Name: Ureibacillus sinduriensis BLB-1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 23759

Type strain:

Species: Ureibacillus sinduriensis

Strain Designation: BLB-1

Culture col. no.: DSM 27595, JCM 15800, KCTC 13296

Strain history: <- YH Chang, KRIBB

NCBI tax ID(s): 561440 (species)

SI-ID 397174

DSM 27595

Section

Ureibacillus sinduriensis BLB-1 is an aerobe, spore-forming, mesophilic bacterium that was isolated from tidal flat sediment.

Gram-positive
motile
rod-shaped
spore-forming
aerobe
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	*Caryophanaceae*
	Genus	*Ureibacillus*
	Species	**Ureibacillus sinduriensis**
	Full Scientific Name (LPSN)	Ureibacillus sinduriensis (Jung et al. 2012) Gupta and Patel 2020

Synonym

Lysinibacillus sinduriensis

Information on morphological and physiological properties Morphology

[Ref.: #30343]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #30343]	Cell length	2.15 µm

[Ref.: #30343]	Cell width	0.85 µm

[Ref.: #30343]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #30343]	Motility	yes
[Ref.: #67771]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %96.897

[Ref.: #67771]	Flagellum arrangement	peritrichous

[Ref.: #30343]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #21166]

Culture medium

CASO AGAR (MERCK 105458) (DSMZ Medium 220)

[Ref.: #21166]

Culture medium growth

[Ref.: #21166]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21166]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #21166]	growth	30 °C
[Ref.: #30343]	growth	15-45 °C
[Ref.: #30343]	optimum	30 °C
[Ref.: #67770]	growth	30 °C
[Ref.: #67771]	growth	30 °C

[Ref.: #21166]	Temperature range	mesophilic
[Ref.: #30343]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #30343]			optimum	7
[Ref.: #30343]			growth	05-09

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30343]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #67771]	Type of spore	spore
[Ref.: #67771]	Ability of spore formation	yes
[Ref.: #30343]	Ability of spore formation	yes
[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.: #30343]		NaCl		growth	0-5	%

[Ref.: #67770]	Observation	quinones: MK-7
[Ref.: #67771]	Observation	quinones: MK-7

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #30343]		catalase	+	1.11.1.6
[Ref.: #30343]		gelatinase	+

