Clostridium sporogenes SR 5 is an anaerobe, spore-forming, mesophilic prokaryote that was isolated from gas gangrene.
spore-forming Gram-positive motile rod-shaped anaerobe mesophilic genome sequence| @ref 20215 |
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| Domain Bacillati |
| Phylum Bacillota |
| Class Clostridia |
| Order Eubacteriales |
| Family Clostridiaceae |
| Genus Clostridium |
| Species Clostridium sporogenes |
| Full scientific name Clostridium sporogenes (Metchnikoff 1908) Bergey et al. 1923 (Approved Lists 1980) |
| Synonyms (1) |
| @ref | Name | Growth | Medium link | Composition | |
|---|---|---|---|---|---|
| 845 | CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) | Medium recipe at MediaDive | Name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l D-Glucose 4.0 g/l Starch 1.0 g/l Maltose 1.0 g/l Cellobiose 1.0 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Sodium resazurin 0.0005 g/l Vitamin K1 NaOH Distilled water | ||
| 845 | FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a) | Medium recipe at MediaDive | Name: FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a) Composition: Fastidious Anaerobe Basal Broth 35.4 g/l Distilled water | ||
| 36205 | MEDIUM 20 - for Anaerobic bacteria | Agar (15.000 g);Glucose (5.000 g);Yeast extract (20.000 g);Tryptone (30.000 g);Cysteine hydrochloride (0.500 g);distilled water (1000.000 ml);Hemin solution -M00149 (25.000 ml) | |||
| 845 | COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) | Medium recipe at MediaDive | Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base | ||
| 123273 | CIP Medium 20 | Medium recipe at CIP |
| 123273 | Spore formationyes |
| @ref | Chebi-ID | Metabolite | Utilization activity | Kind of utilization tested | |
|---|---|---|---|---|---|
| 68380 | 29016 ChEBI | arginine | + | hydrolysis | from API rID32A |
| 68367 | 17057 ChEBI | cellobiose | - | builds acid from | from API 20A |
| 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 |
| 123273 | 4853 ChEBI | esculin | + | hydrolysis | |
| 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 |
| 123273 | 17632 ChEBI | nitrate | - | reduction | |
| 123273 | 16301 ChEBI | nitrite | + | reduction | |
| 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 | 30911 ChEBI | sorbitol | - | 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 | |
|---|---|---|---|---|
| 68382 | acid phosphatase | - | 3.1.3.2 | from API zym |
| 68380 | alanine arylamidase | - | 3.4.11.2 | from API rID32A |
| 123273 | alcohol dehydrogenase | + | 1.1.1.1 | |
| 68382 | alkaline phosphatase | - | 3.1.3.1 | from API zym |
| 68380 | alkaline phosphatase | - | 3.1.3.1 | from API rID32A |
| 68380 | alpha-arabinosidase | - | 3.2.1.55 | from API rID32A |
| 68382 | alpha-chymotrypsin | - | 3.4.21.1 | from API zym |
| 68382 | alpha-fucosidase | - | 3.2.1.51 | from API zym |
| 68380 | alpha-fucosidase | - | 3.2.1.51 | from API rID32A |
| 68382 | alpha-galactosidase | - | 3.2.1.22 | from API zym |
| 68380 | alpha-galactosidase | - | 3.2.1.22 | from API rID32A |
| 68382 | alpha-glucosidase | + | 3.2.1.20 | from API zym |
| 68382 | alpha-mannosidase | - | 3.2.1.24 | from API zym |
| 68380 | arginine dihydrolase | + | 3.5.3.6 | from API rID32A |
| 68382 | beta-galactosidase | - | 3.2.1.23 | from API zym |
| 68380 | beta-galactosidase | - | 3.2.1.23 | from API rID32A |
| 68380 | beta-Galactosidase 6-phosphate | - | from API rID32A | |
| 68382 | beta-glucosidase | - | 3.2.1.21 | from API zym |
| 68367 | beta-glucosidase | + | 3.2.1.21 | from API 20A |
| 68382 | beta-glucuronidase | - | 3.2.1.31 | from API zym |
| 68380 | beta-glucuronidase | - | 3.2.1.31 | from API rID32A |
| 123273 | catalase | - | 1.11.1.6 | |
