Name: Oceanobacillus indicireducens A21
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 23737

Type strain:

Species: Oceanobacillus indicireducens

Strain Designation: A21

Culture col. no.: DSM 28042, JCM 17251, NCIMB 14685, BCRC 80660

Strain history: I. Yumoto A21.

NCBI tax ID(s): 1004261 (species)

SI-ID 398524

DSM 28042

Special Collections

Section

Oceanobacillus indicireducens A21 is an aerobe, spore-forming, Gram-positive bacterium that was isolated from fermented Polygonum indigo liquor sample aged for 4 days prepared in a laboratory.

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	*Oceanobacillus*
	Species	**Oceanobacillus indicireducens**
	Full Scientific Name (LPSN)	Oceanobacillus indicireducens Hirota et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30373]	Gram stain	positive

[Ref.: #30373]	Cell length	6.5 µm

[Ref.: #30373]	Cell width	2.15 µm

[Ref.: #30373]	Cell shape	rod-shaped

[Ref.: #30373]	Motility	yes

[Ref.: #30373]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #20697]

Culture medium

HORIKOSHI-1 MEDIUM (DSMZ Medium 1081)

[Ref.: #20697]

Culture medium growth

[Ref.: #20697]

Culture medium link

Medium recipe at MediaDive

[Ref.: #20697]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #20697]	growth	37 °C
[Ref.: #30373]	growth	18-48 °C
[Ref.: #30373]	optimum	39 °C
[Ref.: #67770]	growth	30 °C

	pH	Kind of pH		pH
[Ref.: #30373]			optimum	10
[Ref.: #30373]			growth	07-12

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30373]

Oxygen tolerance

aerobe

[Ref.: #30373]	Ability of spore formation	yes
[Ref.: #69480]	Ability of spore formation	yes Confidence in %90.018
[Ref.: #69481]	Ability of spore formation	yes Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30373]		NaCl		growth	0-10	%
[Ref.: #30373]		NaCl		optimum	5	%

[Ref.: #30373]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30373]	cellobiose ChEBI	+	carbon source
[Ref.: #30373]	fructose ChEBI	+	carbon source
[Ref.: #30373]	glucose ChEBI	+	carbon source
[Ref.: #30373]	glycogen ChEBI	+	carbon source
[Ref.: #30373]	maltose ChEBI	+	carbon source
[Ref.: #30373]	mannitol ChEBI	+	carbon source
[Ref.: #30373]	mannose ChEBI	+	carbon source
[Ref.: #30373]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #30373]	raffinose ChEBI	+	carbon source
[Ref.: #30373]	salicin ChEBI	+	carbon source
[Ref.: #30373]	sucrose ChEBI	+	carbon source
[Ref.: #30373]	trehalose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #30373]	catalase	+	1.11.1.6
[Ref.: #30373]	cytochrome oxidase	+	1.9.3.1
[Ref.: #30373]	gelatinase	+
[Ref.: #30373]	urease	+	3.5.1.5

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

[Ref.: #20697]	Sample type/isolated from	fermented Polygonum indigo ( Polygonum tinctorium Lour.) liquor sample aged for 4 days prepared in a laboratory
[Ref.: #20697]	Host species	Polygonum tinctorium
[Ref.: #20697]	Geographic location (country and/or sea, region)	Hokkaido
[Ref.: #20697]	Country	Japan
[Ref.: #20697]	Country ISO 3 Code	JPN
[Ref.: #20697]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Fermented Polygonum indigo (Polygonum tinctorium Lour.) liquor sample aged for 4 days prepared in a laboratory
[Ref.: #67770]	Host species	Polygonum tinctorium
* marker position based on {}

Isolation sources categories

#Engineered	#Food production	#Fermented
#Engineered	#Laboratory	-
#Host	#Plants	#Shrub (Scrub)
#Engineered	#Food production	#Beverage

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB623011 (>99% sequence identity) for Oceanobacillus indicireducens subclade from Microbeatlas

Aquatic Samples	55
Soil Samples	73
Animal Samples	211
Plant Samples	7
Total Samples	346

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

[Ref.: #20697]

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.: #20697]	Oceanobacillus indicireducens gene for 16S ribosomal RNA, partial sequence	AB623011	1516	GenBank ENA	1004261 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Oceanobacillus indicireducens JCM 17251	GCA_014647195	scaffold	GenBank ENA	1004261 tax ID	*
[Ref.: #66792]	Oceanobacillus indicireducens strain JCM 17251	1004261.3	wgs	PATRIC	1004261 tax ID	*

[Ref.: #20697]	GC-content	39.7 mol%	high performance liquid chromatography (HPLC)
[Ref.: #30373]	GC-content	39.7 mol%

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Oceanobacillus indicireducens JCM 17251 NCBI: GCA_014647195.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Oceanobacillus indicireducens JCM 17251 NCBI: GCA_014647195.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	71.456	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	90.013	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	72.854	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	90.018	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	89.831	no
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	79.234	no

Availability in culture collections External links

[Ref.: #20697]

Culture collection no.

DSM 28042, JCM 17251, NCIMB 14685, BCRC 80660

[Ref.: #87774]

SI-ID 398524

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Oceanobacillus indicireducens sp. nov., a facultative alkaliphile that reduces an indigo dye.	Hirota K, Aino K, Nodasaka Y, Yumoto I	Int J Syst Evol Microbiol	10.1099/ijs.0.034579-0	2012	*

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 )

#20697

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 28042

#30373

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26713 (see below)

#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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 )

#87774

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-ID398524.1 )

#26713

IJSEM 1437 2013 ( DOI 10.1099/ijs.0.034579-0 , PubMed 22843722 )

* These data were automatically processed and therefore are not curated

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Oceanobacillus indicireducens JCM 17251

Oceanobacillus indicireducens JCM 17251

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