Strain identifier
BacDive ID: 2767
Type strain:
Species: Ruminiclostridium cellobioparum subsp. termitidis
Strain Designation: CT1112
Strain history: <- J. L. Garcia, Université de Provence, Marseille, France; CT1112 <- P. Hethener and A. Brauman
NCBI tax ID(s): 29371 (subspecies)
General
@ref: 2158
BacDive-ID: 2767
DSM-Number: 5398
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic
description: Ruminiclostridium cellobioparum subsp. termitidis CT1112 is an anaerobe, mesophilic bacterium that was isolated from hindgut, termite Nasutitermes lujae.
NCBI tax id
- NCBI tax id: 29371
- Matching level: subspecies
strain history
- @ref: 2158
- history: <- J. L. Garcia, Université de Provence, Marseille, France; CT1112 <- P. Hethener and A. Brauman
doi: 10.13145/bacdive2767.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Oscillospiraceae
- genus: Ruminiclostridium
- species: Ruminiclostridium cellobioparum subsp. termitidis
- full scientific name: Ruminiclostridium cellobioparum subsp. termitidis (Hethener et al. 1992) Zhang et al. 2018
synonyms
@ref synonym 20215 Ruminiclostridium termitidis 20215 Clostridium termitidis
@ref: 2158
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Oscillospiraceae
genus: Ruminiclostridium
species: Ruminiclostridium cellobioparum subsp. termitidis
full scientific name: Ruminiclostridium cellobioparum subsp. termitidis (Hethener et al. 1992) Zhang et al. 2018
strain designation: CT1112
type strain: yes
Culture and growth conditions
culture medium
- @ref: 2158
- name: RUMINICLOSTRIDIUM CELLOBIOPARUM MEDIUM (DSMZ Medium 539)
- growth: yes
- link: https://mediadive.dsmz.de/medium/539
- composition: Name: RUMINICLOSTRIDIUM CELLOBIOPARUM MEDIUM (DSMZ Medium 539) Composition: Cellulose 4.99501 g/l (optional) Cellobiose 4.99501 g/l NaCl 0.999001 g/l Na2CO3 0.999001 g/l Yeast extract 0.499501 g/l KCl 0.499501 g/l Na2S x 9 H2O 0.3996 g/l MgCl2 x 6 H2O 0.3996 g/l NH4Cl 0.2997 g/l KH2PO4 0.1998 g/l CaCl2 x 2 H2O 0.14985 g/l HCl 0.0024975 g/l FeCl2 x 4 H2O 0.0014985 g/l Sodium resazurin 0.0004995 g/l CoCl2 x 6 H2O 0.00018981 g/l MnCl2 x 4 H2O 9.99001e-05 g/l ZnCl2 6.99301e-05 g/l Na2MoO4 x 2 H2O 3.5964e-05 g/l NiCl2 x 6 H2O 2.3976e-05 g/l H3BO3 5.99401e-06 g/l CuCl2 x 2 H2O 1.998e-06 g/l Distilled water
culture temp
- @ref: 2158
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
oxygen tolerance
- @ref: 2158
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
- @ref: 2158
- sample type: hindgut, termite Nasutitermes lujae
- host species: Nasutitermes lujae
- country: Republic of the Congo
- origin.country: COG
- continent: Africa
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Arthropoda | #Insecta |
#Host Body-Site | #Gastrointestinal tract |
taxonmaps
- @ref: 69479
- File name: preview.99_7333.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_196;96_1460;97_1742;98_5377;99_7333&stattab=map
- Last taxonomy: Ruminiclostridium cellobioparum subclade
- 16S sequence: FR733680
- Sequence Identity:
- Total samples: 1202
- soil counts: 819
- aquatic counts: 189
- animal counts: 126
- plant counts: 68
Safety information
risk assessment
- @ref: 2158
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 2158
- description: Clostridium termitidis partial 16S rRNA gene, type strain DSM5398T
- accession: FR733680
- length: 1512
- database: ena
- NCBI tax ID: 29371
Genome sequences
- @ref: 66792
- description: Ruminiclostridium cellobioparum subsp. termitidis CT1112
- accession: GCA_000350485
- assembly level: contig
- database: ncbi
- NCBI tax ID: 1195236
GC content
@ref | GC-content | method |
---|---|---|
2158 | 41.2 | sequence analysis |
2158 | 39.2 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 86.104 | no |
flagellated | yes | 56.606 | no |
gram-positive | no | 63.267 | no |
anaerobic | yes | 97.82 | yes |
