Name: Domibacillus antri XD80
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 141063

Type strain:

Species: Domibacillus antri

Strain Designation: XD80

Culture col. no.: CCTCC AB 2015053, KCTC 33636, DSM 104295

Strain history: <- China Center for Type Culture Collection (CCTCC); CCTCC AB2015053

NCBI tax ID(s): 1714264 (species)

SI-ID 402017

DSM 104295

Section

Domibacillus antri XD80 is an aerobe, spore-forming, Gram-positive bacterium that forms circular colonies and was isolated from soil of a native cave Tenglongdong, Lichuan, Hubei province, China.

colony-forming
Gram-positive
motile
rod-shaped
spore-forming
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	*Bacillota*
	Class	*Bacilli*
	Order	*Caryophanales*
	Family	*Bacillaceae*
	Genus	*Domibacillus*
	Species	**Domibacillus antri**
	Full Scientific Name (LPSN)	Domibacillus antri Xu et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #43948]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #43948]	Cell length	1.5-2.2 µm

[Ref.: #43948]	Cell width	0.5-0.6 µm

[Ref.: #43948]	Cell shape	rod-shaped

[Ref.: #43948]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %94.694

[Ref.: #43948]	Colony size	2-3 mm
[Ref.: #43948]	Colony color	translucent
[Ref.: #43948]	Colony shape	circular
[Ref.: #43948]	Incubation period	4 days
[Ref.: #43948]	Cultivation medium used	Tryptic soy broth agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #68990]

Culture medium

CASO AGAR (MERCK 105458) (DSMZ Medium 220)

[Ref.: #68990]

Culture medium growth

[Ref.: #68990]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #43948]

Culture medium

Tryptic soy broth agar

[Ref.: #43948]

Culture medium growth

[Ref.: #43948]

Culture medium

Reasoner's 2A agar (R2A)

[Ref.: #43948]

Culture medium growth

		Temperature
[Ref.: #43948]	growth	15-42 °C
[Ref.: #43948]	optimum	28 °C
[Ref.: #67771]	growth	28 °C
[Ref.: #68990]	growth	30 °C

[Ref.: #43948]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic
[Ref.: #68990]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #43948]			optimum	7.0-7.5
[Ref.: #43948]			growth	6.0-10.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43948]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #69481]	Ability of spore formation	yes Confidence in %100
[Ref.: #69480]	Ability of spore formation	yes Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43948]		NaCl		growth	0-6.5	%(w/v)
[Ref.: #43948]		NaCl		optimum	2.5	%(w/v)

[Ref.: #43948]

Observation

quinone MK-6

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43948]	3-hydroxybenzoate ChEBI	+	carbon source
[Ref.: #43948]	4-hydroxybenzoate ChEBI	+	carbon source
[Ref.: #43948]	acetate ChEBI	+	carbon source
[Ref.: #43948]	casein	-	hydrolysis
[Ref.: #43948]	D-glucose ChEBI	+	carbon source
[Ref.: #43948]	D-tagatose ChEBI	-	builds acid from
[Ref.: #43948]	esculin ChEBI	+	builds acid from
[Ref.: #43948]	fructose ChEBI	+	builds acid from
[Ref.: #43948]	glucose ChEBI	+	builds acid from
[Ref.: #43948]	glycogen ChEBI	-	builds acid from
[Ref.: #43948]	glycogen ChEBI	+	carbon source
[Ref.: #43948]	L-alanine 4-nitroanilide	+	carbon source
[Ref.: #43948]	lactate ChEBI	+	carbon source
[Ref.: #43948]	maltose hydrate	+	builds acid from
[Ref.: #43948]	mannitol ChEBI	+	builds acid from
[Ref.: #43948]	mannitol ChEBI	+	carbon source
[Ref.: #43948]	myo-inositol ChEBI	+	builds acid from
[Ref.: #43948]	myo-inositol ChEBI	+	carbon source
[Ref.: #43948]	propionate ChEBI	+	carbon source
[Ref.: #43948]	raffinose ChEBI	-	builds acid from
[Ref.: #43948]	salicin ChEBI	+	carbon source
[Ref.: #43948]	starch ChEBI	-	hydrolysis
[Ref.: #43948]	sucrose ChEBI	+	builds acid from
[Ref.: #43948]	sucrose ChEBI	+	carbon source
[Ref.: #43948]	synanthrin	-	builds acid from
[Ref.: #43948]	trehalose ChEBI	+	builds acid from
[Ref.: #43948]	tween 40 ChEBI	-	hydrolysis
[Ref.: #43948]	tween 60 ChEBI	+	hydrolysis
[Ref.: #43948]	tween 80 ChEBI	+	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #43948]	acid phosphatase	+	3.1.3.2
[Ref.: #43948]	alkaline phosphatase	+	3.1.3.1
[Ref.: #43948]	alpha-glucosidase	+	3.2.1.20
[Ref.: #43948]	amylase	-
[Ref.: #43948]	catalase	+	1.11.1.6
[Ref.: #43948]	chymotrypsin	+	3.4.4.5
[Ref.: #43948]	cytochrome oxidase	-	1.9.3.1
[Ref.: #43948]	esterase (C 4)	+
[Ref.: #43948]	esterase Lipase (C 8)	+
[Ref.: #43948]	gelatinase	-
[Ref.: #43948]	leucine arylamidase	+	3.4.11.1
[Ref.: #43948]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #43948]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #43948]

