Strain identifier

BacDive ID: 11585

Type strain: Yes

Species: Paenibacillus barcinonensis

Strain Designation: BP-23

Strain history: CIP <- 2005, CECT <- strain BP-23

NCBI tax ID(s): 198119 (species)

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General

@ref: 5948

BacDive-ID: 11585

DSM-Number: 15478

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, Gram-positive, rod-shaped

description: Paenibacillus barcinonensis BP-23 is an anaerobe, spore-forming, Gram-positive bacterium of the family Paenibacillaceae.

NCBI tax id

  • NCBI tax id: 198119
  • Matching level: species

strain history

@refhistory
5948<- M. Sánchez, Univ. Barcelona; BP23
116733CIP <- 2005, CECT <- strain BP-23

doi: 10.13145/bacdive11585.20240916.9.1

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 barcinonensis
  • full scientific name: Paenibacillus barcinonensis Sánchez et al. 2005

@ref: 5948

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Paenibacillaceae

genus: Paenibacillus

species: Paenibacillus barcinonensis

full scientific name: Paenibacillus barcinonensis Sánchez et al. 2005

strain designation: BP-23

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
31353positive3 µm0.75 µmrod-shaped
116733positiverod-shapedyes

colony morphology

  • @ref: 116733
  • hemolysis ability: 1

pigmentation

  • @ref: 31353
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5948CASO 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
38299MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
116733CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperature
5948positivegrowth30
31353positivegrowth10-40
31353positiveoptimum25
38299positivegrowth30
116733positivegrowth10-45
116733nogrowth55

culture pH

@refabilitytypepHPH range
31353positivegrowth5-10.4alkaliphile
31353positiveoptimum7.7
116733positivegrowth6

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31353anaerobe
116733facultative anaerobe

spore formation

@refspore formationconfidence
31353yes
116733yes
69480yes91.88

halophily

@refsaltgrowthtested relationconcentration
31353NaClpositivegrowth<5 %
31353NaClpositiveoptimum2.5 %
116733NaClpositivegrowth0-10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3135322599arabinose+carbon source
3135317057cellobiose+carbon source
3135328757fructose+carbon source
3135328260galactose+carbon source
3135324265gluconate+carbon source
3135317234glucose+carbon source
3135317754glycerol+carbon source
3135317716lactose+carbon source
3135317306maltose+carbon source
3135329864mannitol+carbon source
3135337684mannose+carbon source
3135328053melibiose+carbon source
31353506227N-acetylglucosamine+carbon source
3135316634raffinose+carbon source
3135333942ribose+carbon source
3135317814salicin+carbon source
3135317992sucrose+carbon source
3135327082trehalose+carbon source
3135318222xylose+carbon source
313534853esculin+hydrolysis
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
6837132528turanose+builds acid from
6837128066gentiobiose+builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose+builds acid from
683716731melezitose+builds acid from
6837115443inulin-builds acid from
6837127082trehalose+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
6837118305arbutin+builds acid from
6837127613amygdalin+builds acid from
6837159640N-acetylglucosamine+builds acid from
68371320061methyl alpha-D-glucopyranoside+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
6837116024D-mannose+builds acid from
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose+builds acid from
6837174863methyl beta-D-xylopyranoside+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
11673316947citrate-carbon source
1167334853esculin+hydrolysis
11673317632nitrate-reduction
11673316301nitrite-reduction
11673317632nitrate+respiration

metabolite production

  • @ref: 116733
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11673315688acetoin-
11673317234glucose+

enzymes

@refvalueactivityec
31353catalase+1.11.1.6
116733oxidase+
116733beta-galactosidase+3.2.1.23
116733alcohol dehydrogenase-1.1.1.1
116733gelatinase+
116733amylase-
116733DNase+
116733caseinase+3.4.21.50
116733catalase+1.11.1.6
116733tween esterase+
116733gamma-glutamyltransferase-2.3.2.2
116733lecithinase-
116733lipase-
116733lysine decarboxylase-4.1.1.18
116733ornithine decarboxylase-4.1.1.17
116733protease+
116733urease-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
116733-+++-+--++++++-++---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
116733+-++++--+++++-+-++-+/-++++++++++++-++---++---+--+-+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116733+++-+-++++++++++++-++++--+-----+-+++-------------------+---++--------------------------------------

