Corynebacterium urealyticum (DSM 7111, ATCC 43044, Garcia)

Name: Corynebacterium urealyticum (DSM 7111, ATCC 43044, Garcia)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 3150

Type strain

Strain Designation Garcia

Culture col. no. DSM 7111 ATCC 43044 Garcia CCUG 18159

NCBI tax ID(s) 1267754 43771

Special Collections DSMZ CCUG

History DSMZ <- ATCC <- F. Soriano, 3 (Corynebacterium group D2). (Garcia strain)

Links

Corynebacterium urealyticum Garcia is a human pathogen that was isolated from urine.

human pathogen genome sequence Bacteria

Name and taxonomic classification

SI-ID 41614

ATCC 43044,CCUG 18159,CECT 4144,DSM 7111

@ref 20215

Last LPSN update 2026-05-29 08:25:38

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Corynebacteriaceae

Genus Corynebacterium

Species Corynebacterium urealyticum

Full scientific name Corynebacterium urealyticum Pitcher et al. 1992

BacDive ID	Other strains from **Corynebacterium urealyticum** (43)	Type strain
3148	C. urealyticum Armendariz, 1, DSM 7109, ATCC 43042, NCTC ... (type strain)
3149	C. urealyticum Bajo, DSM 7110, ATCC 43043, CIP 103425
134904	C. urealyticum 721.86, CIP 102730
135000	C. urealyticum 105.87, CIP 102843
135241	C. urealyticum A21397, CIP 103276
136070	C. urealyticum 266-85, CIP 102292
136094	C. urealyticum 448-86, CIP 102444
137638	C. urealyticum 195-87, CIP 102949
137819	C. urealyticum 386.84, CIP 100873
137860	C. urealyticum 823.85, CIP 101943
137961	C. urealyticum 269-86, CIP 102316
137963	C. urealyticum 298-86, CIP 102319
137984	C. urealyticum CIP 102375
138002	C. urealyticum 457-86, CIP 102449
138003	C. urealyticum 455-86, CIP 102450
138004	C. urealyticum 459-86, CIP 102451
138605	C. urealyticum 486-86, CIP 102488
138760	C. urealyticum 131.87, CIP 102875
139205	C. urealyticum 493.85, CIP 101698
139593	C. urealyticum 136.87, CIP 102879
143107	C. urealyticum CCUG 17231
143123	C. urealyticum CCUG 17286
143227	C. urealyticum CCUG 17882
143333	C. urealyticum CCUG 18441
143386	C. urealyticum CCUG 18829
143636	C. urealyticum CCUG 20684
143659	C. urealyticum CCUG 20855
144969	C. urealyticum CCUG 27323
145011	C. urealyticum CCUG 27400 A
146987	C. urealyticum CCUG 32602
147007	C. urealyticum CCUG 32635
147463	C. urealyticum CCUG 33614
147717	C. urealyticum CCUG 34075
147718	C. urealyticum CCUG 34076
148170	C. urealyticum CCUG 34966
148212	C. urealyticum CCUG 35044
148223	C. urealyticum CCUG 35067
148569	C. urealyticum CCUG 35650
149423	C. urealyticum CCUG 37702
151852	C. urealyticum CCUG 45051
151948	C. urealyticum CCUG 45302
152685	C. urealyticum CCUG 47356
156105	C. urealyticum CCUG 60386

Morphology

Cell morphology

@ref	Confidence	Gram stain
125438	92
125438	91.128	positive
125439	93.907

Multimedia

@ref:	2988
multimedia content:	DSM_7111.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_7111.jpg
caption:	Medium 693 37°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
2988	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

Culture temp

@ref	Growth	Type	Temperature (°C)
2988	positive	growth	37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	facultative anaerobe	92.645

Spore formation

@ref	Spore formation	Confidence
125439		95.777

Murein

@ref	Murein short key	Type
2988	A31	A1gamma m-Dpm-direct

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68379	17634 ChEBI	D-glucose	-	fermentation	from API Coryne
68379	16899 ChEBI	D-mannitol	-	fermentation	from API Coryne
68379	16988 ChEBI	D-ribose	-	fermentation	from API Coryne
68379	65327 ChEBI	D-xylose	-	fermentation	from API Coryne
68379	4853 ChEBI	esculin	-	hydrolysis	from API Coryne
68379	5291 ChEBI	gelatin	-	hydrolysis	from API Coryne
68379	28087 ChEBI	glycogen	-	fermentation	from API Coryne
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
68379	17632 ChEBI	nitrate	-	reduction	from API Coryne
68379	17992 ChEBI	sucrose	-	fermentation	from API Coryne
68379	16199 ChEBI	urea	+	hydrolysis	from API Coryne

Enzymes

@ref	Value	Activity	Ec
68379	alkaline phosphatase	-	3.1.3.1	from API Coryne
68379	alpha-glucosidase	-	3.2.1.20	from API Coryne
68379	beta-galactosidase	-	3.2.1.23	from API Coryne
68379	beta-glucosidase	-	3.2.1.21	from API Coryne
68379	beta-glucuronidase	-	3.2.1.31	from API Coryne
68379	catalase	+	1.11.1.6	from API Coryne
68379	gelatinase	-		from API Coryne
68379	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API Coryne
68379	pyrazinamidase	+	3.5.1.B15	from API Coryne
68379	pyrrolidonyl arylamidase	-	3.4.19.3	from API Coryne
68379	urease	+	3.5.1.5	from API Coryne