Fatty acid	Percentage
C15:0 iso	37.3
C15:0 anteiso	10.8
C16:0	10.4
C17:0 iso	10.3
C16:1ω11c	9.6
C17:0 anteiso	7.4
C17:1 iso ω10c	2.3
C14:0	2.1
C18:0	1
C16:0 iso	0.8
C17:1 anteiso ω9c	0.8
C18:1ω7c	0.6
C18:1ω9c	0.6

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

[Ref.: #43948]	Sample type/isolated from	soil of a native cave Tenglongdong, Lichuan, Hubei province, China
[Ref.: #43948]	Geographic location (country and/or sea, region)	Tenglongdong, Lichuan, Hubei province
[Ref.: #43948]	Country	China
[Ref.: #43948]	Country ISO 3 Code	CHN
[Ref.: #43948]	Continent	Asia
[Ref.: #43948]	Geographic location	30.3319°/108.9830°
[Ref.: #43948]	Enrichment culture	Chemical defined medium, pH 7.0
[Ref.: #43948]	Enrichment culture duration	5-7 days
[Ref.: #43948]	Enrichment culture temperature	28 ̊C

[Ref.: #67771]	Sample type/isolated from	From the soil of a native cave in Lichuan
[Ref.: #67771]	Geographic location (country and/or sea, region)	Hubei province
[Ref.: #67771]	Country	China
[Ref.: #67771]	Country ISO 3 Code	CHN
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KT719299 (>99% sequence identity) for Domibacillus from Microbeatlas

Aquatic Samples	22
Soil Samples	89
Animal Samples	22
Plant Samples	26
Total Samples	159

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

[Ref.: #68990]

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.: #43948]	16S rRNA gene sequence	KT719299		GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Domibacillus antri XD80	GCA_001936625	contig	GenBank	1714264 tax ID	*
[Ref.: #66792]	Domibacillus antri strain XD80	1714264.4	wgs	PATRIC	1714264 tax ID	*
[Ref.: #66792]	Domibacillus antri XD80	2788500367	draft	JGI IMG/M	1714264 tax ID	*

[Ref.: #43948]

GC-content

46.6 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 GenomeNet Sporulation v. 1 based on: Domibacillus antri strain XD80 PATRIC: 1714264.4
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Domibacillus antri strain XD80 PATRIC: 1714264.4
[Ref.: #69480]	motile	yes	90.736	yes
[Ref.: #69480]	gram-positive	yes	91.259	yes
[Ref.: #69480]	anaerobic	no	97.107	yes
[Ref.: #69480]	aerobic	yes	91.504	yes
[Ref.: #69480]	halophile	no	86.74	no
[Ref.: #69480]	spore-forming	yes	93.901	no
[Ref.: #69480]	glucose-util	yes	88.179	no
[Ref.: #69480]	flagellated	yes	90.893	no
[Ref.: #69480]	thermophile	no	92.872	yes
[Ref.: #69480]	glucose-ferment	no	86.299	no

Availability in culture collections External links

[Ref.: #43948]

Culture collection no.

CCTCC AB 2015053, KCTC 33636, DSM 104295

[Ref.: #96851]

SI-ID 402017

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Domibacillus mangrovi sp. nov. and Domibacillus epiphyticus sp. nov., isolated from marine habitats of the central west coast of India.	Verma A, Ojha AK, Dastager SG, Natarajan R, Mayilraj S, Krishnamurthi S	Int J Syst Evol Microbiol	10.1099/ijsem.0.002085	2017	*
Phylogeny	Domibacillus antri sp. nov., isolated from the soil of a cave.	Xu D, Wang L, Wang G, Zheng S	Int J Syst Evol Microbiol	10.1099/ijsem.0.001080	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 )

#43948

Ding Xu, Libing Wang, Gejiao Wang, Shixue Zheng: Domibacillus antri sp. nov., isolated from the soil of a cave. IJSEM 66: 2502 - 2508 2016 ( DOI 10.1099/ijsem.0.001080 , PubMed 27073919 )

#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) .

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#68990

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 104295

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#96851

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-ID402017.1 )

* These data were automatically processed and therefore are not curated

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Domibacillus antri strain XD80

Domibacillus antri strain XD80

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