Strain identifier

BacDive ID: 5065

Type strain: Yes

Species: Proteus penneri

Strain Designation: 1808-73

Strain history: CIP <- 1987, ATCC <- CDC: strain 1808-73 <- Alaska State Hlth. Dept., USA

NCBI tax ID(s): 102862 (species)

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General

@ref: 1725

BacDive-ID: 5065

DSM-Number: 4544

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile

description: Proteus penneri 1808-73 is a mesophilic, motile bacterium that was isolated from urine.

NCBI tax id

  • NCBI tax id: 102862
  • Matching level: species

strain history

@refhistory
1725<- ATCC; ATCC 33519 <- CDC, Atlanta; CDC 1808-73
67770Y. Kosako 85546 <-- R. Sakazaki 85008 <-- CDC 1808-73.
121660CIP <- 1987, ATCC <- CDC: strain 1808-73 <- Alaska State Hlth. Dept., USA

doi: 10.13145/bacdive5065.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Morganellaceae
  • genus: Proteus
  • species: Proteus penneri
  • full scientific name: Proteus penneri Hickman et al. 1983

@ref: 1725

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Morganellaceae

genus: Proteus

species: Proteus penneri

full scientific name: Proteus penneri Hickman et al. 1983

strain designation: 1808-73

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes95.621
6948099.957negative
121660nonegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
1725NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
34100MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
1725TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
1725COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
121660CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
121660CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
1725positivegrowth37mesophilic
34100positivegrowth30mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.862

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836830849L-arabinose-fermentation
6836827613amygdalin-fermentation
6836828053melibiose-fermentation
6836817992sucrose+fermentation
6836862345L-rhamnose-fermentation
6836830911sorbitol-fermentation
6836817268myo-inositol-fermentation
6836816899D-mannitol-fermentation
6836817634D-glucose+fermentation
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

  • @ref: 68368
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68368
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68368cytochrome oxidase-1.9.3.1
68368tryptophan deaminase+4.1.99.1
68368urease+3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase-3.2.1.23

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
1725-----+/-++-++/-+----+----
1725-----+++---+----+----
1725-----+++-+++----+----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
1725urine
67770Urine
121660Human, UrineAnchorage, AlaskaUnited States of AmericaUSANorth America

isolation source categories

  • Cat1: #Host Body Product
  • Cat2: #Fluids
  • Cat3: #Urine

taxonmaps

  • @ref: 69479
  • File name: preview.99_739.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_12;97_12;98_14;99_739&stattab=map
  • Last taxonomy: Proteus
  • 16S sequence: DQ885258
  • Sequence Identity:
  • Total samples: 89
  • soil counts: 4
  • aquatic counts: 10
  • animal counts: 74
  • plant counts: 1

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
17252Risk group (German classification)
1216602Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Proteus penneri strain ATCC 33519 16S ribosomal RNA gene, partial sequenceFJ971869797ena102862
20218Proteus penneri strain NCTC 12737 16S ribosomal RNA gene, partial sequenceDQ8852581383ena102862

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Proteus penneri strain ATCC 33519102862.7wgspatric102862
66792Proteus penneri strain FDAARGOS_874102862.20completepatric102862
66792Proteus penneri strain NCTC12737102862.13wgspatric102862
66792Proteus penneri ATCC 335192858358578draftimg102862
67770Proteus penneri ATCC 33519GCA_003144535contigncbi102862
67770Proteus penneri NCTC12737GCA_900455015contigncbi102862

GC content

  • @ref: 67770
  • GC-content: 38
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes89.702no
flagellatedyes76.193no
gram-positiveno98.977no
anaerobicno97.437no
aerobicyes51.294no
halophileno90.431no
spore-formingno96.571no
thermophileno98.905yes
glucose-utilyes90.089no
glucose-fermentyes89.731no

External links

@ref: 1725

culture collection no.: DSM 4544, ATCC 33519, CCUG 15722, CECT 864, NCTC 12737, CDC 1808-73, JCM 3948, BCRC 14123, CIP 103030, LMG 7877, NBRC 105705, NCIMB 12597

straininfo link

  • @ref: 74560
  • straininfo: 10834

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny7050147Identification of Proteus penneri sp. nov., formerly known as Proteus vulgaris indole negative or as Proteus vulgaris biogroup 1.Hickman FW, Steigerwalt AG, Farmer JJ 3rd, Brenner DJJ Clin Microbiol10.1128/jcm.15.6.1097-1102.19821982Anti-Bacterial Agents/pharmacology, Base Composition, Cytosine/analysis, DNA, Bacterial/analysis, Guanine/analysis, Indoles/metabolism, Nucleic Acid Hybridization, Proteus/*classification/physiology, Proteus vulgaris/classification, Terminology as TopicMetabolism
Genetics7541754Structure and epitope specificity of the O-specific polysaccharide of Proteus penneri strain 12 (ATCC 33519) containing the amide of D-galacturonic acid with L-threonine.Sidorczyk Z, Swierzko A, Knirel YA, Vinogradov EV, Chernyak AY, Kononov LO, Cedzynski M, Rozalski A, Kaca W, Shashkov AS, et al.Eur J Biochem1995Amides/chemistry, Carbohydrate Conformation, Carbohydrate Sequence, Epitopes/*chemistry/immunology, Hexuronic Acids/*chemistry, Magnetic Resonance Spectroscopy, Molecular Sequence Data, O Antigens, Polysaccharides, Bacterial/*chemistry/immunology, Proteus/*chemistry, Serology, Threonine/*chemistry
Phylogeny29297845Proteus columbae sp. nov., isolated from a pigeon in Ma'anshan, China.Dai H, Wang Y, Fang Y, Xiao T, Huang Z, Kan B, Wang DInt J Syst Evol Microbiol10.1099/ijsem.0.0025412018Animals, Bacterial Typing Techniques, Base Composition, China, Columbidae/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Nucleic Acid Hybridization, *Phylogeny, Proteus/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1725Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 4544)https://www.dsmz.de/collection/catalogue/details/culture/DSM-4544
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
34100Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14782
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/
68368Automatically annotated from API 20E
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
74560Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID10834.1StrainInfo: A central database for resolving microbial strain identifiers
121660Curators of the CIPCollection of Institut Pasteur (CIP 103030)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103030