Isolation, sampling and environmental information

isolation

@refcountryorigin.countrycontinentsample typegeographic location
5948SpainESPEurope
116733SpainESPEuropeEnvironment, Soil, rice fieldIsbro delta

taxonmaps

  • @ref: 69479
  • File name: preview.99_41118.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15358;96_141;97_15017;98_29427;99_41118&stattab=map
  • Last taxonomy: Paenibacillus
  • 16S sequence: AJ716019
  • Sequence Identity:
  • Total samples: 530
  • soil counts: 116
  • aquatic counts: 28
  • animal counts: 92
  • plant counts: 294

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
59481Risk group (German classification)
1167331Risk group (French classification)

Sequence information

16S sequences

  • @ref: 31353
  • description: Paenibacillus barcinonensis 16S rRNA gene, type strain BP-23T
  • accession: AJ716019
  • length: 1523
  • database: nuccore
  • NCBI tax ID: 198119

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Paenibacillus barcinonensis CECT 7022GCA_003217495scaffoldncbi198119
66792Paenibacillus barcinonensis strain CECT 7022198119.4wgspatric198119
66792Paenibacillus barcinonensis CECT 70222770939580draftimg198119

GC content

  • @ref: 31353
  • GC-content: 45

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69480gram-positivegram-positivePositive reaction to Gram-stainingyes67.789yes
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no90.246no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no57.55yes
69480spore-formingspore-formingAbility to form endo- or exosporesyes91.88no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno94.204yes
69480flagellatedmotile2+Ability to perform flagellated movementyes85.973no

