Strain identifier
BacDive ID: 18031
Type strain: 
Species: Caldicellulosiruptor sp.
Strain Designation: Rt8.B8
Strain history: <- F. A. Rainey; Rt8.B8 <- H. W. Morgan
NCBI tax ID(s): 1981791 (species)
version 9.1 (current version)
General
@ref: 3454
BacDive-ID: 18031
DSM-Number: 8990
keywords: genome sequence, Bacteria, anaerobe
description: Caldicellulosiruptor sp. Rt8.B8 is an anaerobe bacterium that was isolated from hot spring.
NCBI tax id
- NCBI tax id: 1981791
- Matching level: species
strain history
- @ref: 3454
- history: <- F. A. Rainey; Rt8.B8 <- H. W. Morgan
doi: 10.13145/bacdive18031.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Syntrophomonadaceae
- genus: Caldicellulosiruptor
- species: Caldicellulosiruptor sp.
- full scientific name: Caldicellulosiruptor Rainey et al. 1995
@ref: 3454
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridia, not assigned to family
genus: Caldicellulosiruptor
species: Caldicellulosiruptor sp.
full scientific name: Caldicellulosiruptor sp.
strain designation: Rt8.B8
type strain: no
Culture and growth conditions
culture medium
- @ref: 3454
- name: CALDICELLULOSIRUPTOR MEDIUM (DSMZ Medium 640)
- growth: yes
- link: https://mediadive.dsmz.de/medium/640
- composition: Name: CALDICELLULOSIRUPTOR MEDIUM (DSMZ Medium 640) Composition: Trypticase peptone 2.0 g/l K2HPO4 1.5 g/l Cellobiose 1.0 g/l Yeast extract 1.0 g/l NH4Cl 0.9 g/l NaCl 0.9 g/l L-Cysteine HCl x H2O 0.75 g/l KH2PO4 0.75 g/l MgCl2 x 6 H2O 0.4 g/l HCl 0.0025 g/l FeCl3 x 6 H2O 0.0025 g/l FeCl2 x 4 H2O 0.0015 g/l Sodium resazurin 0.0005 g/l CoCl2 x 6 H2O 0.00019 g/l MnCl2 x 4 H2O 0.0001 g/l ZnCl2 7e-05 g/l Na2MoO4 x 2 H2O 3.6e-05 g/l NiCl2 x 6 H2O 2.4e-05 g/l H3BO3 6e-06 g/l CuCl2 x 2 H2O 2e-06 g/l Distilled water
culture temp
- @ref: 3454
- growth: positive
- type: growth
- temperature: 65
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 3454 | anaerobe | |
| 69480 | anaerobe | 96.961 |
Isolation, sampling and environmental information
isolation
- @ref: 3454
- 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) |
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Caldicellulosiruptor sp. Rt8.B8 | 1387555.3 | wgs | patric | 1387555 |
| 66792 | Caldicellulosiruptor morganii Rt8.B8, DSM 8990 | 2558860144 | draft | img | 1387555 |
| 66792 | Caldicellulosiruptor morganii DSM 8990 | GCA_026810225 | complete | ncbi | 1387555 |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 71.845 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 96.961 | yes |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 97.927 | yes |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 59.789 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | yes | 85.161 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 73.708 | no |
External links
@ref: 3454
culture collection no.: DSM 8990
straininfo link
- @ref: 87020
- straininfo: 48557
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Genetics | 25977428 | Complete Genome Sequences of Caldicellulosiruptor sp. Strain Rt8.B8, Caldicellulosiruptor sp. Strain Wai35.B1, and "Thermoanaerobacter cellulolyticus". | Lee LL, Izquierdo JA, Blumer-Schuette SE, Zurawski JV, Conway JM, Cottingham RW, Huntemann M, Copeland A, Chen IM, Kyrpides N, Markowitz V, Palaniappan K, Ivanova N, Mikhailova N, Ovchinnikova G, Andersen E, Pati A, Stamatis D, Reddy TB, Shapiro N, Nordberg HP, Cantor MN, Hua SX, Woyke T, Kelly RM | Genome Announc | 10.1128/genomeA.00440-15 | 2015 | ||
| Genetics | 29475869 | Genus-Wide Assessment of Lignocellulose Utilization in the Extremely Thermophilic Genus Caldicellulosiruptor by Genomic, Pangenomic, and Metagenomic Analyses. | Lee LL, Blumer-Schuette SE, Izquierdo JA, Zurawski JV, Loder AJ, Conway JM, Elkins JG, Podar M, Clum A, Jones PC, Piatek MJ, Weighill DA, Jacobson DA, Adams MWW, Kelly RM | Appl Environ Microbiol | 10.1128/AEM.02694-17 | 2018 | Cellulose/metabolism, Firmicutes/classification/*genetics/*metabolism, *Genome, Bacterial, Genomics, Lignin/*metabolism, *Metagenome, Metagenomics | Metabolism |
| Metabolism | 34031874 | Identification of a thermostable cellobiose 2-epimerase from Caldicellulosiruptor sp. Rt8.B8 and production of epilactose using Bacillus subtilis. | Liangfei L, Yafeng Z, Kai X, Zheng X | J Sci Food Agric | 10.1002/jsfa.11333 | 2021 | Bacillus subtilis/genetics/*metabolism, Bacterial Proteins/*chemistry/genetics/metabolism, Caldicellulosiruptor/*enzymology/genetics, Cellobiose/*metabolism, Disaccharides/*biosynthesis, Enzyme Stability, Gene Expression, Hot Temperature, Lactose/metabolism, Racemases and Epimerases/*chemistry/genetics/metabolism, Recombinant Proteins/chemistry/genetics/metabolism | Enzymology |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 3454 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 8990) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-8990 | |
| 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) | |
| 87020 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID48557.1 | StrainInfo: A central database for resolving microbial strain identifiers |