Strain identifier

BacDive ID: 5445

Type strain: Yes

Species: Clostridium tarantellae

Strain Designation: 87

Strain history: <- ATCC <- L.R. Udey, 87

NCBI tax ID(s): 39493 (species)

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General

@ref: 1565

BacDive-ID: 5445

DSM-Number: 3997

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, rod-shaped, colony-forming, animal pathogen

description: Clostridium tarantellae 87 is an anaerobe, spore-forming, mesophilic animal pathogen that forms rhizoid colonies and was isolated from black mullet brain.

NCBI tax id

  • NCBI tax id: 39493
  • Matching level: species

strain history

  • @ref: 1565
  • history: <- ATCC <- L.R. Udey, 87

doi: 10.13145/bacdive5445.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Clostridiaceae
  • genus: Clostridium
  • species: Clostridium tarantellae
  • full scientific name: Clostridium tarantellae (Udey et al. 1977) Lawson and Rainey 2016

  • synonyms

    @refsynonym
    20215Eubacterium tarantellae
    20215Eubacterium tarantellus

@ref: 1565

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Clostridiaceae

genus: Clostridium

species: Clostridium tarantellae

full scientific name: Clostridium tarantellae (Udey et al. 1977) Lawson and Rainey 2016

strain designation: 87

type strain: yes

Morphology

cell morphology

@refcell lengthcell widthcell shapemotilitygram stainconfidence
4377910-17 µm1.3-1.6 µmrod-shapedno
69480positive99.716

colony morphology

@refcolony sizecolony colorcolony shapemedium usedtype of hemolysishemolysis ability
437792-5 mmTranslucent, colourlessrhizoidBHIA
43779Sheep blood agarbeta1

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
1565CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)yeshttps://mediadive.dsmz.de/medium/110Name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l D-Glucose 4.0 g/l Starch 1.0 g/l Maltose 1.0 g/l Cellobiose 1.0 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Sodium resazurin 0.0005 g/l Vitamin K1 NaOH Distilled water
43779BHIAyes
43779Sheep blood agaryes

culture temp

@refgrowthtypetemperaturerange
1565positivegrowth25mesophilic
43779positivegrowth25-37mesophilic

culture pH

  • @ref: 43779
  • ability: positive
  • type: growth
  • pH: 5.6-8

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
1565anaerobe
69480anaerobe99.66

spore formation

@refspore formationconfidence
69481yes93
69480yes90.817

murein

  • @ref: 1565
  • murein short key: A41.01
  • type: A3gamma LL-Dpm-Gly

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.
4377917698chloramphenicolyesyes12 µg/mL
437793745clindamycinyesyes1.6 µg/mL
4377948923erythromycinyesyes3 µg/mL
4377918208penicillin gyesyes2 Unit
4377927902tetracyclineyesyes6 µg/mL

metabolite production

  • @ref: 43779
  • Chebi-ID: 18276
  • metabolite: dihydrogen
  • production: yes

enzymes

  • @ref: 43779
  • value: DNase
  • activity: +

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
1565black mullet (Mugil cephalus) brainMugil cephalus
43779Brains of dead or moribund striped mullet (Mugil cephalus) that had evidence of a neurological diseaseBiscayne Bay, FloridaUSAUSANorth America

isolation source categories

Cat1Cat2Cat3
#Host#Fishes
#Host Body-Site#Organ#Brain

taxonmaps

  • @ref: 69479
  • File name: preview.99_117937.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_3792;97_59916;98_79606;99_117937&stattab=map
  • Last taxonomy: Clostridium tarantellae subclade
  • 16S sequence: FR733677
  • Sequence Identity:
  • Total samples: 813
  • soil counts: 14
  • aquatic counts: 85
  • animal counts: 712
  • plant counts: 2

Safety information

risk assessment

  • @ref: 1565
  • pathogenicity animal: yes
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Eubacterium tarantellae partial 16S rRNA gene, type strain DSM3997TFR7336771497ena39493
1565Eubacterium tarantellus 16S ribosomal RNAL346241457ena39493

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Clostridium tarantellae DSM 3997GCA_009295725contigncbi39493
66792Clostridium tarantellae strain DSM 399739493.3wgspatric39493
66792Clostridium tarantellae DSM 39972868229309draftimg39493

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes93no
gram-positiveyes83.858no
anaerobicyes98.718yes
halophileno71.894no
spore-formingyes88.443no
glucose-utilyes90.987no
aerobicno98.049yes
motileno89.257yes
flagellatedno93.163yes
thermophileno97.292yes
glucose-fermentyes72.094no

External links

@ref: 1565

culture collection no.: DSM 3997, ATCC 29255

straininfo link

  • @ref: 74933
  • straininfo: 39439

literature

  • topic: Genetics
  • Pubmed-ID: 32299893
  • title: Genome Sequence of the Fish Brain Bacterium Clostridium tarantellae.
  • authors: Bano L, Kiel M, Sales G, Doxey AC, Mansfield MJ, Wami HT, Schiavone M, Rossetto O, Pirazzini M, Dobrindt U, Montecucco C
  • journal: Microbiol Resour Announc
  • DOI: 10.1128/MRA.01575-19
  • year: 2020

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1565Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 3997)https://www.dsmz.de/collection/catalogue/details/culture/DSM-3997
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
43779Paul A. Lawson, Fred A. Rainey10.1099/ijsem.0.000824Proposal to restrict the genus Clostridium Prazmowski to Clostridium butyricum and related speciesIJSEM 66: 1009-1016 201626643615
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
74933Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID39439.1StrainInfo: A central database for resolving microbial strain identifiers