Strain identifier

BacDive ID: 2062

Type strain: Yes

Species: Pandoraea faecigallinarum

Strain Designation: KOx

Strain history: <- N. Sahin, Mugla University, Kötekli; KOx <- T. S. Chandra

NCBI tax ID(s): 656179 (species)

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General

@ref: 17292

BacDive-ID: 2062

DSM-Number: 23572

keywords: genome sequence, 16S sequence, Bacteria, aerobe, thermophilic, Gram-negative, motile, rod-shaped

description: Pandoraea faecigallinarum KOx is an aerobe, thermophilic, Gram-negative bacterium that was isolated from chicken dung.

NCBI tax id

  • NCBI tax id: 656179
  • Matching level: species

strain history

  • @ref: 17292
  • history: <- N. Sahin, Mugla University, Kötekli; KOx <- T. S. Chandra

doi: 10.13145/bacdive2062.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Burkholderiaceae
  • genus: Pandoraea
  • species: Pandoraea faecigallinarum
  • full scientific name: Pandoraea faecigallinarum Sahin et al. 2011

@ref: 17292

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Burkholderiaceae

genus: Pandoraea

species: Pandoraea faecigallinarum

full scientific name: Pandoraea faecigallinarum Sahin et al. 2011

strain designation: KOx

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
23368negative1.5 µm0.7 µmrod-shapedyes
69480yes94.617
69480negative99.99

colony morphology

@refincubation periodcolony sizecolony colormedium used
172921-2 days
233682 days1-2 mmcreamTSA

Culture and growth conditions

culture medium

  • @ref: 23368
  • name: Trypticase Soy Agar (TSA)
  • growth: yes

culture temp

  • @ref: 23368
  • growth: positive
  • type: growth
  • temperature: 42
  • range: thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 23368
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.993

halophily

@refsaltgrowthtested relationconcentration
23368NaClnogrowth3 %(w/v)
23368NaClnogrowth4.5 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2336817128adipate-carbon source
2336817234glucose-carbon source
2336817925alpha-D-glucose-respiration
2336817057cellobiose-respiration
2336817784D-glucosaminic acid-respiration
2336832323glucuronamide-respiration
2336817754glycerol-respiration
2336873804glycyl L-aspartic acid-respiration
2336830849L-arabinose-respiration
2336815792malonate-respiration
2336841865sebacic acid-respiration
2336853426tween 80-respiration
2336827689decanoate+carbon source
2336816947citrate+carbon source
2336824265gluconate+carbon source
2336825115malate+carbon source
2336818401phenylacetate+carbon source
23368645522-hydroxybutyrate+respiration
23368167632-oxobutanoate+respiration
23368286442-oxopentanoate+respiration
23368370543-hydroxybutyrate+respiration
23368167244-hydroxybutyrate+respiration
2336830089acetate+respiration
2336873706bromosuccinate+respiration
2336816383cis-aconitate+respiration
2336816947citrate+respiration
233688391D-gluconate+respiration
2336814314D-glucose 6-phosphate+respiration
2336817992sucrose+respiration
2336816523D-serine+respiration
2336815740formate+respiration
2336828087glycogen+respiration
2336821217L-alaninamide+respiration
2336873786L-alanylglycine+respiration
2336817196L-asparagine+respiration
2336829985L-glutamate+respiration
2336815971L-histidine+respiration
2336815603L-leucine+respiration
2336817295L-phenylalanine+respiration
2336817203L-proline+respiration
2336818183L-pyroglutamic acid+respiration
2336817115L-serine+respiration
2336816857L-threonine+respiration
2336824996lactate+respiration
2336851850methyl pyruvate+respiration
2336873784glycyl-l-glutamate+respiration

antibiotic resistance

  • @ref: 23368
  • ChEBI: 27902
  • metabolite: tetracycline
  • is antibiotic: yes
  • is resistant: no
  • resistance conc.: 30 µg

enzymes

@refvalueactivityec
23368acid phosphatase+3.1.3.2
23368alkaline phosphatase+3.1.3.1
23368cystine arylamidase-3.4.11.3
23368esterase (C 4)+
23368esterase lipase (C 8)+
23368leucine arylamidase+3.4.11.1
23368naphthol-AS-BI-phosphohydrolase+
23368nitrate reductase-1.7.99.4
23368urease-3.5.1.5
23368valine arylamidase-

