Strain identifier
BacDive ID: 24006
Type strain: 
Species: Dielma fastidiosa
Strain Designation: JC13
Strain history: <- G. Laguerre, Timone Hospital, Marseille, France; JC13 <- J.-C. Lagier
NCBI tax ID(s): 1034346 (species)
version 8.1 (current version)
General
@ref: 21310
BacDive-ID: 24006
DSM-Number: 26099
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic
description: Dielma fastidiosa JC13 is an anaerobe, mesophilic bacterium that was isolated from human feces.
NCBI tax id
- NCBI tax id: 1034346
- Matching level: species
strain history
- @ref: 21310
- history: <- G. Laguerre, Timone Hospital, Marseille, France; JC13 <- J.-C. Lagier
doi: 10.13145/bacdive24006.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Erysipelotrichia
- order: Erysipelotrichales
- family: Erysipelotrichaceae
- genus: Dielma
- species: Dielma fastidiosa
- full scientific name: Dielma fastidiosa Ramasamy et al. 2016
@ref: 21310
domain: Bacteria
phylum: Firmicutes
class: Erysipelotrichia
order: Erysipelotrichales
family: Erysipelotrichaceae
genus: Dielma
species: Dielma fastidiosa
full scientific name: Dielma fastidiosa Ramasamy et al. 2016
strain designation: JC13
type strain: yes
Culture and growth conditions
culture medium
- @ref: 21310
- name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)
- growth: yes
- link: https://mediadive.dsmz.de/medium/110
- composition: 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
culture temp
- @ref: 21310
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
oxygen tolerance
- @ref: 21310
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
- @ref: 21310
- sample type: human feces
- geographic location: Guinean-Sudanian Zone, Dielmo
- country: Senegal
- origin.country: SEN
- continent: Africa
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Human | |
| #Host Body Product | #Gastrointestinal tract | #Feces (Stool) |
taxonmaps
- @ref: 69479
- File name: preview.99_6002.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15924;96_2863;97_3520;98_4454;99_6002&stattab=map
- Last taxonomy: Dielma fastidiosa subclade
- 16S sequence: JF824807
- Sequence Identity:
- Total samples: 35044
- soil counts: 122
- aquatic counts: 386
- animal counts: 34455
- plant counts: 81
Safety information
risk assessment
- @ref: 21310
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 21310
- description: Dielma fastidiosa strain JC13 16S ribosomal RNA gene, partial sequence
- accession: JF824807
- length: 1499
- database: ena
- NCBI tax ID: 1034346
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Dielma fastidiosa JC13 | GCA_000313565 | contig | ncbi | 1034346 |
| 66792 | Dielma fastidiosa DSM 26099 | 2770939561 | draft | img | 1034346 |
GC content
- @ref: 21310
- GC-content: 40.0
- method: sequence analysis
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | no | 90.851 | no |
| flagellated | no | 94.906 | no |
| gram-positive | yes | 96.657 | no |
| anaerobic | yes | 95.322 | no |
| aerobic | no | 97.532 | yes |
| halophile | no | 58.342 | no |
| spore-forming | no | 75.412 | no |
| thermophile | no | 99.499 | no |
| glucose-util | yes | 89.065 | no |
| glucose-ferment | yes | 71.635 | no |
External links
@ref: 21310
culture collection no.: DSM 26099, CSUR P149
straininfo link
- @ref: 87981
- straininfo: 399006
Reference
| @id | authors | title | doi/url | catalogue | journal | pubmed |
|---|---|---|---|---|---|---|
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | |||
| 21310 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-26099 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26099) | |||
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |||
| 87981 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID399006.1 |