Name: Lysinibacillus boronitolerans 10a
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 1538

Type strain:

Species: Lysinibacillus boronitolerans

Strain Designation: 10a

Culture col. no.: DSM 17140, ATCC BAA-1146, IAM 15262, JCM 21713, CIP 109652, NBRC 103108

Strain history: CIP <- 2007, JCM <- 2007, IAM <- I. Ahmed, Tokyo Univ., Tokyo, Japan: strain 10a

NCBI tax ID(s): 1294264 (strain), 309788 (species)

SI-ID 308618

ATCC BAA-1146, DSM 17140, IAM 15262, JCM 21713, NBRC 103108, CIP 109652

Section

Lysinibacillus boronitolerans 10a is an obligate aerobe, moderately halophilic, spore-forming bacterium that forms circular colonies and was isolated from soil.

colony-forming
Gram-positive
motile
rod-shaped
spore-forming
mesophilic
moderately halophilic
obligate 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	*Caryophanaceae*
	Genus	*Lysinibacillus*
	Species	**Lysinibacillus boronitolerans**
	Full Scientific Name (LPSN)	Lysinibacillus boronitolerans Ahmed et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #23066]	Gram stain	positive
[Ref.: #116898]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #23066]	Cell length	3.0-5.0 µm

[Ref.: #23066]	Cell width	0.8-1.5 µm

[Ref.: #23066]	Cell shape	rod-shaped
[Ref.: #116898]	Cell shape	rod-shaped

[Ref.: #23066]	Motility	yes
[Ref.: #116898]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %97.902

[Ref.: #23066]	Colony size	2.0-3.0 mm
[Ref.: #23066]	Colony shape	circular
[Ref.: #23066]	Incubation period	2 days
[Ref.: #23066]	Cultivation medium used	nutrient agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6786]

Culture medium

CASO AGAR (MERCK 105458) (DSMZ Medium 220)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

[Ref.: #6786]

Culture medium composition

expand / minimize

[Ref.: #23066]

Culture medium

Marine agar (MA)

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Culture medium growth

[Ref.: #23066]

Culture medium

Nutrient agar (NA)

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Culture medium growth

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Culture medium

tryptone soy agar

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Culture medium growth

[Ref.: #37294]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #37294]

Culture medium growth

[Ref.: #37294]

Culture medium composition

expand / minimize

[Ref.: #116898]

Culture medium

CIP Medium 72

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Culture medium growth

[Ref.: #116898]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #6786]		growth	30 °C
[Ref.: #23066]		growth	16.0-45.0 °C
[Ref.: #23066]	no	growth	>50.0 °C
[Ref.: #23066]		growth	16.0 °C
[Ref.: #23066]		optimum	37.0 °C
[Ref.: #37294]		growth	37 °C
[Ref.: #67770]		growth	37 °C

[Ref.: #6786]	Temperature range	mesophilic
[Ref.: #23066]	Temperature range	thermophilic
[Ref.: #23066]	Temperature range	psychrophilic
[Ref.: #23066]	Temperature range	mesophilic
[Ref.: #37294]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	Kind of pH		pH
[Ref.: #23066]		optimum	7.0-8.0
[Ref.: #23066]		growth	5.5-9.5
[Ref.: #23066]	no	growth	5.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #116898]

Oxygen tolerance

obligate aerobe

[Ref.: #23066]	Spore description	ellipsoidal or spherical,terminal,in a swollen sporangium
[Ref.: #23066]	Type of spore	endospore
[Ref.: #23066]	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

[Ref.: #23066]

Halophily / tolerance level

moderately halophilic

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #23066]		NaCl	no	growth	>5.0	%(w/v)
[Ref.: #23066]		NaCl		growth	0.0	%(w/v)

[Ref.: #6786]	Murein short key	A11.31
[Ref.: #6786]	Murein types	A4alpha L-Lys-D-Asp
[Ref.: #23066]	Murein short key	A11.31
[Ref.: #23066]	Murein types	A4alpha L-Lys-D-Asp

