Strain identifier

BacDive ID: 5091

Type strain: Yes

Species: Providencia burhodogranariea

Strain Designation: B

Strain history: DSM 19968 <-- B. Lazzaro strain B.

NCBI tax ID(s): 1141662 (strain), 516074 (species)

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General

@ref: 8413

BacDive-ID: 5091

DSM-Number: 19968

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped, animal pathogen

description: Providencia burhodogranariea B is an aerobe, mesophilic, Gram-negative animal pathogen that was isolated from haemolymph of wild-caught Drosophila melanogaster fruit flies.

NCBI tax id

NCBI tax idMatching level
516074species
1141662strain

strain history

@refhistory
8413<- B. Lazzaro, Dept. Entomology, Cornell University
67770DSM 19968 <-- B. Lazzaro strain B.

doi: 10.13145/bacdive5091.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Morganellaceae
  • genus: Providencia
  • species: Providencia burhodogranariea
  • full scientific name: Providencia burhodogranariea Juneja and Lazzaro 2009

@ref: 8413

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Morganellaceae

genus: Providencia

species: Providencia burhodogranariea

full scientific name: Providencia burhodogranariea Juneja and Lazzaro 2009

strain designation: B

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
28876negativerod-shaped
69480yes92.823
69480negative99.987

pigmentation

  • @ref: 28876
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 8413
  • name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/535
  • composition: Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
8413positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 28876
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.903

observation

  • @ref: 28876
  • observation: aggregates in clumps

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
28876168082-dehydro-D-gluconate+carbon source
2887615963ribitol+carbon source
2887622599arabinose+carbon source
2887618403L-arabitol+carbon source
2887628757fructose+carbon source
2887617234glucose+carbon source
2887617754glycerol+carbon source
2887637684mannose+carbon source
28876506227N-acetylglucosamine+carbon source
2887633942ribose+carbon source
2887630911sorbitol+carbon source
2887627082trehalose+carbon source

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
8413haemolymph of wild-caught Drosophila melanogaster fruit fliesDrosophila melanogasterPennsylvania, State College, apple orchardUSAUSANorth America
67770Drosophila melanogaster captured in an apple orchardDrosophila melanogaster

isolation source categories

Cat1Cat2Cat3
#Host#Arthropoda#Insecta
#Host Body Product#Fluids

taxonmaps

  • @ref: 69479
  • File name: preview.99_935.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_362;97_407;98_466;99_935&stattab=map
  • Last taxonomy: Providencia
  • 16S sequence: HM038004
  • Sequence Identity:
  • Total samples: 373
  • soil counts: 23
  • aquatic counts: 44
  • animal counts: 258
  • plant counts: 48

Safety information

risk assessment

  • @ref: 8413
  • pathogenicity animal: yes
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Providencia burhodogranariea ATCC:BAA-1590 16S ribosomal RNA gene, partial sequenceHM0380041472ena1141662
8413Providencia burhodogranariea strain DSM 19968 16S ribosomal RNA gene, partial sequenceEU587101978ena1141662

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Providencia burhodogranariea DSM 199681141662.3wgspatric1141662
66792Providencia burhodogranariea DSM 199682529292851draftimg1141662
67770Providencia burhodogranariea DSM 19968GCA_000314855scaffoldncbi1141662

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes86.563no
flagellatedyes50.626no
gram-positiveno98.189yes
anaerobicno98.057yes
aerobicyes85.383yes
halophileno88.861no
spore-formingno94.987no
glucose-utilyes90.426yes
thermophileno99.31no
glucose-fermentyes86.603no

External links

@ref: 8413

culture collection no.: DSM 19968, ATCC BAA 1590, JCM 16940

straininfo link

  • @ref: 74586
  • straininfo: 407471

literature

  • topic: Phylogeny
  • Pubmed-ID: 19406801
  • title: Providencia sneebia sp. nov. and Providencia burhodogranariea sp. nov., isolated from wild Drosophila melanogaster.
  • authors: Juneja P, Lazzaro BP
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.000117-0
  • year: 2009
  • mesh: Animals, Bacterial Proteins/genetics, Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Drosophila melanogaster/*microbiology, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, Providencia/*classification/genetics/isolation & purification/physiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
8413Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19968)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19968
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
28876Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604125316
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
74586Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID407471.1StrainInfo: A central database for resolving microbial strain identifiers