Strain identifier

BacDive ID: 130208

Type strain: No

Species: Lysinibacillus sphaericus

Strain Designation: K3514, K3514T

Strain history: <- Shu-kun Tang

NCBI tax ID(s): 1173107 (species)

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General

@ref: 22048

BacDive-ID: 130208

DSM-Number: 25877

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive

description: Lysinibacillus sphaericus K3514 is an aerobe, spore-forming, mesophilic bacterium that was isolated from surface-sterilized tobacco leaf.

NCBI tax id

  • NCBI tax id: 1173107
  • Matching level: species

strain history

@refhistory
22048<- S.-K. Tang, YIM; K3514 <- Y.-Q. Duan, Technology Center of Hongyun Honghe Tobacco (Group) Co., Ltd., Kunming, China
67771<- Shu-kun Tang

doi: 10.13145/bacdive130208.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Caryophanaceae
  • genus: Lysinibacillus
  • species: Lysinibacillus sphaericus
  • full scientific name: Lysinibacillus sphaericus (Meyer and Neide 1904) Ahmed et al. 2007

  • synonyms

    @refsynonym
    20215Lysinibacillus varians
    20215Bacillus sphaericus
    20215Lysinibacillus mangiferahumi
    20215Lysinibacillus mangiferihumi
    20215Lysinibacillus tabacifolii

@ref: 22048

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Caryophanaceae

genus: Lysinibacillus

species: Lysinibacillus sphaericus

full scientific name: Lysinibacillus sphaericus (Meyer and Neide 1904) Ahmed et al. 2007

strain designation: K3514, K3514T

type strain: no

Morphology

cell morphology

@refgram stainmotilityconfidence
67771positive
69480yes96.928
69480positive100

Culture and growth conditions

culture medium

  • @ref: 22048
  • name: CASO AGAR (MERCK 105458) (DSMZ Medium 220)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/220
  • composition: Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
22048positivegrowth28mesophilic
67771positivegrowth32mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481yes94
69480yes100

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
22048surface-sterilized tobacco leafYunnan ProvinceChinaCHNAsia
67771tobacco leafRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Leaf (Phyllosphere)
#Host Body-Site#Plant#Sterilized plant part

taxonmaps

  • @ref: 69479
  • File name: preview.99_4772.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_503;97_577;98_664;99_4772&stattab=map
  • Last taxonomy: Lysinibacillus
  • 16S sequence: JQ754706
  • Sequence Identity:
  • Total samples: 337
  • soil counts: 72
  • aquatic counts: 49
  • animal counts: 210
  • plant counts: 6

Safety information

risk assessment

  • @ref: 22048
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22048
  • description: Lysinibacillus tabacifolii strain K3514 16S ribosomal RNA gene, partial sequence
  • accession: JQ754706
  • length: 1454
  • database: ena
  • NCBI tax ID: 1173107

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lysinibacillus tabacifolii KCTC 33042GCA_005217585contigncbi1173107
66792Lysinibacillus tabacifolii strain KCTC 330421173107.5wgspatric1173107

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes94no
motileyes84.627no
gram-positiveyes91.297yes
anaerobicno96.339no
halophileno91.804no
spore-formingyes96.708no
flagellatedyes79.807no
thermophileno99.896yes
glucose-utilyes82.986no
aerobicyes88.303yes
glucose-fermentno90.09no

External links

@ref: 22048

culture collection no.: DSM 25877, CCTCC AB 2012050, KCTC 33042

straininfo link

  • @ref: 88753
  • straininfo: 406011

literature

  • topic: Phylogeny
  • Pubmed-ID: 23812807
  • title: Lysinibacillus tabacifolii sp. nov., a novel endophytic bacterium isolated from Nicotiana tabacum leaves.
  • authors: Duan YQ, He ST, Li QQ, Wang MF, Wang WY, Zhe W, Cao YH, Mo MH, Zhai YL, Li WJ
  • journal: J Microbiol
  • DOI: 10.1007/s12275-013-2338-z
  • year: 2013
  • mesh: Bacillaceae/classification/*genetics, Genes, rRNA/genetics, Phylogeny, Plant Leaves/*microbiology, Tobacco/*microbiology

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
22048Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-25877Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25877)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
69479João 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 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
88753Reimer, 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 identifiers10.60712/SI-ID406011.1