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	vitamin K metabolism	100	5 of 5
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	lipoate biosynthesis	100	5 of 5
[Ref.: #66794]	valine metabolism	100	9 of 9
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	teichoic acid biosynthesis	100	1 of 1
[Ref.: #66794]	aspartate and asparagine metabolism	100	9 of 9
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	vitamin B1 metabolism	92.31	12 of 13
[Ref.: #66794]	threonine metabolism	90	9 of 10
[Ref.: #66794]	serine metabolism	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	peptidoglycan biosynthesis	86.67	13 of 15
[Ref.: #66794]	propanol degradation	85.71	6 of 7
[Ref.: #66794]	tetrahydrofolate metabolism	85.71	12 of 14
[Ref.: #66794]	leucine metabolism	84.62	11 of 13
[Ref.: #66794]	vitamin B12 metabolism	82.35	28 of 34
[Ref.: #66794]	pentose phosphate pathway	81.82	9 of 11
[Ref.: #66794]	cellulose degradation	80	4 of 5
[Ref.: #66794]	Entner Doudoroff pathway	80	8 of 10
[Ref.: #66794]	3-chlorocatechol degradation	80	4 of 5
[Ref.: #66794]	propionate fermentation	80	8 of 10
[Ref.: #66794]	heme metabolism	78.57	11 of 14
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	glutamate and glutamine metabolism	78.57	22 of 28
[Ref.: #66794]	citric acid cycle	78.57	11 of 14
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	pyrimidine metabolism	77.78	35 of 45
[Ref.: #66794]	phenylalanine metabolism	76.92	10 of 13
[Ref.: #66794]	purine metabolism	76.6	72 of 94
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	biotin biosynthesis	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	ketogluconate metabolism	75	6 of 8
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	NAD metabolism	72.22	13 of 18
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	lipid metabolism	70.97	22 of 31
[Ref.: #66794]	glycolysis	70.59	12 of 17
[Ref.: #66794]	methionine metabolism	69.23	18 of 26
[Ref.: #66794]	alanine metabolism	68.97	20 of 29
[Ref.: #66794]	degradation of pentoses	67.86	19 of 28
[Ref.: #66794]	enterobactin biosynthesis	66.67	2 of 3
[Ref.: #66794]	CO2 fixation in Crenarchaeota	66.67	6 of 9
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	molybdenum cofactor biosynthesis	66.67	6 of 9
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	66.67	2 of 3
[Ref.: #66794]	histidine metabolism	65.52	19 of 29
[Ref.: #66794]	proline metabolism	63.64	7 of 11
[Ref.: #66794]	d-xylose degradation	63.64	7 of 11
[Ref.: #66794]	non-pathway related	63.16	24 of 38
[Ref.: #66794]	oxidative phosphorylation	62.64	57 of 91
[Ref.: #66794]	arginine metabolism	62.5	15 of 24
[Ref.: #66794]	isoprenoid biosynthesis	61.54	16 of 26
[Ref.: #66794]	cysteine metabolism	61.11	11 of 18
[Ref.: #66794]	methylglyoxal degradation	60	3 of 5
[Ref.: #66794]	factor 420 biosynthesis	60	3 of 5
[Ref.: #66794]	degradation of sugar acids	60	15 of 25
[Ref.: #66794]	starch degradation	60	6 of 10
[Ref.: #66794]	lysine metabolism	59.52	25 of 42
[Ref.: #66794]	tryptophan metabolism	57.89	22 of 38
[Ref.: #66794]	degradation of hexoses	55.56	10 of 18
[Ref.: #66794]	urea cycle	53.85	7 of 13
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	glycolate and glyoxylate degradation	50	3 of 6
[Ref.: #66794]	cyclohexanol degradation	50	2 of 4
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	ribulose monophosphate pathway	50	1 of 2
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	degradation of sugar alcohols	50	8 of 16
[Ref.: #66794]	sulfate reduction	46.15	6 of 13
[Ref.: #66794]	phenylpropanoid biosynthesis	46.15	6 of 13
[Ref.: #66794]	vitamin B6 metabolism	45.45	5 of 11
[Ref.: #66794]	lipid A biosynthesis	44.44	4 of 9
[Ref.: #66794]	polyamine pathway	43.48	10 of 23
[Ref.: #66794]	reductive acetyl coenzyme A pathway	42.86	3 of 7
[Ref.: #66794]	ubiquinone biosynthesis	42.86	3 of 7
[Ref.: #66794]	glutathione metabolism	42.86	6 of 14
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	phenylacetate degradation (aerobic)	40	2 of 5
[Ref.: #66794]	gallate degradation	40	2 of 5
[Ref.: #66794]	myo-inositol biosynthesis	40	4 of 10
[Ref.: #66794]	metabolism of amino sugars and derivatives	40	2 of 5
[Ref.: #66794]	glycogen metabolism	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	tyrosine metabolism	35.71	5 of 14
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	arachidonic acid metabolism	33.33	6 of 18
[Ref.: #66794]	4-hydroxymandelate degradation	33.33	3 of 9
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	ascorbate metabolism	31.82	7 of 22
[Ref.: #66794]	androgen and estrogen metabolism	31.25	5 of 16
[Ref.: #66794]	coenzyme M biosynthesis	30	3 of 10
[Ref.: #66794]	4-hydroxyphenylacetate degradation	30	3 of 10
[Ref.: #66794]	phenol degradation	30	6 of 20
[Ref.: #66794]	bile acid biosynthesis, neutral pathway	29.41	5 of 17
[Ref.: #66794]	cholesterol biosynthesis	27.27	3 of 11
[Ref.: #66794]	metabolism of disaccharids	27.27	3 of 11
[Ref.: #66794]	3-phenylpropionate degradation	26.67	4 of 15
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	butanoate fermentation	25	1 of 4
[Ref.: #66794]	alginate biosynthesis	25	1 of 4
[Ref.: #66794]	ginsenoside metabolism	25	4 of 16
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	23.08	3 of 13
[Ref.: #66794]	nitrate assimilation	22.22	2 of 9
		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.: #21166]	Sample type/isolated from	tidal flat sediment
[Ref.: #21166]	Geographic location (country and/or sea, region)	Shinduri sand dune, Yellow Sea
[Ref.: #21166]	Country	Republic of Korea
[Ref.: #21166]	Country ISO 3 Code	KOR
[Ref.: #21166]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Tidal flat sediment in the Shinduri sand dunes of the Yellow Sea
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From tidal
[Ref.: #67771]	Geographic location (country and/or sea, region)	Taean
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Tidal flat
#Environmental	#Terrestrial	#Sediment

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence FJ169465 (>99% sequence identity) for Lysinibacillus from Microbeatlas

Aquatic Samples	139
Soil Samples	1162
Animal Samples	417
Plant Samples	97
Total Samples	1815

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

[Ref.: #21166]