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
17292chicken dungIndiaINDAsia
23368chicken dung after enrichment with oxalate in mineral medium

isolation source categories

Cat1Cat2Cat3
#Host#Birds#Chicken
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_814.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_12;96_494;97_563;98_648;99_814&stattab=map
  • Last taxonomy: Pandoraea
  • 16S sequence: AB510957
  • Sequence Identity:
  • Total samples: 20583
  • soil counts: 6943
  • aquatic counts: 4192
  • animal counts: 3605
  • plant counts: 5843

Safety information

risk assessment

  • @ref: 17292
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17292
  • description: Pandoraea faecigallinarum gene for 16S rRNA, partial sequence, strain: KOx
  • accession: AB510957
  • length: 1376
  • database: ena
  • NCBI tax ID: 656179

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pandoraea faecigallinarum DSM 23572GCA_001029105completencbi656179
66792Pandoraea faecigallinarum strain DSM 23572656179.3completepatric656179
66792Pandoraea faecigallinarum strain DSM 23572656179.7plasmidpatric656179
66792Pandoraea faecigallinarum strain DSM 23572656179.8plasmidpatric656179
66792Pandoraea faecigallinarum DSM 235722654588016completeimg656179

GC content

@refGC-contentmethod
1729262.3thermal denaturation, midpoint method (Tm)
2336862.3Thermal denaturation, fluorometry

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes89.907yes
motileyes89.907yes
motileyes89.907yes
flagellatedno66.278no
flagellatedno66.278no
flagellatedno66.278no
gram-positiveno98.875yes
gram-positiveno98.875yes
gram-positiveno98.875yes
anaerobicno98.698no
anaerobicno98.698no
anaerobicno98.698no
aerobicyes87.854no
aerobicyes87.854no
aerobicyes87.854no
halophileno93.991no
halophileno93.991no
halophileno93.991no
spore-formingno95.036no
spore-formingno95.036no
spore-formingno95.036no
glucose-utilyes61.782yes
glucose-utilyes61.782yes
glucose-utilyes61.782yes
thermophileno98.126no
thermophileno98.126no
thermophileno98.126no
glucose-fermentno90.074no
glucose-fermentno90.074no
glucose-fermentno90.074no

External links

@ref: 17292

culture collection no.: DSM 23572, CCM 2766, NBRC 106092

straininfo link

  • @ref: 71709
  • straininfo: 66666

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20952546Pandoraea oxalativorans sp. nov., Pandoraea faecigallinarum sp. nov. and Pandoraea vervacti sp. nov., isolated from oxalate-enriched culture.Sahin N, Tani A, Kotan R, Sedlacek I, Kimbara K, Tamer AUInt J Syst Evol Microbiol10.1099/ijs.0.026138-02010Aerobiosis, Bacterial Typing Techniques, Burkholderiaceae/*classification/genetics/*isolation & purification/metabolism, Cluster Analysis, Culture Media/chemistry, DNA Gyrase/genetics, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Oxalates/*metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAMetabolism
27790203Characterization and Comparative Overview of Complete Sequences of the First Plasmids of Pandoraea across Clinical and Non-clinical Strains.Yong D, Tee KK, Yin WF, Chan KGFront Microbiol10.3389/fmicb.2016.016062016

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
17292Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23572)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23572
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
23368Nurettin Sahin, Akio Tani, Recep Kotan, Ivo Sedlácek, Kazuhide Kimbara, Abdurrahman U. Tamer10.1099/ijs.0.026138-0Pandoraea oxalativorans sp. nov., Pandoraea faecigallinarum sp. nov. and Pandoraea vervacti sp. nov., isolated from oxalate-enriched cultureIJSEM 61: 2247-2253 201120952546
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)
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
71709Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID66666.1StrainInfo: A central database for resolving microbial strain identifiers