Strain identifier
BacDive ID: 2713
Type strain:
Species: Clostridium putrificum
Strain Designation: 2318, Prévot, 2318, Prévot, Prévot 2318
Strain history: CIP <- 1960, A.R. Prévot, Inst. Pasteur, Paris, France: strain 2318, Plectridium putrificum
NCBI tax ID(s): 1491 (species)
General
@ref: 889
BacDive-ID: 2713
DSM-Number: 1734
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, motile
description: Clostridium putrificum 2318 is an anaerobe, spore-forming, mesophilic bacterium of the family Clostridiaceae.
NCBI tax id
- NCBI tax id: 1491
- Matching level: species
strain history
@ref | history |
---|---|
889 | <- NCIB <- G. Hobbs |
37606 | 1960, A.R. Prévot, Inst. Pasteur, Paris, France: strain 2318, Plectridium putrificum |
67770 | ATCC 25784 <-- L. DS. Smith VPI 4440-1 <-- A. Prévot 2318. |
122077 | CIP <- 1960, A.R. Prévot, Inst. Pasteur, Paris, France: strain 2318, Plectridium putrificum |
doi: 10.13145/bacdive2713.20230509.8.1
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 putrificum
- full scientific name: Clostridium putrificum (Trevisan 1889) Reddish and Rettger 1922 (Approved Lists 1980)
synonyms
- @ref: 20215
- synonym: Pacinia putrifica
@ref: 889
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Clostridium
species: Clostridium putrificum
full scientific name: Clostridium putrificum (Trevisan 1889) Reddish and Rettger 1922
strain designation: 2318, Prévot, 2318, Prévot, Prévot 2318
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | yes | 93.385 | |
69480 | 100 | positive |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
889 | CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) | yes | https://mediadive.dsmz.de/medium/110 | Name: 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 |
37606 | MEDIUM 20 - for Anaerobic bacteria | yes | Agar (15.000 g);Glucose (5.000 g);Yeast extract (20.000 g);Tryptone (30.000 g);Cysteine hydrochloride (0.500 g);distilled water (1000.000 ml);Hemin solution -M00149 (25.000 ml) | |
122077 | CIP Medium 20 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
889 | positive | growth | 37 | mesophilic |
37606 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
889 | anaerobe | |
69480 | anaerobe | 99.999 |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | yes | 93 |
69480 | yes | 100 |
Isolation, sampling and environmental information
isolation
@ref | geographic location | country | origin.country | continent | sample type | isolation date |
---|---|---|---|---|---|---|
37606 | Dakar | Senegal | SEN | Africa | ||
122077 | Dakar | Senegal | SEN | Africa | Human, Blood | 1960 |
taxonmaps
- @ref: 69479
- File name: preview.99_324.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_226;97_248;98_277;99_324&stattab=map
- Last taxonomy: Clostridium
- 16S sequence: AB558161
- Sequence Identity:
- Total samples: 41972
- soil counts: 4923
- aquatic counts: 3962
- animal counts: 31978
- plant counts: 1109
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
889 | 2 | Risk group (German classification) |
122077 | 2 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Clostridium botulinum strain ATCC 25784 16S ribosomal RNA gene, partial sequence | DQ911257 | 318 | ena | 1491 |
889 | Clostridium botulinum 16S rRNA gene, strain DSM 1734 | X73442 | 1513 | ena | 1491 |
67770 | Clostridium sporogenes gene for 16S ribosomal RNA, partial sequence, strain: JCM 1410 | AB558161 | 1473 | ena | 1509 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Clostridium botulinum strain NCTC13037 | 1491.1062 | wgs | patric | 1491 |
66792 | Clostridium sporogenes strain FDAARGOS_1532 | 1509.235 | complete | patric | 1509 |
66792 | Clostridium sporogenes strain FDAARGOS_1532 | 1509.218 | complete | patric | 1509 |
66792 | Clostridium sporogenes strain FDAARGOS_1532 | 1509.227 | complete | patric | 1509 |
GC content
@ref | GC-content | method |
---|---|---|
889 | 27.0 | |
67770 | 27 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 93 | no |
motile | yes | 84.461 | no |
gram-positive | yes | 90.88 | no |
anaerobic | yes | 97.413 | yes |
aerobic | no | 96.982 | no |
halophile | no | 78.898 | no |
spore-forming | yes | 93.349 | no |
thermophile | no | 97.11 | yes |
glucose-util | yes | 85.49 | no |
flagellated | yes | 51.416 | no |
glucose-ferment | yes | 64.072 | no |
External links
@ref: 889
culture collection no.: DSM 1734, ATCC 25784, NCIB 10677, Prevot 2318, VPI 4440-1, CCUG 15942, JCM 1410, BCRC 14514, CIP 60.54, NCIMB 10677, NCTC 13037, VPI 4440
straininfo link
- @ref: 72241
- straininfo: 38669
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
889 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 1734) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-1734 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
37606 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/9871 | ||||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
69479 | João 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 | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
72241 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID38669.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
122077 | Curators of the CIP | Collection of Institut Pasteur (CIP 60.54) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2060.54 |