Clostridioides difficile 630 Delta erm is an anaerobe, spore-forming, mesophilic human pathogen of the family Peptostreptococcaceae.
spore-forming rod-shaped anaerobe mesophilic human pathogen genome sequence| @ref 20215 |
Last LPSN update
2025-12-16 09:52:44 |
| Domain Bacillati |
| Phylum Bacillota |
| Class Clostridia |
| Order Peptostreptococcales |
| Family Peptostreptococcaceae |
| Genus Clostridioides |
| Species Clostridioides difficile |
| Full scientific name Clostridioides difficile (Hall and O'Toole 1935) Lawson et al. 2016 |
| Synonyms (3) |
| @ref | Name | Growth | Medium link | Composition | |
|---|---|---|---|---|---|
| 20944 | FASTIDIOUS ANAEROBE AGAR (DSMZ Medium 1203) | Medium recipe at MediaDive  | Name: FASTIDIOUS ANAEROBE AGAR (DSMZ Medium 1203) Composition: Horse blood 100.0 g/l Fastidious Anaerobe Agar 45.7 g/l Distilled water | ||
| 20944 | CHOPPED MEAT MEDIUM (DSMZ Medium 78) | Medium recipe at MediaDive | Name: CHOPPED MEAT MEDIUM (DSMZ Medium 78) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l Ethanol 9.5 g/l (optional) K2HPO4 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl 0.5 g/l Haemin 0.005 g/l (optional) Resazurin 0.001 g/l Vitamin K3 0.0005 g/l (optional) Vitamin K1 (optional) NaOH (optional) Distilled water |
| @ref | Growth | Type | Temperature (°C) | Range | |
|---|---|---|---|---|---|
| 20944 | positive | growth | 37 | mesophilic |
| @ref | Chebi-ID | Metabolite | Utilization activity | Kind of utilization tested | |
|---|---|---|---|---|---|
| 68380 | 29016 ChEBI | arginine | - | hydrolysis | from API rID32A |
| 68367 | 17634 ChEBI | D-glucose | + | builds acid from | from API 20A |
| 68367 | 16899 ChEBI | D-mannitol | + | builds acid from | from API 20A |
| 68380 | 16024 ChEBI | D-mannose | + | fermentation | from API rID32A |
| 68367 | 16024 ChEBI | D-mannose | + | builds acid from | from API 20A |
| 68367 | 65327 ChEBI | D-xylose | + | builds acid from | from API 20A |
| 68367 | 4853 ChEBI | esculin | + | hydrolysis | from API 20A |
| 68367 | 5291 ChEBI | gelatin | + | hydrolysis | from API 20A |
| 68367 | 17754 ChEBI | glycerol | - | builds acid from | from API 20A |
| 68367 | 30849 ChEBI | L-arabinose | - | builds acid from | from API 20A |
| 68380 | 29985 ChEBI | L-glutamate | - | degradation | from API rID32A |
| 68367 | 62345 ChEBI | L-rhamnose | - | builds acid from | from API 20A |
| 68367 | 17716 ChEBI | lactose | - | builds acid from | from API 20A |
| 68367 | 17306 ChEBI | maltose | - | builds acid from | from API 20A |
| 68367 | 6731 ChEBI | melezitose | + | builds acid from | from API 20A |
| 68380 | 17632 ChEBI | nitrate | - | reduction | from API rID32A |
| 68380 | 16634 ChEBI | raffinose | - | fermentation | from API rID32A |
| 68367 | 16634 ChEBI | raffinose | - | builds acid from | from API 20A |
| 68367 | 17814 ChEBI | salicin | + | builds acid from | from API 20A |
| 68367 | 17992 ChEBI | sucrose | - | builds acid from | from API 20A |
| 68367 | 27082 ChEBI | trehalose | + | builds acid from | from API 20A |
| 68380 | 27897 ChEBI | tryptophan | - | energy source | from API rID32A |
| 68367 | 27897 ChEBI | tryptophan | - | energy source | from API 20A |
| 68380 | 16199 ChEBI | urea | - | hydrolysis | from API rID32A |
| 68367 | 16199 ChEBI | urea | - | hydrolysis | from API 20A |