| 68382 | cystine arylamidase | - | 3.4.11.3 | from API zym |
| 68382 | esterase (C 4) | + | from API zym | |
| 68382 | esterase lipase (C 8) | + | from API zym | |
| 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 | |
| 68382 | leucine arylamidase | + | 3.4.11.1 | from API zym |
| 68380 | leucine arylamidase | - | 3.4.11.1 | from API rID32A |
| 68380 | leucyl glycin arylamidase | - | 3.4.11.1 | from API rID32A |
| 68382 | lipase (C 14) | - | from API zym | |
| 123273 | lysine decarboxylase | - | 4.1.1.18 | |
| 68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 | from API zym |
| 68380 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 | from API rID32A |
| 68382 | naphthol-AS-BI-phosphohydrolase | - | from API zym | |
| 123273 | ornithine decarboxylase | - | 4.1.1.17 | |
| 123273 | oxidase | - | ||
| 68380 | phenylalanine arylamidase | - | from API rID32A | |
| 68380 | proline-arylamidase | + | 3.4.11.5 | from API rID32A |
| 68380 | serine arylamidase | - | from API rID32A | |
| 68382 | trypsin | + | 3.4.21.4 | from API zym |
| 68380 | tryptophan deaminase | - | 4.1.99.1 | from API rID32A |
| 68380 | tyrosine arylamidase | - | from API rID32A | |
| 123273 | urease | - | 3.5.1.5 | |
| 68380 | urease | - | 3.5.1.5 | from API rID32A |
| 68367 | urease | - | 3.5.1.5 | from API 20A |
| 68382 | valine arylamidase | - | from API zym |
| @ref | IND | URE | GLU | MAN | LAC | SAC | MAL | SAL | XYL | ARA | GEL | ESC | GLY | CEL | MNE | MLZ | RAF | SOR | RHA | TRE | CAT | Spores presentSPOR | GramGRAM | Morphology coccus="+" rod="-"COCC | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 845 | - | - | + | - | - | - | + | - | - | - | + | + | - | - | - | - | - | - | - | + | not determinedn.d. | not determinedn.d. | not determinedn.d. | not determinedn.d. |
| @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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 845 | - | + | - | - | - | +/- | +/- | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | + | - | - | - | - | - | - | |
| 845 | - | + | - | - | - | - | +/- | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - |
| @ref | Description | Assembly level | INSDC accession | BV-BRC accession | IMG accession | NCBI tax ID | Score | |
|---|---|---|---|---|---|---|---|---|
| 66792 | Clostridium sporogenes strain FDAARGOS_1470 | complete | 1509 | 99.05 | ||||
| 66792 | Clostridium sporogenes strain FDAARGOS_1470 | complete | 1509 | 99.05 | ||||
| 66792 | Clostridium sporogenes strain FDAARGOS_1470 | complete | 1509 | 99.05 | ||||
| 124043 | ASM1993321v1 assembly for Clostridium sporogenes FDAARGOS_1470 | chromosome | 1509 | 86.01 | ||||
| 66792 | ASM157385v1 assembly for Clostridium sporogenes ATCC 19404 | contig | 1509 | 67.99 | ||||
| 66792 | ASM1101947v1 assembly for Clostridium sporogenes NCTC 532 | contig | 1509 | 59.46 |
| 845 | GC-content (mol%)27.0 |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125439 | spore_formation | BacteriaNetⓘ | yes | 79.40 | no |
| 125439 | motility | BacteriaNetⓘ | yes | 75.90 | no |
| 125439 | gram_stain | BacteriaNetⓘ | positive | 84.10 | no |
| 125439 | oxygen_tolerance | BacteriaNetⓘ | anaerobe | 99.10 | no |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positiveⓘ | yes | 63.23 | no |
| 125438 | anaerobic | anaerobicⓘ | yes | 83.25 | yes |
| 125438 | spore-forming | spore-formingⓘ | yes | 71.33 | no |
| 125438 | thermophilic | thermophileⓘ | no | 92.67 | no |
| 125438 | aerobic | aerobicⓘ | no | 93.62 | no |
| 125438 | flagellated | motile2+ⓘ | yes | 80.28 | no |
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| The ratio of nicotinic acid to nicotinamide as a microbial biomarker for assessing cell therapy product sterility. | Huang J, Cui L, Natarajan M, Barone PW, Wolfrum JM, Lee YH, Rice SA, Springs SL. | Mol Ther Methods Clin Dev | 10.1016/j.omtm.2022.04.006 | 2022 | ||