aerobic | no | 96.741 | yes |
halophile | no | 97.275 | no |
spore-forming | yes | 96.2 | no |
glucose-util | yes | 91.278 | no |
thermophile | no | 89.966 | yes |
glucose-ferment | yes | 55.311 | no |
External links
@ref: 2158
culture collection no.: DSM 5398, ATCC 51846
straininfo link
- @ref: 72297
- straininfo: 43211
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Metabolism | 11760953 | Metabolism of cinnamic acids by some Clostridiales and emendation of the descriptions of Clostridium aerotolerans, Clostridium celerecrescens and Clostridium xylanolyticum. | Chamkha M, Garcia JL, Labat M | Int J Syst Evol Microbiol | 10.1099/00207713-51-6-2105 | 2001 | Bacterial Typing Techniques, Cinnamates/*metabolism, Clostridium/*classification/growth & development/*metabolism, Culture Media, Glucose/metabolism | Cultivation |
Genetics | 23704187 | Draft Genome Sequence of the Cellulolytic, Mesophilic, Anaerobic Bacterium Clostridium termitidis Strain CT1112 (DSM 5398). | Lal S, Ramachandran U, Zhang X, Munir R, Sparling R, Levin DB | Genome Announc | 10.1128/genomeA.00281-13 | 2013 | ||
Metabolism | 25101643 | Comparative analysis of carbohydrate active enzymes in Clostridium termitidis CT1112 reveals complex carbohydrate degradation ability. | Munir RI, Schellenberg J, Henrissat B, Verbeke TJ, Sparling R, Levin DB | PLoS One | 10.1371/journal.pone.0104260 | 2014 | Animals, Carbohydrate Metabolism/*physiology, Cellobiose/*metabolism, Clostridium/*enzymology, Ethanol/metabolism, Glycoside Hydrolases/*metabolism, Hydrogen/metabolism, Isoptera/microbiology, Monosaccharides/*metabolism, Species Specificity | Enzymology |
Pathogenicity | 25957533 | Quantitative proteomic analysis of the cellulolytic system of Clostridium termitidis CT1112 reveals distinct protein expression profiles upon growth on alpha-cellulose and cellobiose. | Munir RI, Spicer V, Shamshurin D, Krokhin OV, Wilkins J, Ramachandran U, Sparling R, Levin DB | J Proteomics | 10.1016/j.jprot.2015.04.026 | 2015 | Bacterial Proteins/*biosynthesis, Cellobiose/chemistry/*pharmacology, Cellulose/chemistry/*pharmacology, Clostridium/*growth & development, Gene Expression Regulation/*drug effects, Proteomics | |
Phylogeny | 26907553 | Comparative Genomics of Core Metabolism Genes of Cellulolytic and Non-cellulolytic Clostridium Species. | Lal S, Levin DB | Adv Biochem Eng Biotechnol | 10.1007/10_2015_5007 | 2016 | Bacteria, Anaerobic/classification/genetics, Bacterial Proteins/*genetics, Biofuels/*microbiology, Cellulose, Chromosome Mapping, Clostridium/*classification/*genetics, Energy Metabolism/genetics, Gene Expression Regulation, Bacterial/*genetics, Genome, Bacterial/*genetics, Signal Transduction/genetics, Species Specificity | Genetics |
Metabolism | 27215540 | Transcriptomic and proteomic analyses of core metabolism in Clostridium termitidis CT1112 during growth on alpha-cellulose, xylan, cellobiose and xylose. | Munir RI, Spicer V, Krokhin OV, Shamshurin D, Zhang X, Taillefer M, Blunt W, Cicek N, Sparling R, Levin DB | BMC Microbiol | 10.1186/s12866-016-0711-x | 2016 | Bacterial Proteins/genetics/metabolism, Cellobiose/metabolism, Cellulose/metabolism, Clostridium/genetics/*growth & development/metabolism, Fermentation, Gene Expression Profiling/*methods, Gene Expression Regulation, Bacterial, Lignin/*metabolism, Metabolic Networks and Pathways, Proteomics/*methods, Sequence Analysis, RNA/*methods, Xylans/metabolism, Xylose/metabolism | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
2158 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5398) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-5398 | |
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 | |
72297 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID43211.1 | StrainInfo: A central database for resolving microbial strain identifiers |