| @ref | Value | Activity | Ec | |
|---|---|---|---|---|
| 68380 | alanine arylamidase | - | 3.4.11.2 | from API rID32A |
| 68380 | alkaline phosphatase | - | 3.1.3.1 | from API rID32A |
| 68380 | alpha-arabinosidase | - | 3.2.1.55 | from API rID32A |
| 68380 | alpha-fucosidase | - | 3.2.1.51 | from API rID32A |
| 68380 | alpha-galactosidase | - | 3.2.1.22 | from API rID32A |
| 68380 | alpha-glucosidase | - | 3.2.1.20 | from API rID32A |
| 68380 | arginine dihydrolase | - | 3.5.3.6 | from API rID32A |
| 68380 | beta-galactosidase | - | 3.2.1.23 | from API rID32A |
| 68380 | beta-Galactosidase 6-phosphate | - | from API rID32A | |
| 68380 | beta-glucosidase | - | 3.2.1.21 | from API rID32A |
| 68367 | beta-glucosidase | + | 3.2.1.21 | from API 20A |
| 68380 | beta-glucuronidase | - | 3.2.1.31 | from API rID32A |
| 20944 | cytochrome-c oxidase | - | 1.9.3.1 | |
| 68367 | gelatinase | + | from API 20A | |
| 68380 | glutamate decarboxylase | - | 4.1.1.15 | from API rID32A |
| 68380 | glutamyl-glutamate arylamidase | - | from API rID32A | |
| 68380 | glycin arylamidase | - | from API rID32A | |
| 68380 | histidine arylamidase | - | from API rID32A | |
| 68380 | L-arginine arylamidase | - | from API rID32A | |
| 68380 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 | from API rID32A |
| 68380 | phenylalanine arylamidase | - | from API rID32A | |
| 68380 | proline-arylamidase | + | 3.4.11.5 | from API rID32A |
| 68380 | pyrrolidonyl arylamidase | - | 3.4.19.3 | from API rID32A |
| 68380 | serine arylamidase | - | from API rID32A | |
| 68380 | tryptophan deaminase | - | 4.1.99.1 | from API rID32A |
| 68380 | tyrosine arylamidase | - | from API rID32A | |
| 68380 | urease | - | 3.5.1.5 | from API rID32A |
| 68367 | urease | - | 3.5.1.5 | from API 20A |
| @ref | URE | ADH (Arg) | alpha GAL | beta GAL | beta-Galactosidase 6-phosphatebeta GP | alpha GLU | beta GLU | alpha ARA | beta GUR | beta-N-Acetyl-beta-glucosaminidasebeta NAG | MNE | RAF | GDC | alpha FUC | Reduction of nitrateNIT | IND | PAL | L-arginine arylamidaseArgA | ProA | LGA | Phenylalanine arylamidasePheA | Leucine arylamidaseLeuA | PyrA | Tyrosine arylamidaseTyrA | Alanine arylamidaseAlaA | Glycin arylamidaseGlyA | Histidine arylamidaseHisA | Glutamyl-glutamate arylamidaseGGA | Serine arylamidaseSerA | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 20944 | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | |
| 20944 | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | + | +/- | - | +/- | - | - | - | - | - | - | - |
| @ref | Description | Assembly level | INSDC accession | BV-BRC accession | IMG accession | NCBI tax ID | Score | |
|---|---|---|---|---|---|---|---|---|
| 124043 | ASM208006v1 assembly for Clostridioides difficile 630 delta erm | complete | GCA_002080065   | 1496.2021  | 2871977330  | 1496 | 98.75 | |
| Topic | Title | Authors | Journal | DOI | Year | |
|---|---|---|---|---|---|---|
| Rifaximin resistance in Clostridioides difficile is associated with specific rpoB alleles and multilocus sequence typing (MLST) clades. | Schwanbeck J, Laukien F, Riedel T, Bunk B, Halama P, Sproer C, Overmann J, Cooper P, Kusumawati RL, Gross U, Bohne W, Zautner AE. | BMC Microbiol | 10.1186/s12866-025-04164-4 | 2025 | | |