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.: #21166]	Lysinibacillus sinduriensis strain BLB-1 16S ribosomal RNA gene, partial sequence	FJ169465	1412	ENA	1384057 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Ureibacillus sinduriensis BLB-1 = JCM 15800	GCA_002200845	contig	GenBank	1384057 tax ID
[Ref.: #67770]	Ureibacillus sinduriensis BLB-1 = JCM 15800	GCA_000772955	contig	GenBank	1384057 tax ID
[Ref.: #66792]	Lysinibacillus sinduriensis BLB-1 = JCM 15800	1384057.3	wgs	PATRIC	1384057 tax ID	*
[Ref.: #66792]	Lysinibacillus sinduriensis BLB-1 = JCM 15800 strain JCM 15800	1384057.4	wgs	PATRIC	1384057 tax ID	*
[Ref.: #66792]	Lysinibacillus sinduriensis BLB-1 = JCM 15800	2630968763	draft	JGI IMG/M	1384057 tax ID	*

[Ref.: #21166]	GC-content	35.9 mol%
[Ref.: #67770]	GC-content	35.9 mol%	thermal denaturation, midpoint method (Tm)

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: Lysinibacillus sinduriensis BLB-1 = JCM 15800 strain JCM 15800 PATRIC: 1384057.4
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Lysinibacillus sinduriensis BLB-1 = JCM 15800 PATRIC: 1384057.3
[Ref.: #69480]	motile	yes	89.091	no
[Ref.: #69480]	gram-positive	yes	90.635	yes
[Ref.: #69480]	anaerobic	no	98.567	yes
[Ref.: #69480]	halophile	no	77.514	no
[Ref.: #69480]	spore-forming	yes	95.736	no
[Ref.: #69480]	glucose-util	yes	88.536	no
[Ref.: #69480]	thermophile	no	99.452	yes
[Ref.: #69480]	aerobic	yes	90.53	no
[Ref.: #69480]	flagellated	yes	91.905	yes
[Ref.: #69480]	glucose-ferment	no	87.599	no

Availability in culture collections External links

[Ref.: #21166]

Culture collection no.

DSM 27595, JCM 15800, KCTC 13296

[Ref.: #87795]

SI-ID 397174

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Lysinibacillus xyleni sp. nov., isolated from a bottle of xylene.	Begum MA, Rahul K, Sasikala C, Ramana CV	Arch Microbiol	10.1007/s00203-016-1194-8	2016	*
Phylogeny	Lysinibacillus chungkukjangi sp. nov., isolated from Chungkukjang, Korean fermented soybean food.	Kim SJ, Jang YH, Hamada M, Ahn JH, Weon HY, Suzuki K, Whang KS, Kwon SW	J Microbiol	10.1007/s12275-013-2664-1	2013	*
Phylogeny	Description of Lysinibacillus sinduriensis sp. nov., and transfer of Bacillus massiliensis and Bacillus odysseyi to the genus Lysinibacillus as Lysinibacillus massiliensis comb. nov. and Lysinibacillus odysseyi comb. nov. with emended description of the genus Lysinibacillus.	Jung MY, Kim JS, Paek WK, Styrak I, Park IS, Sin Y, Paek J, Park KA, Kim H, Kim HL, Chang YH	Int J Syst Evol Microbiol	10.1099/ijs.0.033837-0	2011	*
Phylogeny	Isolation and characterization of a novel piezotolerant bacterium Lysinibacillus yapensis sp. nov., from deep-sea sediment of the Yap Trench, Pacific Ocean.	Yu L, Tang X, Wei S, Qiu Y, Xu X, Xu G, Wang Q, Yang Q	J Microbiol	10.1007/s12275-019-8709-3	2019	*
Phylogeny	Description of Lysinibacillus telephonicus sp. nov., isolated from the screen of a cellular phone.	Rahi P, Kurli R, Khairnar M, Jagtap S, Pansare AN, Dastager SG, Shouche YS	Int J Syst Evol Microbiol	10.1099/ijsem.0.001943	2017	*
Phylogeny	Lysinibacillus endophyticus sp. nov., an indole-3-acetic acid producing endophytic bacterium isolated from corn root (Zea mays cv. Xinken-5).	Yu J, Guan X, Liu C, Xiang W, Yu Z, Liu X, Wang G	Antonie Van Leeuwenhoek	10.1007/s10482-016-0732-3	2016	*
Phylogeny	[Microbiological characteristics of a Lysinibacillus strain isolated from Populous euphratica].	Anwar N, Erkin R, Mamtimin H, Hamood B, Ismayi N, Abdukerim M, Rahman E	Wei Sheng Wu Xue Bao		2015	*

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 )

#21166

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27595

#30343

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 #26684 (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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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 )

#87795

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-ID397174.1 )

#26684

IJSEM 2347 2012 ( DOI 10.1099/ijs.0.033837-0 , PubMed 22140163 )

* These data were automatically processed and therefore are not curated

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Lysinibacillus sinduriensis BLB-1 = JCM 15800 strain JCM 15800

Lysinibacillus sinduriensis BLB-1 = JCM 15800

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