Strain identifier
BacDive ID: 18025
Type strain: 
Species: Caldicellulosiruptor saccharolyticus
Strain Designation: Tp 8T.6.3.3.1.
Strain history: <- F. A. Rainey; Tp 8T.6.3.3.1. (Caldocellum saccharolyticum) <- H. W. Morgan <- K. R. Sharrock and C. H. Sissons {1983}
NCBI tax ID(s): 351627 (strain), 44001 (species)
version 8.1 (current version)
General
@ref: 3437
BacDive-ID: 18025
DSM-Number: 8903
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, thermophilic, Gram-positive
description: Caldicellulosiruptor saccharolyticus Tp 8T.6.3.3.1. is an anaerobe, spore-forming, thermophilic bacterium that was isolated from thermal spring.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 44001 | species |
| 351627 | strain |
strain history
- @ref: 3437
- history: <- F. A. Rainey; Tp 8T.6.3.3.1. (Caldocellum saccharolyticum) <- H. W. Morgan <- K. R. Sharrock and C. H. Sissons {1983}
doi: 10.13145/bacdive18025.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Syntrophomonadaceae
- genus: Caldicellulosiruptor
- species: Caldicellulosiruptor saccharolyticus
- full scientific name: Caldicellulosiruptor saccharolyticus Rainey et al. 1995
synonyms
- @ref: 20215
- synonym: Caldocellum saccharolyticum
@ref: 3437
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridia, not assigned to family
genus: Caldicellulosiruptor
species: Caldicellulosiruptor saccharolyticus
full scientific name: Caldicellulosiruptor saccharolyticus Rainey et al. 1995
strain designation: Tp 8T.6.3.3.1.
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
Culture and growth conditions
culture medium
- @ref: 3437
- 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 | growth | type | temperature | range | confidence |
|---|---|---|---|---|---|
| 3437 | positive | growth | 65 | thermophilic | |
| 69480 | thermophilic | 100 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 3437 | anaerobe | |
| 69480 | anaerobe | 99.999 |
spore formation
- @ref: 69481
- spore formation: yes
- confidence: 92
Isolation, sampling and environmental information
isolation
- @ref: 3437
- sample type: thermal spring
- geographic location: Taupo-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) |
taxonmaps
- @ref: 69479
- File name: preview.99_5363.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_153;96_2572;97_3146;98_3949;99_5363&stattab=map
- Last taxonomy: Caldicellulosiruptor saccharolyticus
- 16S sequence: NR_074845
- Sequence Identity:
- Total samples: 4
- soil counts: 1
- aquatic counts: 3
Safety information
risk assessment
- @ref: 3437
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 3437
- description: Caldicellulosiruptor saccharolyticus strain DSM 8903 16S ribosomal RNA, partial sequence
- accession: NR_074845
- length: 1537
- database: nuccore
- NCBI tax ID: 44001
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Caldicellulosiruptor saccharolyticus DSM 8903 | GCA_000016545 | complete | ncbi | 351627 |
| 66792 | Caldicellulosiruptor saccharolyticus DSM 8903 | 351627.8 | complete | patric | 351627 |
| 66792 | Caldicellulosiruptor saccharolyticus DSM 8903 | 640427106 | complete | img | 351627 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 92 | no |
| motile | yes | 85.203 | no |
| flagellated | no | 83.591 | no |
| gram-positive | yes | 81.288 | no |
| anaerobic | yes | 99.124 | yes |
| halophile | no | 97.057 | no |
| spore-forming | no | 61.997 | no |
| thermophile | yes | 100 | yes |
| glucose-util | yes | 88.44 | no |
| aerobic | no | 98.003 | no |
