Strain identifier

BacDive ID: 11668

Type strain: Yes

Species: Saccharibacillus kuerlensis

Strain Designation: HR1

Strain history: <- H Liu, Nanjing Agri. Univ., China

NCBI tax ID(s): 1123226 (strain), 459527 (species)

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General

@ref: 16590

BacDive-ID: 11668

DSM-Number: 22868

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

description: Saccharibacillus kuerlensis HR1 is an aerobe, spore-forming, mesophilic bacterium that was isolated from desert soil sample.

NCBI tax id

NCBI tax idMatching level
1123226strain
459527species

strain history

@refhistory
16590<- KCTC; KCTC 13182
67770H. Liu HR1.
67771<- H Liu, Nanjing Agri. Univ., China

doi: 10.13145/bacdive11668.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Paenibacillaceae
  • genus: Saccharibacillus
  • species: Saccharibacillus kuerlensis
  • full scientific name: Saccharibacillus kuerlensis Yang et al. 2009

@ref: 16590

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Paenibacillaceae

genus: Saccharibacillus

species: Saccharibacillus kuerlensis

full scientific name: Saccharibacillus kuerlensis Yang et al. 2009

strain designation: HR1

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29059positive1.1 µm0.45 µmrod-shapedyes
67771yes
67771positive
69480yes94.77
69480positive100

pigmentation

  • @ref: 29059
  • production: yes

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_22868_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_22868_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_22868_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_22868_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_22868_5.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

  • @ref: 16590
  • 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; with strain-specific modifications) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l MnSO4 Distilled water

culture temp

@refgrowthtypetemperaturerange
16590positivegrowth30mesophilic
29059positivegrowth15-42
29059positiveoptimum33.5mesophilic
67770positivegrowth30mesophilic
67771positivegrowth30-37mesophilic

culture pH

@refabilitytypepHPH range
29059positivegrowth05-10alkaliphile
29059positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29059aerobe
67771aerobe

spore formation

@refspore formationtype of sporeconfidence
29059yes
67771yesspore
69481yes100
69480yes99.192

halophily

@refsaltgrowthtested relationconcentration
29059NaClpositivegrowth0-5 %
29059NaClpositiveoptimum2.5 %

observation

@refobservation
29059aggregates in clumps
67770quinones: MK-7
67771quinones: MK-7

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2905915963ribitol+carbon source
2905922599arabinose+carbon source
2905918403L-arabitol+carbon source
2905929016arginine+carbon source
2905917057cellobiose+carbon source
2905928757fructose+carbon source
2905928260galactose+carbon source
290595417glucosamine+carbon source
2905917234glucose+carbon source
2905917716lactose+carbon source
2905917306maltose+carbon source
2905929864mannitol+carbon source
2905937684mannose+carbon source
2905928053melibiose+carbon source
2905916634raffinose+carbon source
2905926546rhamnose+carbon source
2905933942ribose+carbon source
2905917814salicin+carbon source
2905917992sucrose+carbon source
2905927082trehalose+carbon source
2905918222xylose+carbon source
290594853esculin+hydrolysis
2905917632nitrate+reduction

enzymes

  • @ref: 29059
  • value: catalase
  • activity: +
  • ec: 1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
16590desert soil sampleXinjiang Province, southern desert of Kuerle (41°46' N 86°07' E)ChinaCHNAsia41.766786.1167
67770Desert soil sample collected from Xinjiang ProvinceChinaCHNAsia
67771From soilXinjiang provinceChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Desert
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_128898.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15358;96_2956;97_3637;98_4603;99_128898&stattab=map
  • Last taxonomy: Saccharibacillus kuerlensis
  • 16S sequence: EU046270
  • Sequence Identity:
  • Total samples: 160
  • soil counts: 23
  • aquatic counts: 13
  • animal counts: 70
  • plant counts: 54

Safety information

risk assessment

  • @ref: 16590
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16590
  • description: Saccharibacillus kuerlensis strain HR1 16S ribosomal RNA gene, partial sequence
  • accession: EU046270
  • length: 1513
  • database: ena
  • NCBI tax ID: 459527

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Saccharibacillus kuerlensis CGMCC 1.6964GCA_014645255scaffoldncbi459527
66792Saccharibacillus kuerlensis DSM 228681123226.3wgspatric1123226
66792Saccharibacillus kuerlensis strain CGMCC 1.6964459527.3wgspatric459527
66792Saccharibacillus kuerlensis DSM 228682518645608draftimg1123226
67770Saccharibacillus kuerlensis DSM 22868GCA_000378145scaffoldncbi1123226

GC content

@refGC-contentmethod
1659050.5
6777050.5thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes88.547yes
flagellatedyes79.871no
gram-positiveyes89.378no
anaerobicno98.934no
aerobicyes86.481no
halophileno73.149no
spore-formingyes94.035yes
thermophileno99.694yes
glucose-utilyes89.065no
glucose-fermentno76.861no

External links

@ref: 16590

culture collection no.: DSM 22868, CGMCC 1.6964, JCM 14865, KCTC 13182

straininfo link

  • @ref: 80889
  • straininfo: 402359

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19406774Saccharibacillus kuerlensis sp. nov., isolated from a desert soil.Yang SY, Liu H, Liu R, Zhang KY, Lai RInt J Syst Evol Microbiol10.1099/ijs.0.005199-02009Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, *Desert Climate, Fatty Acids/analysis, Gram-Positive Endospore-Forming Rods/*classification/genetics/isolation & purification/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Species SpecificityGenetics
Phylogeny33913068Polyphasic characterization of and genomic insights into a haloalkali-tolerant Saccharibacillus alkalitolerans sp. nov., that produces three cellulase isozymes and several antimicrobial compounds.Darji H, Verma N, Lugani Y, Mehrotra P, Sindhu DK, Vemuluri VRAntonie Van Leeuwenhoek10.1007/s10482-021-01575-x2021*Anti-Infective Agents, Bacillales, Bacterial Typing Techniques, Base Composition, *Cellulases, DNA, Bacterial/genetics, Fatty Acids/analysis, Genomics, Isoenzymes, Nucleic Acid Hybridization, Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
16590Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22868)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22868
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
29059Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2548928776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life28604660 35: 676-683 2017
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
80889Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID402359.1StrainInfo: A central database for resolving microbial strain identifiers