Strain identifier

BacDive ID: 23759

Type strain: Yes

Species: Ureibacillus sinduriensis

Strain Designation: BLB-1

Strain history: <- YH Chang, KRIBB

NCBI tax ID(s): 561440 (species)

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General

@ref: 21166

BacDive-ID: 23759

DSM-Number: 27595

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

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

NCBI tax id

  • NCBI tax id: 561440
  • Matching level: species

strain history

@refhistory
21166<- KCTC; KCTC 13296
67770Y.-H. Chang BLB-1.
67771<- YH Chang, KRIBB

doi: 10.13145/bacdive23759.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Caryophanaceae
  • genus: Ureibacillus
  • species: Ureibacillus sinduriensis
  • full scientific name: Ureibacillus sinduriensis (Jung et al. 2012) Gupta and Patel 2020

  • synonyms

    • @ref: 20215
    • synonym: Lysinibacillus sinduriensis

@ref: 21166

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Caryophanaceae

genus: Ureibacillus

species: Ureibacillus sinduriensis

full scientific name: Ureibacillus sinduriensis (Jung et al. 2012) Gupta and Patel 2020

strain designation: BLB-1

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
30343positive2.15 µm0.85 µmrod-shapedyes
67771rod-shapedyesperitrichous
67771positive
69480yes96.897
69480positive100

pigmentation

  • @ref: 30343
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 21166
  • 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
21166positivegrowth30mesophilic
30343positivegrowth15-45
30343positiveoptimum30mesophilic
67770positivegrowth30mesophilic
67771positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
30343positivegrowth05-09alkaliphile
30343positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
30343aerobe
67771aerobe

spore formation

@refspore formationtype of sporeconfidence
30343yes
67771yesspore
69481yes100
69480yes100

halophily

  • @ref: 30343
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-5 %

observation

@refobservation
67770quinones: MK-7
67771quinones: MK-7

enzymes

@refvalueactivityec
30343catalase+1.11.1.6
30343gelatinase+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
21166tidal flat sedimentShinduri sand dune, Yellow SeaRepublic of KoreaKORAsia
67770Tidal flat sediment in the Shinduri sand dunes of the Yellow SeaRepublic of KoreaKORAsia
67771From tidalTaeanRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Tidal flat
#Environmental#Terrestrial#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_8919.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_3452;97_5123;98_6520;99_8919&stattab=map
  • Last taxonomy: Lysinibacillus
  • 16S sequence: FJ169465
  • Sequence Identity:
  • Total samples: 1815
  • soil counts: 1162
  • aquatic counts: 139
  • animal counts: 417
  • plant counts: 97

Safety information

risk assessment

  • @ref: 21166
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21166
  • description: Lysinibacillus sinduriensis strain BLB-1 16S ribosomal RNA gene, partial sequence
  • accession: FJ169465
  • length: 1412
  • database: ena
  • NCBI tax ID: 1384057

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lysinibacillus sinduriensis BLB-1 = JCM 158001384057.3wgspatric1384057
66792Lysinibacillus sinduriensis BLB-1 = JCM 15800 strain JCM 158001384057.4wgspatric1384057
66792Lysinibacillus sinduriensis BLB-1 = JCM 158002630968763draftimg1384057
67770Ureibacillus sinduriensis BLB-1 = JCM 15800GCA_002200845contigncbi1384057
67770Ureibacillus sinduriensis BLB-1 = JCM 15800GCA_000772955contigncbi1384057

GC content

@refGC-contentmethod
2116635.9
6777035.9thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes89.091no
gram-positiveyes90.635yes
anaerobicno98.567yes
halophileno77.514no
spore-formingyes95.736no
glucose-utilyes88.536no
thermophileno99.452yes
aerobicyes90.53no
flagellatedyes91.905yes
glucose-fermentno87.599no

External links

@ref: 21166

culture collection no.: DSM 27595, JCM 15800, KCTC 13296

straininfo link

  • @ref: 87795
  • straininfo: 397174

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22140163Description 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 YHInt J Syst Evol Microbiol10.1099/ijs.0.033837-02011Bacillaceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Geologic Sediments/microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/*analysis, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil MicrobiologyGenetics
Phylogeny23812821Lysinibacillus 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 SWJ Microbiol10.1007/s12275-013-2664-12013Bacillaceae/classification/genetics/*metabolism, Cardiolipins/metabolism, Fermentation, Phosphatidylethanolamines/metabolism, Phosphatidylglycerols/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *SoybeansMetabolism
Phylogeny26762029[Microbiological characteristics of a Lysinibacillus strain isolated from Populous euphratica].Anwar N, Erkin R, Mamtimin H, Hamood B, Ismayi N, Abdukerim M, Rahman EWei Sheng Wu Xue Bao2015Bacillaceae/classification/genetics/*isolation & purification/metabolism, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, Populus/*microbiology, RNA, Ribosomal, 16S/geneticsMetabolism
Phylogeny26818686Lysinibacillus xyleni sp. nov., isolated from a bottle of xylene.Begum MA, Rahul K, Sasikala C, Ramana CVArch Microbiol10.1007/s00203-016-1194-82016Bacillaceae/*classification/genetics/*isolation & purification/metabolism, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, Fatty Acids/analysis, Peptidoglycan/chemistry, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity, Vitamin K 2/metabolism, *XylenesMetabolism
Phylogeny27401830Lysinibacillus 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 GAntonie Van Leeuwenhoek10.1007/s10482-016-0732-32016Bacillaceae/classification/*isolation & purification/metabolism, Endophytes/isolation & purification/metabolism, Indoleacetic Acids/metabolism, Japan, Molecular Typing, Phylogeny, Plant Roots/*microbiology, RNA, Bacterial, RNA, Ribosomal, 16S/genetics, Zea mays/*microbiologyMetabolism
Phylogeny28699866Description 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 YSInt J Syst Evol Microbiol10.1099/ijsem.0.0019432017Bacillaceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, *Cell Phone, Cell Wall/chemistry, DNA, Bacterial/genetics, Fatty Acids/chemistry, India, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome
Phylogeny31124045Isolation 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 QJ Microbiol10.1007/s12275-019-8709-32019Bacillaceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques/methods, Geologic Sediments/*microbiology, Pacific Ocean, Phylogeny, RNA, Ribosomal, 16S/geneticsEnzymology

Reference

@idauthorstitledoi/urlcatalogueID_cross_referencepubmedjournal
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
21166Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-27595Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27595)
30343Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172668428776041
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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa102533211880Nucleic Acids Res. 49: D498-D508 2020
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
87795Reimer, 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-ID397174.1