| glucose-ferment | no | 51.608 | no |
External links
@ref: 3437
culture collection no.: DSM 8903, ATCC 43494
straininfo link
- @ref: 87014
- straininfo: 47023
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Genetics | 19346307 | Genome sequence of the anaerobic, thermophilic, and cellulolytic bacterium "Anaerocellum thermophilum" DSM 6725. | Kataeva IA, Yang SJ, Dam P, Poole FL 2nd, Yin Y, Zhou F, Chou WC, Xu Y, Goodwin L, Sims DR, Detter JC, Hauser LJ, Westpheling J, Adams MW | J Bacteriol | 10.1128/JB.00256-09 | 2009 | Bacteria, Anaerobic/*genetics, Chromosomes, Bacterial/genetics, Genome, Bacterial/*genetics, Gram-Positive Endospore-Forming Rods/*genetics, Humans, Molecular Sequence Data, Plasmids/genetics | Pathogenicity |
| Metabolism | 19465524 | Efficient degradation of lignocellulosic plant biomass, without pretreatment, by the thermophilic anaerobe "Anaerocellum thermophilum" DSM 6725. | Yang SJ, Kataeva I, Hamilton-Brehm SD, Engle NL, Tschaplinski TJ, Doeppke C, Davis M, Westpheling J, Adams MW | Appl Environ Microbiol | 10.1128/AEM.00236-09 | 2009 | Acetic Acid/metabolism, Anaerobiosis, *Biomass, Cellulose/metabolism, Colony Count, Microbial, Gram-Positive Bacteria/growth & development/*metabolism, Hot Temperature, Hydrogen/metabolism, Lactic Acid/metabolism, Lignin/*metabolism, Plants/*metabolism/*microbiology, Xylans/metabolism | Stress |
| Enzymology | 19577189 | Characterization of a recombinant beta-glucosidase from the thermophilic bacterium Caldicellulosiruptor saccharolyticus. | Hong MR, Kim YS, Park CS, Lee JK, Kim YS, Oh DK | J Biosci Bioeng | 10.1016/j.jbiosc.2009.02.014 | 2009 | Electrophoresis, Polyacrylamide Gel, Enzyme Stability, Hydrogen-Ion Concentration, Kinetics, Recombinant Proteins/chemistry/isolation & purification/metabolism, Temperature, Thermoanaerobacterium/*genetics, beta-Glucosidase/*chemistry/isolation & purification/metabolism | Phylogeny |
| Metabolism | 21192828 | Stable coexistence of two Caldicellulosiruptor species in a de novo constructed hydrogen-producing co-culture. | Zeidan AA, Radstrom P, van Niel EW | Microb Cell Fact | 10.1186/1475-2859-9-102 | 2010 | Algorithms, Bacteria, Anaerobic/genetics/*growth & development/*metabolism, *Biomass, Bioreactors, Chromatography, Gas, Ecosystem, Fermentation, Glucose/metabolism, Hydrogen/analysis/*metabolism, Hydrogen-Ion Concentration, Models, Biological, Polymerase Chain Reaction, Species Specificity, Temperature, Xylose/metabolism | Phylogeny |
| Enzymology | 21670511 | Enzymatic properties of recombinant kojibiose phosphorylase from Caldicellulosiruptor saccharolyticus ATCC43494. | Yamamoto T, Nishio-Kosaka M, Izawa S, Aga H, Nishimoto T, Chaen H, Fukuda S | Biosci Biotechnol Biochem | 10.1271/bbb.110116 | 2011 | Bacterial Proteins/genetics/*metabolism, Cloning, Molecular, Disaccharides/*metabolism, Escherichia coli, Hot Temperature, Hydrogen-Ion Concentration, Kinetics, Phosphorylases/genetics/*metabolism, Plasmids, Recombinant Proteins/genetics/*metabolism, Substrate Specificity, Thermoanaerobacterium/chemistry/*enzymology, Transformation, Bacterial | Metabolism |
| Enzymology | 21761877 | Characterization of a thermophilic L-rhamnose isomerase from Caldicellulosiruptor saccharolyticus ATCC 43494. | Lin CJ, Tseng WC, Fang TY | J Agric Food Chem | 10.1021/jf201428b | 2011 | Aldose-Ketose Isomerases/genetics/*metabolism, Cloning, Molecular, Enzyme Stability, Escherichia coli/genetics, Gene Expression, Gram-Positive Bacteria/*enzymology, Hot Temperature, Hydrogen-Ion Concentration, Kinetics, Monosaccharides/metabolism, Recombinant Proteins/metabolism, Substrate Specificity | Metabolism |
