref.: #66598]			optimum	25-30 °C

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Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #66598]			optimum	4.5-5
[Ref.: #66598]			growth	4-6.5

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.: #66598]		NaCl		growth	0-1	%(w/v)

[Ref.: #66598]	Observation	non-capsule-forming
[Ref.: #66598]	Observation	reproduce by binary fusion

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #66598]	amygdalin ChEBI	-	carbon source
[Ref.: #66598]	arbutin ChEBI	-	carbon source
[Ref.: #66598]	cellobiose ChEBI	-	carbon source
[Ref.: #66598]	D-arabinose ChEBI	-	carbon source
[Ref.: #66598]	D-arabitol ChEBI	-	carbon source
[Ref.: #66598]	D-fructose ChEBI	+	carbon source
[Ref.: #66598]	D-fucose ChEBI	-	carbon source
[Ref.: #66598]	D-galactose ChEBI	+	carbon source
[Ref.: #66598]	D-glucose ChEBI	+	carbon source
[Ref.: #66598]	D-lyxose ChEBI	-	carbon source
[Ref.: #66598]	D-mannitol ChEBI	-	carbon source
[Ref.: #66598]	D-mannose ChEBI	+	carbon source
[Ref.: #66598]	D-ribose ChEBI	-	carbon source
[Ref.: #66598]	D-sorbitol ChEBI	-	carbon source
[Ref.: #66598]	D-tagatose ChEBI	-	carbon source
[Ref.: #66598]	D-xylose ChEBI	+	carbon source
[Ref.: #66598]	erythritol ChEBI	-	carbon source
[Ref.: #66598]	esculin ChEBI	+	hydrolysis
[Ref.: #66598]	esculin ferric citrate	+	carbon source
[Ref.: #66598]	galactitol ChEBI	-	carbon source
[Ref.: #66598]	gelatin ChEBI	+	hydrolysis
[Ref.: #66598]	gentiobiose ChEBI	+	carbon source
[Ref.: #66598]	glucose ChEBI	-	fermentation
[Ref.: #66598]	glycerol ChEBI	+	carbon source
[Ref.: #66598]	glycogen ChEBI	-	carbon source
[Ref.: #66598]	inulin ChEBI	+	carbon source
[Ref.: #66598]	L-arabinose ChEBI	-	carbon source
[Ref.: #66598]	L-arabitol ChEBI	-	carbon source
[Ref.: #66598]	L-fucose ChEBI	-	carbon source
[Ref.: #66598]	L-rhamnose ChEBI	+	carbon source
[Ref.: #66598]	L-sorbose ChEBI	-	carbon source
[Ref.: #66598]	L-xylose ChEBI	-	carbon source
[Ref.: #66598]	lactose ChEBI	-	carbon source
[Ref.: #66598]	maltose ChEBI	-	carbon source
[Ref.: #66598]	melezitose ChEBI	+	carbon source
[Ref.: #66598]	melibiose ChEBI	+	carbon source
[Ref.: #66598]	methyl alpha-D-glucopyranoside ChEBI	-	carbon source
[Ref.: #66598]	methyl alpha-D-mannoside ChEBI	+	carbon source
[Ref.: #66598]	methyl beta-D-xylopyranoside ChEBI	+	carbon source
[Ref.: #66598]	myo-inositol ChEBI	-	carbon source
[Ref.: #66598]	N-acetylglucosamine ChEBI	-	carbon source
[Ref.: #66598]	nitrate ChEBI	-	reduction
[Ref.: #66598]	potassium 2-dehydro-D-gluconate	+	carbon source
[Ref.: #66598]	potassium 5-dehydro-D-gluconate	-	carbon source
[Ref.: #66598]	potassium gluconate ChEBI	-	carbon source
[Ref.: #66598]	raffinose ChEBI	-	carbon source
[Ref.: #66598]	ribitol ChEBI	-	carbon source
[Ref.: #66598]	salicin ChEBI	-	carbon source
[Ref.: #66598]	starch ChEBI	-	carbon source
[Ref.: #66598]	sucrose ChEBI	+	carbon source
[Ref.: #66598]	trehalose ChEBI	-	carbon source
[Ref.: #66598]	turanose ChEBI	+	carbon source
[Ref.: #66598]	xylitol ChEBI	-	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #66598]	Amikacin ChEBI				yes	30	µg (disc)
[Ref.: #66598]	chloramphenicol ChEBI	yes	30	µg (disc)
[Ref.: #66598]	ciprofloxacin ChEBI	yes	5	µg (disc)
[Ref.: #66598]	erythromycin ChEBI	yes	15	µg (disc)
[Ref.: #66598]	gentamicin ChEBI				yes	10	µg (disc)
[Ref.: #66598]	kanamycin ChEBI				yes	30	µg (disc)
[Ref.: #66598]	neomycin ChEBI	yes	30	µg (disc)
[Ref.: #66598]	netilmycin ChEBI				yes	30	µg (disc)
[Ref.: #66598]	penicillin ChEBI	yes	10	Unit (disc)
[Ref.: #66598]	polymyxin ChEBI	yes	300	Unit (disc)
[Ref.: #66598]	streptomycin ChEBI	yes	10	µg (disc)
[Ref.: #66598]	tetracycline ChEBI	yes	30	µg (disc)
[Ref.: #66598]	tobramycin ChEBI	yes	10	µg (disc)
[Ref.: #66598]	vancomycin ChEBI	yes	30	µg (disc)
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #66598]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #66598]	acid phosphatase	+	3.1.3.2
[Ref.: #66598]	alkaline phosphatase	+	3.1.3.1
[Ref.: #66598]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #66598]	alpha-fucosidase	+	3.2.1.51
[Ref.: #66598]	alpha-galactosidase	+	3.2.1.22
[Ref.: #66598]	alpha-glucosidase	+	3.2.1.20
[Ref.: #66598]	alpha-mannosidase	+	3.2.1.24
[Ref.: #66598]	beta-galactosidase	+	3.2.1.23
[Ref.: #66598]	beta-glucosidase	+	3.2.1.21
[Ref.: #66598]	beta-glucuronidase	+	3.2.1.31
[Ref.: #66598]	catalase	-	1.11.1.6
[Ref.: #66598]	cystine arylamidase	+	3.4.11.3
[Ref.: #66598]	cytochrome oxidase	-	1.9.3.1
[Ref.: #66598]	esterase (C 4)	+
[Ref.: #66598]	esterase Lipase (C 8)	-
[Ref.: #66598]	leucine arylamidase	+	3.4.11.1
[Ref.: #66598]	lipase (C 14)	-
[Ref.: #66598]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #66598]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #66598]	trypsin	-	3.4.21.4
[Ref.: #66598]	urease	-	3.5.1.5
[Ref.: #66598]	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.: #66598]	Sample type/isolated from	upper layer of forest soil (0-25 cm)
[Ref.: #66598]	Geographic location (country and/or sea, region)	Dinghushan Biosphere Reserve, located at Guangdong Province
[Ref.: #66598]	Country	China
[Ref.: #66598]	Country ISO 3 Code	CHN
[Ref.: #66598]	Continent	Asia
[Ref.: #66598]	Enrichment culture	MM1F agar medium
[Ref.: #66598]	Enrichment culture composition	(0.04 g MgSO4 x 7H2O, 0.02 g CaCl2 x 2H2O, 0.05 g yeast extract, 0.5 g fructose in 1 litre of distilled water, pH 5.0)
[Ref.: #66598]	Enrichment culture duration	2 weeks
[Ref.: #66598]	Enrichment culture temperature	28 ̊C
[Ref.: #66598]	Isolation/enrichment procedure	sample was suspended in 100 mM phosphate buffered saline, 1/10 diluted three times, and then innoculated on MM1F agar medium and incubated at 28°C for 2 weeks.
* 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.: #66598]	Acidicapsa sp. strain 4GSKX 16S ribosomal RNA gene, partial sequence	MF150300	1464	ENA	2218256 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Acidicapsa dinghuensis 4GSKX	GCA_025685685	contig	GenBank	2218256 tax ID	*

