Strain identifier

BacDive ID: 11554

Type strain: Yes

Species: Paenibacillus turicensis

Strain history: CIP <- 2003, P. P. Bosshard, Zürich Univ., Zürich, Switzerland: strain MOL722 <- F. Pramada

NCBI tax ID(s): 160487 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 5315

BacDive-ID: 11554

DSM-Number: 14349

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, spore-forming, mesophilic, motile

description: Paenibacillus turicensis DSM 14349 is a facultative anaerobe, spore-forming, mesophilic bacterium that was isolated from swab of cerebrospinal fluid.

NCBI tax id

  • NCBI tax id: 160487
  • Matching level: species

strain history

@refhistory
5315<- P. P. Bosshard; MOL722 <- F. Pranada
123695CIP <- 2003, P. P. Bosshard, Zürich Univ., Zürich, Switzerland: strain MOL722 <- F. Pramada

doi: 10.13145/bacdive11554.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Paenibacillaceae
  • genus: Paenibacillus
  • species: Paenibacillus turicensis
  • full scientific name: Paenibacillus turicensis Bosshard et al. 2002

@ref: 5315

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Paenibacillaceae

genus: Paenibacillus

species: Paenibacillus turicensis

full scientific name: Paenibacillus turicensis Bosshard et al. 2002

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes96.403
69480100positive
123695yespositiverod-shaped

colony morphology

  • @ref: 123695

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5315CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: 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
36643MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
123695CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
5315positivegrowth37mesophilic
36643positivegrowth30mesophilic
123695positivegrowth30-45
123695nogrowth10psychrophilic

culture pH

  • @ref: 123695
  • ability: positive
  • type: growth
  • pH: 6

Physiology and metabolism

oxygen tolerance

  • @ref: 123695
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481yes100
69480yes100

halophily

@refsaltgrowthtested relationconcentration
123695NaClpositivegrowth0-4 %
123695NaClnogrowth6 %
123695NaClnogrowth8 %
123695NaClnogrowth10 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371xylitol-builds acid from17151
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose-builds acid from27082
68371melibiose-builds acid from28053
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-ribose-builds acid from16988
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
123695citrate-carbon source16947
123695esculin+hydrolysis4853
123695hippurate+hydrolysis606565
123695nitrate-reduction17632
123695nitrite-reduction16301
123695nitrate+respiration17632

metabolite production

  • @ref: 123695
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12369515688acetoin+
12369517234glucose+

enzymes

@refvalueactivityec
123695oxidase-
123695beta-galactosidase+3.2.1.23
123695alcohol dehydrogenase-1.1.1.1
123695gelatinase+/-
123695amylase+
123695DNase-
123695caseinase+3.4.21.50
123695catalase-1.11.1.6
123695tween esterase+
123695gamma-glutamyltransferase-2.3.2.2
123695lecithinase-
123695lipase-
123695lysine decarboxylase-4.1.1.18
123695ornithine decarboxylase-4.1.1.17
123695urease-3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase-3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase-3.1.3.2
68382naphthol-AS-BI-phosphohydrolase-
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123695--++----------------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
123695---+/--+/---+/-+/-+/-+/-+/---------+/-+/-+/-+/-+/-+/-+/-+/--+/-----+/-+/--+/----------+/-

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123695+---+--+---++--++++++--++-++---+++--++----------------------++-+---------+--------------++++-+-----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
5315swab of cerebrospinal fluidZurichSwitzerlandCHEEurope
123695Cerebrosphinal fluid shoutZurichSwitzerlandCHEEurope

isolation source categories

Cat1Cat2Cat3
#Infection#Patient#Swab
#Host Body Product#Fluids#Cerebrospinal fluid

taxonmaps

  • @ref: 69479
  • File name: preview.99_145969.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15358;96_3994;97_70826;98_95044;99_145969&stattab=map
  • Last taxonomy: Paenibacillus turicensis subclade
  • 16S sequence: AF378700
  • Sequence Identity:
  • Total samples: 666
  • soil counts: 345
  • aquatic counts: 100
  • animal counts: 156
  • plant counts: 65

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
53151Risk group (German classification)
1236951Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
5315Paenibacillus turicensis clone A1 16S ribosomal RNA gene, complete sequenceAF3786941549ena160487
5315Paenibacillus turicensis clone A2 16S ribosomal RNA gene, complete sequenceAF3786951549ena160487
5315Paenibacillus turicensis clone A3a 16S ribosomal RNA gene, complete sequenceAF3786961549ena160487
5315Paenibacillus turicensis clone A3b 16S ribosomal RNA gene, partial sequenceAF3786971358ena160487
5315Paenibacillus turicensis clone B1 16S ribosomal RNA gene, complete sequenceAF3786981548ena160487
5315Paenibacillus turicensis clone B2 16S ribosomal RNA gene, complete sequenceAF3786991548ena160487
5315Paenibacillus turicensis clone B3 16S ribosomal RNA gene, complete sequenceAF3787001548ena160487

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Paenibacillus turicensis DSM 14349GCA_017873435contigncbi160487
66792Paenibacillus turicensis strain DSM 14349160487.3wgspatric160487
66792Paenibacillus turicensis DSM 143492913360750draftimg160487

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes88.319no
gram-positiveyes90.988no
anaerobicno95.02no
aerobicyes53.137no
halophileno81.863no
spore-formingyes96.41no
thermophileno99.638yes
glucose-utilyes86.938no
flagellatedyes82.749no
glucose-fermentno73.754no

External links

@ref: 5315

culture collection no.: DSM 14349, NCCB 100011, MOL 722, CIP 107817

straininfo link

  • @ref: 80782
  • straininfo: 49552

literature

  • topic: Phylogeny
  • Pubmed-ID: 12508893
  • title: Paenibacillus turicensis sp. nov., a novel bacterium harbouring heterogeneities between 16S rRNA genes.
  • authors: Bosshard PP, Zbinden R, Altwegg M
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/00207713-52-6-2241
  • year: 2002
  • mesh: Base Composition, Base Sequence, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, *Genes, Bacterial, Genotype, Gram-Positive Endospore-Forming Rods/*classification/genetics/metabolism, Microscopy, Electron, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/*genetics, RNA, Ribosomal, 16S/*genetics, Species Specificity
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitle
5315Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14349)https://www.dsmz.de/collection/catalogue/details/culture/DSM-14349
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
36643Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5295
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)
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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
80782Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID49552.1StrainInfo: A central database for resolving microbial strain identifiers
123695Curators of the CIPCollection of Institut Pasteur (CIP 107817)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107817