Name: Amphibacillus indicireducens C40
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 23741

Type strain:

Species: Amphibacillus indicireducens

Strain Designation: C40

Culture col. no.: DSM 27992, JCM 17250, NCIMB 14686

Strain history: I. Yumoto C40.

NCBI tax ID(s): 1076330 (species)

SI-ID 404006

DSM 27992

Special Collections

Section

Amphibacillus indicireducens C40 is a microaerophile, spore-forming, Gram-positive bacterium that was isolated from Polygonum Indigo fermentation liquor.

Gram-positive
motile
rod-shaped
spore-forming
microaerophile
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	*Bacillota*
	Class	*Bacilli*
	Order	*Caryophanales*
	Family	*Bacillaceae*
	Genus	*Amphibacillus*
	Species	**Amphibacillus indicireducens**
	Full Scientific Name (LPSN)	Amphibacillus indicireducens Hirota et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30506]	Gram stain	positive

[Ref.: #30506]	Cell length	2 µm

[Ref.: #30506]	Cell width	0.4 µm

[Ref.: #30506]	Cell shape	rod-shaped

[Ref.: #30506]	Motility	yes

[Ref.: #30506]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #20923]

Culture medium

TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)

[Ref.: #20923]

Culture medium growth

[Ref.: #20923]

Culture medium link

Medium recipe at MediaDive

[Ref.: #20923]

Culture medium composition

expand / minimize

[Ref.: #20923]

Culture medium

CASO AGAR (MERCK 105458) (DSMZ Medium 220)

[Ref.: #20923]

Culture medium growth

[Ref.: #20923]

Culture medium link

Medium recipe at MediaDive

[Ref.: #20923]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #20923]	growth	35 °C
[Ref.: #30506]	growth	17-39 °C
[Ref.: #30506]	optimum	35 °C
[Ref.: #67770]	growth	30 °C

	pH	Kind of pH		pH
[Ref.: #30506]			optimum	10
[Ref.: #30506]			growth	09-12

Information on physiology and metabolism Physiology and metabolism

[Ref.: #20923]	Oxygen tolerance	microaerophile
[Ref.: #30506]	Oxygen tolerance	facultative anaerobe

[Ref.: #30506]

Ability of spore formation

yes

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30506]		NaCl		growth	0-7	%
[Ref.: #30506]		NaCl		optimum	0.5	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30506]	arabinose ChEBI	+	carbon source
[Ref.: #30506]	cellobiose ChEBI	+	carbon source
[Ref.: #30506]	fructose ChEBI	+	carbon source
[Ref.: #30506]	galactose ChEBI	+	carbon source
[Ref.: #30506]	glucose ChEBI	+	carbon source
[Ref.: #30506]	lactose ChEBI	+	carbon source
[Ref.: #30506]	mannose ChEBI	+	carbon source
[Ref.: #30506]	melibiose ChEBI	+	carbon source
[Ref.: #30506]	raffinose ChEBI	+	carbon source
[Ref.: #30506]	rhamnose ChEBI	+	carbon source
[Ref.: #30506]	sucrose ChEBI	+	carbon source
[Ref.: #30506]	trehalose ChEBI	+	carbon source
[Ref.: #30506]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #30506]		alpha-galactosidase	+	3.2.1.22

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

[Ref.: #20923]	Sample type/isolated from	Polygonum Indigo (Polygonum tinctorium Lour.) fermentation liquor
[Ref.: #20923]	Host species	Polygonum tinctorium
[Ref.: #20923]	Geographic location (country and/or sea, region)	Hokkaido, Date City
[Ref.: #20923]	Country	Japan
[Ref.: #20923]	Country ISO 3 Code	JPN
[Ref.: #20923]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Polygonum indigo (Polygonum tinctorium Lour.) fermentation liquor from Date City
[Ref.: #67770]	Host species	Polygonum tinctorium
[Ref.: #67770]	Geographic location (country and/or sea, region)	Hokkaido
[Ref.: #67770]	Country	Japan
[Ref.: #67770]	Country ISO 3 Code	JPN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Food production	#Fermented
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Engineered	#Food production	#Beverage

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB665218 (>99% sequence identity) for Amphibacillus indicireducens subclade from Microbeatlas

Aquatic Samples	110
Soil Samples	336
Animal Samples	1181
Plant Samples	44
Total Samples	1671

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

[Ref.: #20923]

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.: #20923]	Amphibacillus indicireducens gene for 16S rRNA, partial sequence	AB665218	1537	GenBank ENA	1076330 tax ID

[Ref.: #20923]	GC-content	37.5 mol%	high performance liquid chromatography (HPLC)
[Ref.: #30506]	GC-content	37.5 mol%

Availability in culture collections External links

[Ref.: #20923]

Culture collection no.

DSM 27992, JCM 17250, NCIMB 14686

[Ref.: #87778]

SI-ID 404006

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Amphibacillus indicireducens sp. nov., an alkaliphile that reduces an indigo dye.	Hirota K, Aino K, Nodasaka Y, Morita N, Yumoto I	Int J Syst Evol Microbiol	10.1099/ijs.0.037622-0	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 )

#20923

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27992

#30506

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 #26838 (see below)

#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 .

#87778

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-ID404006.1 )

#26838

IJSEM 464 2013 ( DOI 10.1099/ijs.0.037622-0 , PubMed 22493173 )

* These data were automatically processed and therefore are not curated

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