[Ref.: #67770]

Observation

quinones: MK-7, MK-6

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #23066]	(S)-lactate ChEBI	+	oxidation
[Ref.: #23066]	2-deoxyadenosine ChEBI	+	oxidation
[Ref.: #23066]	2-hydroxybutyrate ChEBI	+	oxidation
[Ref.: #23066]	2-oxobutanoate ChEBI	+	oxidation
[Ref.: #23066]	2-oxopentanoate ChEBI	+	oxidation
[Ref.: #23066]	acetate ChEBI	+	oxidation
[Ref.: #23066]	adenosine ChEBI	+	oxidation
[Ref.: #23066]	amp ChEBI	+	oxidation
[Ref.: #23066]	beta-cyclodextrin ChEBI	+	oxidation
[Ref.: #23066]	beta-hydroxybutyrate ChEBI	-	oxidation
[Ref.: #23066]	bromosuccinate ChEBI	+	oxidation
[Ref.: #23066]	cis-aconitate ChEBI	+	oxidation
[Ref.: #23066]	citrate ChEBI	+	oxidation
[Ref.: #23066]	D-alanine ChEBI	+	oxidation
[Ref.: #23066]	D-gluconate ChEBI	+	oxidation
[Ref.: #23066]	D-ribose ChEBI	+	oxidation
[Ref.: #23066]	D-tagatose ChEBI	+	oxidation
[Ref.: #23066]	D-xylose ChEBI	+	builds acid from
[Ref.: #23066]	erythritol ChEBI	+	oxidation
[Ref.: #23066]	esculin ChEBI	+	builds acid from
[Ref.: #23066]	esculin ChEBI	+	hydrolysis
[Ref.: #23066]	ethanolamine ChEBI	+	oxidation
[Ref.: #23066]	formate ChEBI	+	oxidation
[Ref.: #23066]	gelatin ChEBI	-	hydrolysis
[Ref.: #23066]	glycogen ChEBI	+	oxidation
[Ref.: #23066]	glycyl L-aspartic acid ChEBI	+	oxidation
[Ref.: #23066]	glycyl-l-glutamate ChEBI	+	oxidation
[Ref.: #23066]	inosine ChEBI	+	oxidation
[Ref.: #23066]	L-alaninamide ChEBI	+	oxidation
[Ref.: #23066]	L-alanine ChEBI	+	oxidation
[Ref.: #23066]	L-alanylglycine ChEBI	+	oxidation
[Ref.: #23066]	L-asparagine ChEBI	+	oxidation
[Ref.: #23066]	L-glutamate ChEBI	+	oxidation
[Ref.: #23066]	L-histidine ChEBI	+	oxidation
[Ref.: #23066]	L-leucine ChEBI	+	oxidation
[Ref.: #23066]	L-malate ChEBI	+	oxidation
[Ref.: #23066]	L-ornithine ChEBI	+	oxidation
[Ref.: #23066]	L-proline-4-nitroanilide	+	oxidation
[Ref.: #23066]	L-serine ChEBI	+	oxidation
[Ref.: #23066]	L-threonine ChEBI	+	oxidation
[Ref.: #23066]	lactamide ChEBI	+	oxidation
[Ref.: #23066]	lactate ChEBI	+	oxidation
[Ref.: #23066]	methyl pyruvate ChEBI	+	oxidation
[Ref.: #23066]	monomethyl succinate ChEBI	+	oxidation
[Ref.: #23066]	N-acetylglucosamine ChEBI	+	builds acid from
[Ref.: #23066]	nitrate ChEBI	-	reduction
[Ref.: #116898]	nitrate ChEBI	-	reduction
[Ref.: #116898]	nitrite ChEBI	-	reduction
[Ref.: #23066]	propionate ChEBI	+	oxidation
[Ref.: #23066]	pyruvate ChEBI	+	oxidation
[Ref.: #23066]	sucrose ChEBI	-	builds acid from
[Ref.: #23066]	thymidine ChEBI	+	oxidation
[Ref.: #23066]	thymidine 5'-monophosphate ChEBI	+	oxidation
[Ref.: #23066]	urea ChEBI	+	hydrolysis
[Ref.: #23066]	uridine ChEBI	+	oxidation
[Ref.: #23066]	uridine 5'-monophosphate ChEBI	+	oxidation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic resistance	Concentration
[Ref.: #23066]	chloramphenicol ChEBI	no	8	µg/mL
[Ref.: #23066]	colistin ChEBI	yes
[Ref.: #23066]	erythromycin ChEBI	no	1	µg/mL
[Ref.: #23066]	fusidate ChEBI	yes
[Ref.: #23066]	lincomycin ChEBI	yes
[Ref.: #23066]	metronidazole ChEBI	yes
[Ref.: #23066]	oxolinate ChEBI	yes
[Ref.: #23066]	rifampicin ChEBI	no	0.25	µg/mL
[Ref.: #23066]	streptomycin ChEBI	no	8	µg/mL
[Ref.: #23066]	sulfamethoxazole ChEBI	yes
[Ref.: #23066]	tetracycline ChEBI	no	2	µg/mL
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #23066]	acetoin ChEBI	yes
[Ref.: #23066]	hydrogen sulfide ChEBI	no
[Ref.: #23066]	indole ChEBI	no
[Ref.: #116898]	indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #23066]		acetoin ChEBI	+

