Name: Gracilibacillus alcaliphilus DSM 102988
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 132180

Type strain:

Species: Gracilibacillus alcaliphilus

Culture col. no.: DSM 102988, JCM 17253, NCIMB 14683, SG 103

Strain history: I. Yumoto SG103.

NCBI tax ID(s): 1401441 (species)

SI-ID 407314

DSM 102988

Section

Gracilibacillus alcaliphilus DSM 102988 is a spore-forming, mesophilic, motile bacterium that was isolated from Polygonum indigo fermentation liquor.

motile
spore-forming
mesophilic
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	*Gracilibacillus*
	Species	**Gracilibacillus alcaliphilus**
	Full Scientific Name (LPSN)	Gracilibacillus alcaliphilus Hirota et al. 2014

Information on morphological and physiological properties Morphology

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

[Ref.: #69480]	Motility	yes Confidence in %96.152

Information on culture and growth conditions Culture and growth conditions

[Ref.: #23969]

Culture medium

ALKALINE NUTRIENT AGAR (DSMZ Medium 31)

[Ref.: #23969]

Culture medium growth

[Ref.: #23969]

Culture medium link

Medium recipe at MediaDive

[Ref.: #23969]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #23969]			growth	35 °C
[Ref.: #67770]			growth	30 °C

[Ref.: #23969]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

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

[Ref.: #67770]

Observation

quinones: MK-7

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

[Ref.: #23969]	Sample type/isolated from	Polygonum indigo (Polygonum tinctorium Lour.) fermentation liquor
[Ref.: #23969]	Host species	Polygonum indigo (Polygonum tinctorium)
[Ref.: #23969]	Geographic location (country and/or sea, region)	Dark City, Hokkaido
[Ref.: #23969]	Country	Japan
[Ref.: #23969]	Country ISO 3 Code	JPN
[Ref.: #23969]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Polygonum indigo _((Polygonum tincto)) fermentation liquor for dyeing
[Ref.: #67770]	Host species	Polygonum
* marker position based on {}

Isolation sources categories

#Engineered	#Industrial	-
#Host	#Plants	#Herbaceous plants (Grass,Crops)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB854047 (>99% sequence identity) for Gracilibacillus alcaliphilus subclade from Microbeatlas

Aquatic Samples	14
Soil Samples	95
Animal Samples	42
Plant Samples	55
Total Samples	206

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

[Ref.: #23969]

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.: #23969]	Gracilibacillus alcaliphilus gene for 16S ribosomal RNA, partial sequence	AB854047	1534	ENA	1401441 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Gracilibacillus alcaliphilus DSM 102988	GCA_016909015	contig	GenBank	1401441 tax ID	*
[Ref.: #66792]	Gracilibacillus alcaliphilus strain DSM 102988	1401441.3	wgs	PATRIC	1401441 tax ID	*
[Ref.: #66792]	Gracilibacillus alcaliphilus DSM 102988	2901254292	draft	JGI IMG/M	1401441 tax ID	*

[Ref.: #23969]	GC-content	41.3 mol%
[Ref.: #67770]	GC-content	41.3 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: Gracilibacillus alcaliphilus strain DSM 102988 PATRIC: 1401441.3
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Gracilibacillus alcaliphilus strain DSM 102988 PATRIC: 1401441.3
[Ref.: #69480]	motile	yes	91.554	no
[Ref.: #69480]	gram-positive	yes	87.994	no
[Ref.: #69480]	anaerobic	no	98.945	no
[Ref.: #69480]	halophile	yes	76.882	no
[Ref.: #69480]	spore-forming	yes	93.11	no
[Ref.: #69480]	thermophile	no	99.217	yes
[Ref.: #69480]	glucose-util	yes	87.513	no
[Ref.: #69480]	aerobic	yes	91.14	no
[Ref.: #69480]	flagellated	yes	87.021	no
[Ref.: #69480]	glucose-ferment	no	80.839	no

Availability in culture collections External links

[Ref.: #23969]

Culture collection no.

DSM 102988, JCM 17253, NCIMB 14683, SG 103

[Ref.: #90535]

SI-ID 407314

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Gracilibacillus alcaliphilus sp. nov., a facultative alkaliphile isolated from indigo fermentation liquor for dyeing.	Hirota K, Hanaoka Y, Nodasaka Y, Yumoto I	Int J Syst Evol Microbiol	10.1099/ijs.0.060871-0	2014	*
Phylogeny	Genome sequence and description of Gracilibacillus timonensis sp. nov. strain Marseille-P2481(T) , a moderate halophilic bacterium isolated from the human gut microflora.	Diop A, Seck EH, Dubourg G, Armstrong N, Blanc-Tailleur C, Raoult D, Fournier PE	Microbiologyopen	10.1002/mbo3.638	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 )

#23969

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 102988

#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 )

#90535

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-ID407314.1 )

* These data were automatically processed and therefore are not curated

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Gracilibacillus alcaliphilus strain DSM 102988

Gracilibacillus alcaliphilus strain DSM 102988

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