External links

@ref: 5948

culture collection no.: DSM 15478, CECT 7022, CIP 108718

straininfo link

  • @ref: 80813
  • straininfo: 138020

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15774688Paenibacillus barcinonensis sp. nov., a xylanase-producing bacterium isolated from a rice field in the Ebro River delta.Sanchez MM, Fritze D, Blanco A, Sproer C, Tindall BJ, Schumann P, Kroppenstedt RM, Diaz P, Pastor FIJInt J Syst Evol Microbiol10.1099/ijs.0.63383-02005DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Endo-1,4-beta Xylanases/*metabolism, Genes, rRNA, Gram-Positive Endospore-Forming Rods/chemistry/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Oryza/*growth & development, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, *Rivers, Sequence Analysis, DNA, *Soil Microbiology, SpainGenetics
Phylogeny18319478Paenibacillus provencensis sp. nov., isolated from human cerebrospinal fluid, and Paenibacillus urinalis sp. nov., isolated from human urine.Roux V, Fenner L, Raoult DInt J Syst Evol Microbiol10.1099/ijs.0.65228-02008Adult, Bacterial Typing Techniques, Cerebrospinal Fluid/*microbiology, DNA, Bacterial/analysis, Fatty Acids/analysis, Female, Genes, rRNA, Genotype, Gram-Negative Bacteria/*classification/genetics/*isolation & purification, Gram-Negative Bacterial Infections/*microbiology, Humans, Male, Middle Aged, Molecular Sequence Data, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity, Urine/*microbiologyGenetics
Phylogeny22467156Paenibacillus oceanisediminis sp. nov. isolated from marine sediment.Lee J, Shin NR, Jung MJ, Roh SW, Kim MS, Lee JS, Lee KC, Kim YO, Bae JWInt J Syst Evol Microbiol10.1099/ijs.0.037085-02012Aquaculture, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Paenibacillus/*classification/genetics/isolation & purification, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysisGenetics
Enzymology24549767Xyn11E from Paenibacillus barcinonensis BP-23: a LppX-chaperone-dependent xylanase with potential for upgrading paper pulps.Valenzuela SV, Diaz P, Pastor FIAppl Microbiol Biotechnol10.1007/s00253-014-5565-22014Cloning, Molecular, DNA, Bacterial/chemistry/genetics, Escherichia coli/genetics/metabolism, Gene Expression, Hydrogen-Ion Concentration, Isoelectric Point, Kinetics, Molecular Sequence Data, Molecular Weight, Paenibacillus/*enzymology/genetics, Recombinant Proteins/chemistry/genetics/isolation & purification/metabolism, Sequence Analysis, DNA, Substrate Specificity, Temperature, Xylosidases/chemistry/*genetics/isolation & purification/*metabolismMetabolism
Metabolism24929101Unusual carboxylesterase bearing a GGG(A)X-type oxyanion hole discovered in Paenibacillus barcinonensis BP-23.Infanzon B, Valenzuela SV, Fillat A, Pastor FI, Diaz PBiochimie10.1016/j.biochi.2014.06.0032014Alcohols/metabolism, Amino Acid Motifs, Carboxylesterase/*chemistry/genetics/*metabolism, Cloning, Molecular, Conserved Sequence, Paenibacillus/*enzymology, Peptide Hydrolases/metabolism, PhylogenyEnzymology
Metabolism25603884New GH16 beta-glucanase from Paenibacillus barcinonensis BP-23 releases a complex pattern of mixed-linkage oligomers from barley glucan.Cerda LA, Valenzuela SV, Diaz P, Pastor FIBiotechnol Appl Biochem10.1002/bab.13482015Cloning, Molecular, Glucans/chemistry/*metabolism, Glycoside Hydrolases/chemistry/genetics/*metabolism, Hordeum/chemistry/*metabolism, Hydrolysis, Paenibacillus/chemistry/*enzymology/genetics/metabolism, Recombinant Proteins/chemistry/genetics/metabolismEnzymology
Phylogeny26721586Paenibacillus puernese sp. nov., a beta-glucosidase-producing bacterium isolated from Pu'er tea.Wang DD, Kim YJ, Hoang VA, Nguyen NL, Singh P, Wang C, Chun-Yang DArch Microbiol10.1007/s00203-015-1180-62015Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, *Food Microbiology, Glucosidases/metabolism, Paenibacillus/*classification/enzymology/genetics, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, Species SpecificityBiotechnology
Metabolism27316951The Glycoside Hydrolase Family 8 Reducing-End Xylose-Releasing Exo-oligoxylanase Rex8A from Paenibacillus barcinonensis BP-23 Is Active on Branched Xylooligosaccharides.Valenzuela SV, Lopez S, Biely P, Sanz-Aparicio J, Pastor FIAppl Environ Microbiol10.1128/AEM.01329-162016Bacterial Proteins/chemistry/genetics/*metabolism, Catalytic Domain, Glucuronates/chemistry/*metabolism, Glycoside Hydrolases/chemistry/genetics/*metabolism, Multigene Family, Oligosaccharides/chemistry/*metabolism, Paenibacillus/chemistry/*enzymology/genetics, Substrate Specificity, Xylose/*metabolism, Xylosidases/genetics/*metabolismEnzymology
Phylogeny27902310Paenibacillus silvae sp. nov., isolated from a tropical rainforest soil.Huang H, Zhang F, Liu M, Cui Y, Sun Q, Zhu J, Zou X, Bao SInt J Syst Evol Microbiol10.1099/ijsem.0.0016082017Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Paenibacillus/*classification/genetics/isolation & purification, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rainforest, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny28671536Paenibacillus polysaccharolyticus sp. nov., a xylanolytic and cellulolytic bacteria isolated from leaves of Bamboo Phyllostachys aureosulcata.Madhaiyan M, Poonguzhali S, Saravanan VS, Duraipandiyan V, Al-Dhabi NA, Kwon SW, Whitman WBInt J Syst Evol Microbiol10.1099/ijsem.0.0019012017Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, India, Nucleic Acid Hybridization, Paenibacillus/*classification/genetics/isolation & purification, Phospholipids/chemistry, *Phylogeny, Plant Leaves/*microbiology, Poaceae/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Metabolism32352213Structural analysis of the reducing-end xylose-releasing exo-oligoxylanase Rex8A from Paenibacillus barcinonensis BP-23 deciphers its molecular specificity.Jimenez-Ortega E, Valenzuela S, Ramirez-Escudero M, Pastor FJ, Sanz-Aparicio JFEBS J10.1111/febs.153322020Amino Acid Sequence, Bacterial Proteins/*chemistry/*metabolism, Crystallization, Crystallography, X-Ray, Paenibacillus/*enzymology, Protein Conformation, Sequence Homology, Substrate Specificity, Xylose/*metabolism, Xylosidases/*chemistry/*metabolismEnzymology

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
5948Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15478)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15478
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
31353Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2766628776041
38299Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6378
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)
80813Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID138020.1StrainInfo: A central database for resolving microbial strain identifiers
116733Curators of the CIPCollection of Institut Pasteur (CIP 108718)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108718