	Enzyme	Enzyme activity	EC number
[Ref.: #23066]	acid phosphatase	+	3.1.3.2
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #23066]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #23066]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #68382]	alpha-chymotrypsin	+	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	-	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #23066]	arginine dihydrolase	+	3.5.3.6
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #23066]	catalase	+	1.11.1.6
[Ref.: #116898]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #23066]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #23066]	esterase lipase (C 8)	+
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #23066]	leucine arylamidase	+	3.4.11.1
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #23066]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #23066]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #23066]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #116898]	oxidase	+
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #23066]	tryptophan deaminase	+	4.1.99.1
[Ref.: #116898]	urease	+	3.5.1.5
[Ref.: #23066]	valine arylamidase	+
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #116898]	12032	-	+	+	+	-	+	+	+	-	+	+	+	-	-	-	-	-	-	-	-

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

[Ref.: #6786]	Sample type/isolated from	soil
[Ref.: #6786]	Geographic location (country and/or sea, region)	University of Tokyo
[Ref.: #6786]	Country	Japan
[Ref.: #6786]	Country ISO 3 Code	JPN
[Ref.: #6786]	Continent	Asia

[Ref.: #23066]	Sample type/isolated from	soil
[Ref.: #23066]	Geographic location (country and/or sea, region)	experimental area of the University of Tokyo (Yayoi campus)
[Ref.: #23066]	Country	Japan
[Ref.: #23066]	Country ISO 3 Code	JPN
[Ref.: #23066]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Soil collected in the experimental area of the Univ. of Tokyo (Yayoi campus)
[Ref.: #67770]	Country	Japan
[Ref.: #67770]	Country ISO 3 Code	JPN
[Ref.: #67770]	Continent	Asia

[Ref.: #116898]	Sample type/isolated from	Environment, Soil
[Ref.: #116898]	Geographic location (country and/or sea, region)	Tokyo
[Ref.: #116898]	Country	Japan
[Ref.: #116898]	Country ISO 3 Code	JPN
[Ref.: #116898]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

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

[Ref.: #6786]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #116898]	Biosafety level	1	Risk group (French classification)

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.: #6786]	Lysinibacillus boronitolerans gene for 16S ribosomal RNA, partial sequence, strain: 10a	AB199591	1484	ENA	309788 tax ID