| Genetic Characterization of the Exceptionally High Heat Resistance of the Non-toxic Surrogate Clostridium sporogenes PA 3679. | Butler RR, Schill KM, Wang Y, Pombert JF. | Front Microbiol | 10.3389/fmicb.2017.00545 | 2017 | ||
| Increased sensitivity of microbiological testing of cornea organ culture medium by additional resin treatment. | Skenderi Z, Giurgola L, Gatto C, D'Amato Tothova J, Pruss A, Schroeter J. | BMJ Open Ophthalmol | 10.1136/bmjophth-2018-000173 | 2018 | ||
| Quality of dorzolamide hydrochloride and timolol maleate containing eye drops distributed online. | Merczel S, Vida RG, Tasi T, Fittler A, Botz L. | Saudi Pharm J | 10.1016/j.jsps.2023.04.018 | 2023 | ||
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| Composition, Antioxidant Potential, and Antimicrobial Activity of Helichrysum plicatum DC. Various Extracts. | Vujic B, Vidakovic V, Jadranin M, Novakovic I, Trifunovic S, Tesevic V, Mandic B. | Plants (Basel) | 10.3390/plants9030337 | 2020 | ||
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| Phylogeny | Differentiation of Clostridium botulinum serotype A strains by multiple-locus variable-number tandem-repeat analysis. | Macdonald TE, Helma CH, Ticknor LO, Jackson PJ, Okinaka RT, Smith LA, Smith TJ, Hill KK. | Appl Environ Microbiol | 10.1128/aem.01539-07 | 2008 | |
| Phylogeny | Comparative genomic analyses reveal broad diversity in botulinum-toxin-producing Clostridia. | Williamson CH, Sahl JW, Smith TJ, Xie G, Foley BT, Smith LA, Fernandez RA, Lindstrom M, Korkeala H, Keim P, Foster J, Hill K. | BMC Genomics | 10.1186/s12864-016-2502-z | 2016 | |
| Metabolism | A practical approach for the validation of sterility, endotoxin and potency testing of bone marrow mononucleated cells used in cardiac regeneration in compliance with good manufacturing practice. | Soncin S, Lo Cicero V, Astori G, Soldati G, Gola M, Surder D, Moccetti T. | J Transl Med | 10.1186/1479-5876-7-78 | 2009 | |
| Enzymology | Regulation of the arginine dihydrolase pathway in Clostridium sporogenes. | Venugopal V, Nadkarni GB. | J Bacteriol | 10.1128/jb.131.2.693-695.1977 | 1977 | |
| Enzymology | First case of type E wound botulism diagnosed using real-time PCR. | Artin I, Bjorkman P, Cronqvist J, Radstrom P, Holst E. | J Clin Microbiol | 10.1128/jcm.01192-07 | 2007 | |
| Pathogenicity | In vitro synergy studies with Clostridium difficile. | Bacon AE, McGrath S, Fekety R, Holloway WJ. | Antimicrob Agents Chemother | 10.1128/aac.35.3.582 | 1991 | |
| Phylogeny | Multiplex PCR assay for detection and identification of Clostridium botulinum types A, B, E, and F in food and fecal material. | Lindstrom M, Keto R, Markkula A, Nevas M, Hielm S, Korkeala H. | Appl Environ Microbiol | 10.1128/aem.67.12.5694-5699.2001 | 2001 | |
| Phylogeny | Development of a combined selection and enrichment PCR procedure for Clostridium botulinum Types B, E, and F and its use to determine prevalence in fecal samples from slaughtered pigs. | Dahlenborg M, Borch E, Radstrom P. | Appl Environ Microbiol | 10.1128/aem.67.10.4781-4788.2001 | 2001 | |
| Mesenchymal Stem Cells as Therapeutics Agents: Quality and Environmental Regulatory Aspects. | Galvez-Martin P, Sabata R, Verges J, Zugaza JL, Ruiz A, Clares B. | Stem Cells Int | 10.1155/2016/9783408 | 2016 | ||
| Evaluation of the AnaeroPack system for growth of clinically significant anaerobes. | Delaney ML, Onderdonk AB. | J Clin Microbiol | 10.1128/jcm.35.3.558-562.1997 | 1997 | ||
| Enzymology | Evaluation of the RapID-ANA system for identification of anaerobic bacteria of veterinary origin. | Adney WS, Jones RL. | J Clin Microbiol | 10.1128/jcm.22.6.980-983.1985 | 1985 | |
