Strain identifier

BacDive ID: 11588

Type strain: Yes

Species: Paenibacillus favisporus

Strain Designation: GMP01

Strain history: CIP <- 2004, CECT <- E. Velazquez: strain GMP01

NCBI tax ID(s): 221028 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 6854

BacDive-ID: 11588

DSM-Number: 17253

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, spore-forming, mesophilic, Gram-variable, motile, rod-shaped

description: Paenibacillus favisporus GMP01 is a facultative anaerobe, spore-forming, mesophilic bacterium that was isolated from faeces of cow.

NCBI tax id

  • NCBI tax id: 221028
  • Matching level: species

strain history

@refhistory
6854<- E. Velázquez Pérez
119294CIP <- 2004, CECT <- E. Velazquez: strain GMP01

doi: 10.13145/bacdive11588.20230509.8.1

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 favisporus
  • full scientific name: Paenibacillus favisporus Velázquez et al. 2004

@ref: 6854

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Paenibacillaceae

genus: Paenibacillus

species: Paenibacillus favisporus

full scientific name: Paenibacillus favisporus Velázquez et al. 2004

strain designation: GMP01

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
29934variable02-03 µm0.5-0.7 µmrod-shapedyes
119294positiverod-shapedyes

colony morphology

  • @ref: 119294

pigmentation

  • @ref: 29934
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6854CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: 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
32911MEDIUM 595 - for Cellulomonas xylanilyticayesDistilled water make up to (1000.000 ml);Magnesium sulphate heptahydrate (0.500 g);Agar (20.000 g);Yeast extract (10.000 g);Di Potassium monohydrogenophosphate (1.000 g);Xylan (5.000 g)
119294CIP Medium 595yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=595

culture temp

@refgrowthtypetemperaturerange
6854positivegrowth30mesophilic
29934positiveoptimum37mesophilic
32911positivegrowth30mesophilic
119294positivegrowth22-45
119294nogrowth10psychrophilic
119294nogrowth55thermophilic

culture pH

@refabilitytypepH
29934positiveoptimum7
119294positivegrowth6

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29934facultative anaerobe
119294facultative anaerobe

spore formation

@refspore formation
29934yes
119294yes

halophily

@refsaltgrowthtested relationconcentration
119294NaClpositivegrowth0-4 %
119294NaClnogrowth6 %
119294NaClnogrowth8 %
119294NaClnogrowth10 %

observation

  • @ref: 29934
  • observation: aggregates in clumps

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2993417234glucose+carbon source
2993424996lactate+carbon source
2993417306maltose+carbon source
2993429864mannitol+carbon source
2993437684mannose+carbon source
2993428053melibiose+carbon source
2993416634raffinose+carbon source
2993426546rhamnose+carbon source
2993417992sucrose+carbon source
2993418222xylose+carbon source
2993417632nitrate+reduction
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837128066gentiobiose+builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch+builds acid from
6837116634raffinose+builds acid from
6837117992sucrose+builds acid from
6837128053melibiose+builds acid from
6837117716lactose+builds acid from
6837117306maltose+builds acid from
6837117057cellobiose+builds acid from
6837117814salicin+builds acid from
683714853esculin+builds acid from
6837127613amygdalin+builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol+builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose+builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose+builds acid from
6837116988D-ribose+builds acid from
6837130849L-arabinose+builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from
11929416947citrate-carbon source
1192944853esculin+hydrolysis
119294606565hippurate-hydrolysis
11929417632nitrate+reduction
11929416301nitrite-reduction
11929417632nitrate+respiration

metabolite production

  • @ref: 119294
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11929415688acetoin-
11929417234glucose-

enzymes

@refvalueactivityec
29934catalase+1.11.1.6
29934gelatinase+
29934cytochrome oxidase+1.9.3.1
29934urease+3.5.1.5
119294oxidase+
119294beta-galactosidase+3.2.1.23
119294alcohol dehydrogenase-1.1.1.1
119294gelatinase-
119294amylase-
119294DNase-
119294caseinase-3.4.21.50
119294catalase+1.11.1.6
119294tween esterase-
119294gamma-glutamyltransferase-2.3.2.2
119294lecithinase-
119294lipase-
119294lysine decarboxylase-4.1.1.18
119294ornithine decarboxylase-4.1.1.17
119294protease-
119294urease+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
119294--++-+----++++--+--+

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
119294---+++--+/-+++/-+/-----+---+/-++/-++++++++/-+/-+/-++--++/----------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119294+--+---+-+++---++-+++++------------+-+----------------++----+-------------------------+------------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic locationisolation date
6854faeces of cowSpainESPEurope
119294Animal, Cow, faecesSpainESPEuropeSalamanca1984

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Bovinae (Cow, Cattle)
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_5101.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15358;96_2482;97_3032;98_3807;99_5101&stattab=map
  • Last taxonomy: Paenibacillus
  • 16S sequence: AY208751
  • Sequence Identity:
  • Total samples: 3736
  • soil counts: 2631
  • aquatic counts: 282
  • animal counts: 403
  • plant counts: 420

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
68541Risk group (German classification)
1192941Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6854
  • description: Paenibacillus favisporus strain GMP01 16S ribosomal RNA gene, partial sequence
  • accession: AY208751
  • length: 1547
  • database: ena
  • NCBI tax ID: 221028

Genome sequences

  • @ref: 66792
  • description: Paenibacillus favisporus DSM 17253
  • accession: 2928311319
  • assembly level: draft
  • database: img
  • NCBI tax ID: 221028

GC content

  • @ref: 6854
  • GC-content: 53

External links

@ref: 6854

culture collection no.: DSM 17253, CECT 5760, LMG 20987, CIP 108371

straininfo link

  • @ref: 80816
  • straininfo: 85131

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny14742459Paenibacillus favisporus sp. nov., a xylanolytic bacterium isolated from cow faeces.Velazquez E, de Miguel T, Poza M, Rivas R, Rossello-Mora R, Villa TGInt J Syst Evol Microbiol10.1099/ijs.0.02709-02004Animals, Bacillaceae/classification/genetics/growth & development/*isolation & purification, Cattle/microbiology, Feces/*microbiology, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/geneticsGenetics
Phylogeny15879272Paenibacillus rhizosphaerae sp. nov., isolated from the rhizosphere of Cicer arietinum.Rivas R, Gutierrez C, Abril A, Mateos PF, Martinez-Molina E, Ventosa A, Velazquez EInt J Syst Evol Microbiol10.1099/ijs.0.63513-02005Aerobiosis, Argentina, Base Composition, Carbohydrate Metabolism, Catalase/analysis, Cicer/*microbiology, DNA, Bacterial/chemistry/isolation & purification, DNA, Ribosomal/chemistry/isolation & purification, Esculin/metabolism, Fatty Acids/analysis/isolation & purification, Genes, rRNA, Gentian Violet, Gram-Positive Endospore-Forming Rods/*classification/cytology/*isolation & purification/physiology, Molecular Sequence Data, Movement, Nucleic Acid Hybridization, Oxidoreductases/analysis, Phenazines, Phylogeny, Plant Roots/*microbiology, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Spores, Bacterial, beta-Glucosidase/analysisEnzymology

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
6854Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17253)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17253
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
29934Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2630528776041
32911Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5986
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
80816Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID85131.1StrainInfo: A central database for resolving microbial strain identifiers
119294Curators of the CIPCollection of Institut Pasteur (CIP 108371)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108371