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/bacdive5091.20250331.9.3

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 shapeconfidence
28876negativerod-shaped
125438negative99.735
125439negative97.9

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

@refgrowthtypetemperature
8413positivegrowth28
67770positivegrowth28

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
28876aerobe
125439obligate aerobe97.5

spore formation

@refspore formationconfidence
125438no91.923
125439no99

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 sequenceHM0380041472nuccore1141662
8413Providencia burhodogranariea strain DSM 19968 16S ribosomal RNA gene, partial sequenceEU587101978nuccore1141662
124043Providencia burhodogranariea DSM 19968 16S ribosomal RNA gene, partial sequence.ON386153887nuccore1141662

Genome sequences

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

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno99.735yes
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no94.396yes
125438spore-formingspore-formingAbility to form endo- or exosporesno91.923no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no52.809yes
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno99.5yes
125438motile2+flagellatedAbility to perform flagellated movementyes76.971no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno99
125439BacteriaNetmotilityAbility to perform movementno50.2
125439BacteriaNetgram_stainReaction to gram-stainingnegative97.9
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe97.5

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
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
124043Isabel Schober, Julia KoblitzData extracted from sequence databases, automatically matched based on designation and taxonomy
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1