| Genomic analysis of a novel ST11(PR34365) Clostridioides difficile strain isolated from the human fecal of a CDI patient in Guizhou, China. | Yang Y, Shu L, Ling P, Yang J, Shao R, Cheng Y, Luo S, Wei X, Guan Z, Chen Z, Liao J, Qi X, Cui G, Hong W. | Open Life Sci | 10.1515/biol-2025-1067 | 2025 | | |
| Metabolism | Formation of the pyruvoyl-dependent proline reductase Prd from Clostridioides difficile requires the maturation enzyme PrdH. | Behlendorf C, Diwo M, Neumann-Schaal M, Fuchs M, Korner D, Jansch L, Faber F, Blankenfeldt W. | PNAS Nexus | 10.1093/pnasnexus/pgae249 | 2024 | |
| Clostridioides difficile minimal nutrient requirements for flagellar motility. | Schwanbeck J, Oehmig I, Gross U, Bohne W. | Front Microbiol | 10.3389/fmicb.2023.1172707 | 2023 | | |
| Metabolism | Thiol Metabolism and Volatile Metabolome of Clostridioides difficile. | Biwer P, Neumann-Schaal M, Henke P, Jahn D, Schulz S. | Front Microbiol | 10.3389/fmicb.2022.864587 | 2022 | |
| Clostridioides difficile Single Cell Swimming Strategy: A Novel Motility Pattern Regulated by Viscoelastic Properties of the Environment. | Schwanbeck J, Oehmig I, Gross U, Zautner AE, Bohne W. | Front Microbiol | 10.3389/fmicb.2021.715220 | 2021 | | |
| Clostridioides difficile Activates Human Mucosal-Associated Invariant T Cells. | Bernal I, Hofmann JD, Bulitta B, Klawonn F, Michel AM, Jahn D, Neumann-Schaal M, Bruder D, Jansch L. | Front Microbiol | 10.3389/fmicb.2018.02532 | 2018 | | |
| PrsA2 (CD630_35000) of Clostridioides difficile Is an Active Parvulin-Type PPIase and a Virulence Modulator. | Unal CM, Berges M, Smit N, Schiene-Fischer C, Priebe C, Strowig T, Jahn D, Steinert M. | Front Microbiol | 10.3389/fmicb.2018.02913 | 2018 | | |
| Pleiotropic Clostridioides difficile Cyclophilin PpiB Controls Cysteine-Tolerance, Toxin Production, the Central Metabolism and Multiple Stress Responses. | Unal CM, Karagoz MS, Berges M, Priebe C, Borrero de Acuna JM, Wissing J, Jansch L, Jahn D, Steinert M. | Front Pharmacol | 10.3389/fphar.2019.00340 | 2019 | | |
| Pathogenicity | Transcriptional licensing is required for Pyrin inflammasome activation in human macrophages and bypassed by mutations causing familial Mediterranean fever. | Mangan MSJ, Mangan MSJ, Gorki F, Krause K, Heinz A, Pankow A, Ebert T, Jahn D, Hiller K, Hornung V, Maurer M, Schmidt FI, Gerhard R, Latz E. | PLoS Biol | 10.1371/journal.pbio.3001351 | 2022 | |
| Metabolism | Characterization of Clostridioides difficile DSM 101085 with A-B-CDT+ Phenotype from a Late Recurrent Colonization. | Riedel T, Neumann-Schaal M, Wittmann J, Schober I, Hofmann JD, Lu CW, Dannheim A, Zimmermann O, Lochner M, Gross U, Overmann J | Genome Biol Evol | 10.1093/gbe/evaa072 | 2020 | |
| Genetics | Manual curation and reannotation of the genomes of Clostridium difficile 630Deltaerm and C. difficile 630. | Dannheim H, Riedel T, Neumann-Schaal M, Bunk B, Schober I, Sproer C, Chibani CM, Gronow S, Liesegang H, Overmann J, Schomburg D | J Med Microbiol | 10.1099/jmm.0.000427 | 2017 | |
How to citeIf you want to cite this particular strain cite the following doi:
https://doi.org/10.13145/bacdive23855.20251217.10
When using BacDive for research please cite the following paper
BacDive in 2025: the core database for prokaryotic strain data
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