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GC-content

52.8 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 dinghuensis 4GSKX NCBI: GCA_025685685.1
[Ref.: #69480]	motile	no	90.324	yes
[Ref.: #69480]	flagellated	no	96.648	yes
[Ref.: #69480]	gram-positive	no	94.834	no
[Ref.: #69480]	anaerobic	no	98.893	no
[Ref.: #69480]	aerobic	yes	89.818	yes
[Ref.: #69480]	halophile	no	94.488	no
[Ref.: #69480]	spore-forming	no	91.669	yes
[Ref.: #69480]	glucose-ferment	no	90.564	no
[Ref.: #69480]	thermophile	no	98.494	no
[Ref.: #69480]	glucose-util	yes	70.626	no

Availability in culture collections External links

[Ref.: #66598]

Culture collection no.

CGMCC 1.15449, LMG 29213

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Acidicapsa dinghuensis sp. nov., a novel acidobacterium isolated from forest soil.	Ou-Yang TN, Xia F, Qiu LH	Int J Syst Evol Microbiol	10.1099/ijsem.0.002846	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 )

#66598

Tian-na Ou-yang, Fan Xia, Li-hong Qiu: Acidicapsa dinghuensis sp. nov., a novel acidobacterium isolated from forest soil. IJSEM 68: 2364 - 2369 2018 ( DOI 10.1099/ijsem.0.002846 , PubMed 29873630 )

#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) .

#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) .

* These data were automatically processed and therefore are not curated

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