| Susceptibility of Clostridium sporogenes Spores to Selected Reference Substances and Disinfectants. | Chojecka A. | Pol J Microbiol | 10.33073/pjm-2022-031 | 2022 | ||
| Evaluation of Antibacterial and Antifungal Properties of Alchornea laxiflora (Benth.) Pax. & Hoffman. | Akinpelu DA, Abioye EO, Aiyegoro OA, Akinpelu OF, Okoh AI. | Evid Based Complement Alternat Med | 10.1155/2015/684839 | 2015 | ||
| Preliminary phytochemical screening and antibacterial properties of crude stem bark extracts and fractions of Parkia biglobosa (Jacq.). | Abioye EO, Akinpelu DA, Aiyegoro OA, Adegboye MF, Oni MO, Okoh AI. | Molecules | 10.3390/molecules18078485 | 2013 | ||
| Pathogenicity | Probable mechanisms of biocidal action of Cocos nucifera Husk extract and fractions on bacteria isolates. | Akinpelu DA, Alayande KA, Aiyegoro OA, Akinpelu OF, Okoh AI. | BMC Complement Altern Med | 10.1186/s12906-015-0634-3 | 2015 | |
| Appraising the therapeutical potentials of Alchornea laxiflora (Benth.) Pax & K. Hoffm., an underexplored medicinal herb: A systematic review. | Jain NK, Tailang M, Kumar S, Chandrasekaran B, Alghazwani Y, Chandramoorthy HC, Kumar A, Deshpande H, Wal P, Balamurugan M, Chidambaram K. | Front Pharmacol | 10.3389/fphar.2022.958453 | 2022 | ||
| Enzymology | New rapid identification test for Clostridium difficile. | Aspinall ST, Dealler SF. | J Clin Pathol | 10.1136/jcp.45.11.956 | 1992 | |
| Phylogeny | Farm level survey of spore-forming bacteria on four dairy farms in the Waikato region of New Zealand. | Gupta TB, Brightwell G. | Microbiologyopen | 10.1002/mbo3.457 | 2017 | |
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| Enzymology | Genomic sequence of bacteriophage ATCC 8074-B1 and activity of its endolysin and engineered variants against Clostridium sporogenes. | Mayer MJ, Gasson MJ, Narbad A. | Appl Environ Microbiol | 10.1128/aem.07884-11 | 2012 | |
| Exploring Propolis as a Sustainable Bio-Preservative Agent to Control Foodborne Pathogens in Vacuum-Packed Cooked Ham. | Rendueles E, Mauriz E, Sanz-Gomez J, Gonzalez-Paramas AM, Adanero-Jorge F, Garcia-Fernandez C. | Microorganisms | 10.3390/microorganisms12050914 | 2024 | ||
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| Enzymology | Characteristics and viral propagation properties of a new human diploid cell line, Walvax-2, and its suitability as a candidate cell substrate for vaccine production. | Ma B, He LF, Zhang YL, Chen M, Wang LL, Yang HW, Yan T, Sun MX, Zheng CY. | Hum Vaccin Immunother | 10.1080/21645515.2015.1009811 | 2015 | |
| Enzymology | Feathery outbrusts of the colonies of Clostridium sporogenes containing chain forming mutants after ultraviolet irradiation. | Shaikh MR, Lominski I | Zentralbl Bakteriol Orig A | 1975 | ||
| Pathogenicity | Induction of chain formation in Clostridium sporogenes by suramin. | Rafi Shaikh M, Lominski I | Zentralbl Bakteriol Orig A | 1975 |
| #845 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 1664 |
| #20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 ) |
| #36205 | ; Curators of the CIP; |
| #66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) . |
| #68367 | Automatically annotated from API 20A . |
| #68380 | Automatically annotated from API rID32A . |
| #68382 | Automatically annotated from API zym . |
| #123273 | Collection of Institut Pasteur ; Curators of the CIP; CIP 79.3 |
| #124043 | Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy . |
| #125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 ) |
| #125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 . |
| #126262 | A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 ) |
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