Strain identifier

BacDive ID: 11655

Type strain: Yes

Species: Paenibacillus xylanisolvens

Strain Designation: X11-1

Strain history: CIP <- 2011, KCTC <- S. Tanasupawat, Chulalongkorn Univ., Thailand: strain X11-1

NCBI tax ID(s): 634126 (species)

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General

@ref: 17989

BacDive-ID: 11655

DSM-Number: 25299

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

description: Paenibacillus xylanisolvens X11-1 is a facultative anaerobe, spore-forming, mesophilic bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 634126
  • Matching level: species

strain history

@refhistory
17989<- KCTC <- S. Tanasupawat, Chulalongkorn Univ., Thailand
123996CIP <- 2011, KCTC <- S. Tanasupawat, Chulalongkorn Univ., Thailand: strain X11-1

doi: 10.13145/bacdive11655.20230509.8.1

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 xylanisolvens
  • full scientific name: Paenibacillus xylanisolvens Khianngam et al. 2011

@ref: 17989

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Paenibacillaceae

genus: Paenibacillus

species: Paenibacillus xylanisolvens

full scientific name: Paenibacillus xylanisolvens Khianngam et al. 2011

strain designation: X11-1

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
29840positive2.25 µm0.6 µmrod-shapedyes
123996positiverod-shapedno

pigmentation

  • @ref: 29840
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
17989CASO 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 0.01 g/l Distilled water
36610MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
123996CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
17989positivegrowth30mesophilic
29840positivegrowth15-50
29840positiveoptimum33.5mesophilic
36610positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
29840positivegrowth06-09alkaliphile
29840positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29840facultative anaerobe
123996facultative anaerobe

spore formation

  • @ref: 29840
  • spore formation: yes

halophily

  • @ref: 29840
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-3 %

observation

  • @ref: 29840
  • observation: aggregates in clumps

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2984017234glucose+carbon source
2984017306maltose+carbon source
2984029864mannitol+carbon source
2984037684mannose+carbon source
298404853esculin+hydrolysis
2984017632nitrate+reduction
12399617632nitrate+reduction
12399616301nitrite-reduction

metabolite production

  • @ref: 123996
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
29840catalase+1.11.1.6
29840cytochrome oxidase+1.9.3.1
29840urease+3.5.1.5
123996oxidase+
123996catalase+1.11.1.6
123996urease+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
123996-++--+----++--------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
17989soilNan provinceThailandTHAAsia
123996Environment, SoilNanThailandTHAAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_11591.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15358;96_231;97_7021;98_8681;99_11591&stattab=map
  • Last taxonomy: Paenibacillus xylanisolvens subclade
  • 16S sequence: AB495094
  • Sequence Identity:
  • Total samples: 165
  • soil counts: 133
  • aquatic counts: 10
  • animal counts: 9
  • plant counts: 13

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
179891Risk group (German classification)
1239961Risk group (French classification)

Sequence information

16S sequences

  • @ref: 17989
  • description: Paenibacillus xylanisolvens gene for 16S rRNA, partial sequence
  • accession: AB495094
  • length: 1469
  • database: ena
  • NCBI tax ID: 634126

GC content

  • @ref: 17989
  • GC-content: 51.6

External links

@ref: 17989

culture collection no.: DSM 25299, KCTC 13042, PCU 311, TISTR 1829, CIP 110290

straininfo link

  • @ref: 80879
  • straininfo: 376138

literature

  • topic: Phylogeny
  • Pubmed-ID: 20190026
  • title: Paenibacillus xylanisolvens sp. nov., a xylan-degrading bacterium from soil.
  • authors: Khianngam S, Tanasupawat S, Akaracharanya A, Kim KK, Lee KC, Lee JS
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.022269-0
  • year: 2010
  • mesh: Aerobiosis, Anaerobiosis, Base Composition, Cell Wall/chemistry, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Molecular Sequence Data, Paenibacillus/*classification/genetics/*isolation & purification/physiology, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Spores, Bacterial/cytology, Thailand, Vitamin K 2/analysis, Xylans/*metabolism
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
17989Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25299)https://www.dsmz.de/collection/catalogue/details/culture/DSM-25299
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
29840Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2621628776041
36610Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/8133
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
80879Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID376138.1StrainInfo: A central database for resolving microbial strain identifiers
123996Curators of the CIPCollection of Institut Pasteur (CIP 110290)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110290