Name: Lysinibacillus sphaericus K3514
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 130208

Type strain:

Species: Lysinibacillus sphaericus

Strain Designation: K3514, K3514T

Culture col. no.: DSM 25877, CCTCC AB 2012050, KCTC 33042

Strain history: <- Shu-kun Tang

NCBI tax ID(s): 1173107 (species)

SI-ID 406011

DSM 25877

Special Collections

DSMZ
KCTC

Other strains from Lysinibacillus sphaericus

Section

When using BacDive for research please cite our paper

Lysinibacillus sphaericus K3514 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from surface-sterilized tobacco leaf.

Gram-positive
aerobe
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Bacillota*
	Class	*Bacilli*
	Order	*Caryophanales*
	Family	*Caryophanaceae*
	Genus	*Lysinibacillus*
	Species	**Lysinibacillus sphaericus**
	Full Scientific Name (LPSN)	Lysinibacillus sphaericus (Meyer and Neide 1904) Ahmed et al. 2007

	Synonym	Lysinibacillus mangiferahumi
	Synonym	Lysinibacillus tabacifolii
	Synonym	Lysinibacillus mangiferihumi
	Synonym	Lysinibacillus varians
	Synonym	Bacillus sphaericus

Information on morphological and physiological properties Morphology

[Ref.: #67771]	Gram stain	positive

Information on culture and growth conditions Culture and growth conditions

[Ref.: #22048]

Culture medium

CASO AGAR (MERCK 105458) (DSMZ Medium 220)

[Ref.: #22048]

Culture medium growth

[Ref.: #22048]

Culture medium link

Medium recipe at MediaDive

[Ref.: #22048]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #22048]			growth	28 °C
[Ref.: #67771]			growth	32 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #67771]	Oxygen tolerance	aerobe
[Ref.: #125439]	Oxygen tolerance	obligate aerobe Confidence in %94.2

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

[Ref.: #22048]	Sample type/isolated from	surface-sterilized tobacco leaf
[Ref.: #22048]	Geographic location (country and/or sea, region)	Yunnan Province
[Ref.: #22048]	Country	China
[Ref.: #22048]	Country ISO 3 Code	CHN
[Ref.: #22048]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	tobacco leaf
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Leaf (Phyllosphere)
#Host Body-Site	#Plant	#Sterilized plant part

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence JQ754706 (>99% sequence identity) for Lysinibacillus from Microbeatlas

Aquatic Samples	49
Soil Samples	72
Animal Samples	210
Plant Samples	6
Total Samples	337

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

[Ref.: #22048]	Pathogenicity (human)	yes, in single cases
[Ref.: #22048]	Biosafety level	1	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.: #22048]	Lysinibacillus tabacifolii strain K3514 16S ribosomal RNA gene, partial sequence	JQ754706	1454	GenBank ENA	1173107 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Lysinibacillus tabacifolii KCTC 33042	GCA_005217585	contig	GenBank ENA	1173107 tax ID	*
[Ref.: #66792]	Lysinibacillus tabacifolii strain KCTC 33042	1173107.5	wgs	PATRIC	1173107 tax ID	*

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

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Lysinibacillus tabacifolii strain KCTC 33042 PATRIC: 1173107.5
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	69.689	yes
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	89.404	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	yes	89.193	no
[Ref.: #125438]	aerobic	aerobicⓘ	yes	76.525	yes
[Ref.: #125438]	thermophile	thermophilicⓘ	no	91.346	no
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	82.243	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Lysinibacillus tabacifolii KCTC 33042 NCBI: GCA_005217585
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	yes	86.5
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	76.6
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	variable	69.9
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate aerobe	94.2

Availability in culture collections External links

[Ref.: #22048]

Culture collection no.

DSM 25877, CCTCC AB 2012050, KCTC 33042

[Ref.: #88753]

SI-ID 406011

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Lysinibacillus tabacifolii sp. nov., a novel endophytic bacterium isolated from Nicotiana tabacum leaves.	Duan YQ, He ST, Li QQ, Wang MF, Wang WY, Zhe W, Cao YH, Mo MH, Zhai YL, Li WJ	J Microbiol	10.1007/s12275-013-2338-z	2013	*

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 )

#22048

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25877

#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) .

#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 .

#88753

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-ID406011.1 )

#125438

Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )

#125439

Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .

* These data were automatically processed and therefore are not curated

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Lysinibacillus tabacifolii strain KCTC 33042

Lysinibacillus tabacifolii KCTC 33042

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