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Lysinibacillus boronitolerans JCM 21713 = 10a = NBRC 103108	GCA_000772935	contig	GenBank	1294264 tax ID
[Ref.: #67770]	Lysinibacillus boronitolerans JCM 21713 = 10a = NBRC 103108	GCA_002200915	contig	GenBank	1294264 tax ID
[Ref.: #67770]	Lysinibacillus boronitolerans JCM 21713 = 10a = NBRC 103108	GCA_001312025	contig	GenBank	1294264 tax ID
[Ref.: #66792]	Lysinibacillus boronitolerans JCM 21713 = 10a = NBRC 103108	1294264.6	wgs	PATRIC	1294264 tax ID	*
[Ref.: #66792]	Lysinibacillus boronitolerans JCM 21713 = 10a = NBRC 103108 strain NBRC 103108	1294264.9	wgs	PATRIC	1294264 tax ID	*
[Ref.: #66792]	Lysinibacillus boronitolerans 10a	2728369705	draft	JGI IMG/M	1294264 tax ID	*

[Ref.: #6786]	GC-content	36.5 mol%
[Ref.: #23066]	GC-content	36.5 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: Lysinibacillus boronitolerans JCM 21713 = 10a = NBRC 103108 strain NBRC 103108 PATRIC: 1294264.9
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Lysinibacillus boronitolerans JCM 21713 = 10a = NBRC 103108 PATRIC: 1294264.5
[Ref.: #69480]	motile	yes	90.224	yes
[Ref.: #69480]	gram-positive	yes	89.779	yes
[Ref.: #69480]	anaerobic	no	97.478	no
[Ref.: #69480]	aerobic	yes	91.275	no
[Ref.: #69480]	halophile	no	93.958	yes
[Ref.: #69480]	spore-forming	yes	96.493	no
[Ref.: #69480]	thermophile	no	99.781	no
[Ref.: #69480]	glucose-util	yes	88.514	no
[Ref.: #69480]	flagellated	yes	86.539	no
[Ref.: #69480]	glucose-ferment	no	87.855	no

Availability in culture collections External links

[Ref.: #6786]

Culture collection no.

DSM 17140, ATCC BAA-1146, IAM 15262, JCM 21713, CIP 109652, NBRC 103108

[Ref.: #71183]

SI-ID 308618

Literature:

Topic	Title	Authors	Journal	DOI	Year
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	Proposal of Lysinibacillus boronitolerans gen. nov. sp. nov., and transfer of Bacillus fusiformis to Lysinibacillus fusiformis comb. nov. and Bacillus sphaericus to Lysinibacillus sphaericus comb. nov.	Ahmed I, Yokota A, Yamazoe A, Fujiwara T	Int J Syst Evol Microbiol	10.1099/ijs.0.63867-0	2007	*

References

#6786

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17140

#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 )

#23066

Iftikhar Ahmed,Akira Yokota,Atsushi Yamazoe,Toru Fujiwara: Proposal of Lysinibacillus boronitolerans gen. nov. sp. nov., and transfer of Bacillus fusiformis to Lysinibacillus fusiformis comb. nov. and Bacillus sphaericus to Lysinibacillus sphaericus comb. nov.. IJSEM 57: 1117 - 1125 2007 ( DOI 10.1099/ijs.0.63867-0 , PubMed 17473269 )

#37294 ; Curators of the CIP;

#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;

#68382

Automatically annotated from API zym .

#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 )

#71183

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-ID308618.1 )

#116898 Collection of Institut Pasteur ; Curators of the CIP; CIP 109652
* These data were automatically processed and therefore are not curated

Change proposal

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Search for species Lysinibacillus boronitolerans in external resources:
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Lysinibacillus boronitolerans JCM 21713 = 10a = NBRC 103108 strain NBRC 103108

Lysinibacillus boronitolerans JCM 21713 = 10a = NBRC 103108

Change proposal

Change proposal