| Biotechnology | 23448304 | Single-step ethanol production from lignocellulose using novel extremely thermophilic bacteria. | Svetlitchnyi VA, Kensch O, Falkenhan DA, Korseska SG, Lippert N, Prinz M, Sassi J, Schickor A, Curvers S | Biotechnol Biofuels | 10.1186/1754-6834-6-31 | 2013 | ||
| 23552326 | Novel monosaccharide fermentation products in Caldicellulosiruptor saccharolyticus identified using NMR spectroscopy. | Isern NG, Xue J, Rao JV, Cort JR, Ahring BK | Biotechnol Biofuels | 10.1186/1754-6834-6-47 | 2013 | |||
| Metabolism | 23665687 | Consolidated bioprocessing of untreated switchgrass to hydrogen by the extreme thermophile Caldicellulosiruptor saccharolyticus DSM 8903. | Talluri S, Raj SM, Christopher LP | Bioresour Technol | 10.1016/j.biortech.2013.04.005 | 2013 | Anaerobiosis/drug effects, Biotechnology/*methods, Carbon/metabolism, Carbon Dioxide/metabolism, Cellulose/metabolism, Glucose/pharmacology, Gram-Positive Bacteria/drug effects/growth & development/*metabolism/ultrastructure, Hydrogen/*metabolism, Panicum/drug effects/*metabolism, Polymers/pharmacology, *Temperature, Time Factors | Pathogenicity |
| Metabolism | 23830462 | An extremely thermophilic anaerobic bacterium Caldicellulosiruptor sp. F32 exhibits distinctive properties in growth and xylanases during xylan hydrolysis. | Ying Y, Meng D, Chen X, Li F | Enzyme Microb Technol | 10.1016/j.enzmictec.2013.04.004 | 2013 | Bacteria, Anaerobic/genetics/*growth & development/*metabolism, Bacterial Proteins/genetics/*metabolism, Endo-1,4-beta Xylanases/genetics/*metabolism, Enzyme Stability, Genes, Bacterial, Hydrolysis, Industrial Microbiology, Kinetics, Phylogeny, Recombinant Proteins/genetics/metabolism, Species Specificity, Substrate Specificity, Temperature, Xylans/*metabolism | Enzymology |
| Phylogeny | 25342112 | Caldicellulosiruptor changbaiensis sp. nov., a cellulolytic and hydrogen-producing bacterium from a hot spring. | Bing W, Wang H, Zheng B, Zhang F, Zhu G, Feng Y, Zhang Z | Int J Syst Evol Microbiol | 10.1099/ijs.0.065441-0 | 2014 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gram-Positive Rods/*classification/genetics/isolation & purification, Hot Springs/*microbiology, Hydrogen/metabolism, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Genetics |
| 35223784 | Biochemical and Molecular Dynamics Study of a Novel GH 43 alpha-l-Arabinofuranosidase/beta-Xylosidase From Caldicellulosiruptor saccharolyticus DSM8903. | Saleh MA, Mahmud S, Albogami S, El-Shehawi AM, Paul GK, Islam S, Dutta AK, Uddin MS, Zaman S | Front Bioeng Biotechnol | 10.3389/fbioe.2022.810542 | 2022 | |||
| 35272671 | Adapted laboratory evolution of Thermotoga sp. strain RQ7 under carbon starvation. | Gautam J, Xu H, Hu J, Pennacchio C, Lipzen A, Martin J, Xu Z | BMC Res Notes | 10.1186/s13104-022-05982-9 | 2022 | Adaptation, Physiological/genetics, Base Sequence, *Carbon, *Laboratories, Thermotoga |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 3437 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 8903) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-8903 | |
| 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) | |
| 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 | |
| 87014 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID47023.1 | StrainInfo: A central database for resolving microbial strain identifiers |