Strain identifier
BacDive ID: 5465
Type strain: 
Species: Thermonema lapsum
Strain Designation: 23/9
Strain history: <- J.A. Hudson, 23/9 <- K.M. Schofield
NCBI tax ID(s): 28195 (species)
version 8.1 (current version)
General
@ref: 2307
BacDive-ID: 5465
DSM-Number: 5718
keywords: genome sequence, Bacteria, thermophilic, Gram-negative
description: Thermonema lapsum 23/9 is a thermophilic, Gram-negative bacterium that was isolated from hot spring.
NCBI tax id
- NCBI tax id: 28195
- Matching level: species
strain history
- @ref: 2307
- history: <- J.A. Hudson, 23/9 <- K.M. Schofield
doi: 10.13145/bacdive5465.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Cytophagia
- order: Cytophagales
- family: Thermonemataceae
- genus: Thermonema
- species: Thermonema lapsum
- full scientific name: Thermonema lapsum Hudson et al. 1989
@ref: 2307
domain: Bacteria
phylum: Bacteroidetes
class: Cytophagia
order: Cytophagales
family: Thermonemataceae
genus: Thermonema
species: Thermonema lapsum
full scientific name: Thermonema lapsum Hudson et al. 1989
strain designation: 23/9
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 100
Culture and growth conditions
culture medium
- @ref: 2307
- name: CASTENHOLZ MEDIUM (DSMZ Medium 86)
- growth: yes
- link: https://mediadive.dsmz.de/medium/86
- composition: Name: CASTENHOLZ MEDIUM (DSMZ Medium 86) Composition: Yeast extract 1.0 g/l Tryptone 1.0 g/l NaNO3 0.689 g/l Na2HPO4 x 2 H2O 0.14 g/l KNO3 0.103 g/l MgSO4 x 7 H2O 0.1 g/l Nitrilotriacetic acid 0.1 g/l CaSO4 x 2 H2O 0.06 g/l NaCl 0.008 g/l MnSO4 x H2O 0.0022 g/l H3BO3 0.0005 g/l ZnSO4 x 7 H2O 0.0005 g/l FeCl3 x 6 H2O 0.00047 g/l CoCl2 x 6 H2O 4.6e-05 g/l CuSO4 x 5 H2O 2.5e-05 g/l Na2MoO4 x 2 H2O 2.5e-05 g/l Distilled water
culture temp
- @ref: 2307
- growth: positive
- type: growth
- temperature: 60
- range: thermophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.993 |
Isolation, sampling and environmental information
isolation
- @ref: 2307
- sample type: hot spring
- geographic location: Rotorua
- country: New Zealand
- origin.country: NZL
- continent: Australia and Oceania
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Thermal spring |
| #Condition | #Thermophilic (>45°C) |
Safety information
risk assessment
- @ref: 2307
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Thermonema lapsum DSM 5718 | GCA_011761635 | scaffold | ncbi | 28195 |
| 66792 | Thermonema lapsum strain DSM 5718 | 28195.3 | wgs | patric | 28195 |
| 66792 | Thermonema lapsum DSM 5718 | 2827979017 | draft | img | 28195 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | no | 89.731 | no |
| flagellated | no | 96.088 | no |
| gram-positive | no | 99.173 | no |
| anaerobic | no | 95.057 | no |
| aerobic | yes | 71.343 | no |
| halophile | no | 68.071 | no |
| spore-forming | no | 94.968 | no |
| glucose-util | yes | 68.369 | no |
| thermophile | yes | 85.145 | yes |
| glucose-ferment | no | 88.958 | no |
External links
@ref: 2307
culture collection no.: DSM 5718, ATCC 43542
straininfo link
- @ref: 74953
- straininfo: 41903
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 2307 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5718) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-5718 | |
| 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 | |
| 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) | |
| 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 | |
| 74953 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID41903.1 | StrainInfo: A central database for resolving microbial strain identifiers |