API coryne

@ref	Reduction of nitrateNIT	PYZ	PYRA	PAL	beta GUR	beta GAL	alpha GLU	beta NAG	ESC	URE	GEL	Control fermentationControl	GLU	RIB	XYL	MAN	MAL	LAC	SAC	GLYG	CAT
2988	-	+	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host Body Product	#Fluids	#Urine

Isolation

@ref	Sample type	Host species	Country	Country ISO 3 Code	Continent
2988	urine
46775	Human urine,alkaline-encrusted cystitis	Homo sapiens	Spain	ESP	Europe

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Pathogenicity animal	Biosafety level	Biosafety level comment
2988			2	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM33809v1 assembly for Corynebacterium urealyticum DSM 7111	complete	GCA_000338095	1267754.3	2529292687	1267754	98.55
124043	ASM1612709v1 assembly for Corynebacterium urealyticum FDAARGOS_996	complete	GCA_016127095	43771.86		43771	98.2

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM33809v1 assembly for Corynebacterium urealyticum DSM 7111
BV-BRC: 1267754.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	92.65	no
125439	gram_stain	BacteriaNetⓘ	positive	85.90	no
125439	motility	BacteriaNetⓘ	no	93.91	no
125439	spore_formation	BacteriaNetⓘ	no	95.78	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Corynebacterium urealyticum DSM 7111 DSM 7111
NCBI: GCA_000338095.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	91.13	no
125438	anaerobic	anaerobicⓘ	no	93.59	no
125438	aerobic	aerobicⓘ	yes	60.76	no
125438	spore-forming	spore-formingⓘ	no	81.04	no
125438	thermophilic	thermophileⓘ	no	94.00	yes
125438	flagellated	motile2+ⓘ	no	92.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Antimicrobial Susceptibility and Characterization of Resistance Mechanisms of Corynebacterium urealyticum Clinical Isolates.	Chapartegui-Gonzalez I, Fernandez-Martinez M, Rodriguez-Fernandez A, Rocha DJP, Aguiar ERGR, Pacheco LGC, Ramos-Vivas J, Calvo J, Martinez-Martinez L, Navas J.	Antibiotics (Basel)	10.3390/antibiotics9070404	2020
Genetics	MP4: a machine learning based classification tool for prediction and functional annotation of pathogenic proteins from metagenomic and genomic datasets.	Gupta A, Malwe AS, Srivastava GN, Thoudam P, Hibare K, Sharma VK.	BMC Bioinformatics	10.1186/s12859-022-05061-7	2022
	Corynebacterium urealyticum: a comprehensive review of an understated organism.	Salem N, Salem L, Saber S, Ismail G, Bluth MH.	Infect Drug Resist	10.2147/idr.s74795	2015
Genetics	De novo assembly of genomes from long sequence reads reveals uncharted territories of Propionibacterium freudenreichii.	Deptula P, Laine PK, Roberts RJ, Smolander OP, Vihinen H, Piironen V, Paulin L, Jokitalo E, Savijoki K, Auvinen P, Varmanen P.	BMC Genomics	10.1186/s12864-017-4165-9	2017
	Preliminary in Vitro Studies on Corynebacterium urealyticum Pathogenetic Mechanisms, a Possible Candidate for Chronic Idiopathic Prostatitis?	Nicolosi D, Genovese C, Cutuli MA, D'Angeli F, Pietrangelo L, Davinelli S, Petronio Petronio G, Di Marco R.	Microorganisms	10.3390/microorganisms8040463	2020
Metabolism	Antimicrobial Efficacy of Un-Ionized Ammonia (NH₃) against Salmonella Typhimurium in Buffered Solutions with Variable pH, NH₃ Concentrations, and Urease-Producing Bacteria.	Gutierrez A, Havelaar AH, Schneider KR.	Microbiol Spectr	10.1128/spectrum.01850-21	2022
	Expression of Genes for a Flavin Adenine Dinucleotide-Binding Oxidoreductase and a Methyltransferase from Mycobacterium chlorophenolicum Is Necessary for Biosynthesis of 10-Methyl Stearic Acid from Oleic Acid in Escherichia coli.	Machida S, Bakku RK, Suzuki I.	Front Microbiol	10.3389/fmicb.2017.02061	2017
Pathogenicity	Influence of external factors in resistance of Corynebacterium urealyticum to antimicrobial agents.	Garcia-Bravo M, Aguado JM, Morales JM, Noriega AR.	Antimicrob Agents Chemother	10.1128/aac.40.2.497	1996
Pathogenicity	Comparative in vitro activities of new quinolones against coryneform bacteria.	Martinez-Martinez L, Suarez AI, Ortega MC, Perea EJ.	Antimicrob Agents Chemother	10.1128/aac.38.6.1439	1994
Pathogenicity	Comparison of E-test with broth microdilution and disk diffusion for susceptibility testing of coryneform bacteria.	Martinez-Martinez L, Ortega MC, Suarez AI.	J Clin Microbiol	10.1128/jcm.33.5.1318-1321.1995	1995
Metabolism	In vitro and in vivo study of stone formation by Corynebacterium group D2 (Corynebacterium urealyticum).	Soriano F, Ponte C, Santamaria M, Castilla C, Fernandez Roblas R.	J Clin Microbiol	10.1128/jcm.23.4.691-694.1986	1986
Pathogenicity	In vitro activity of 79 antimicrobial agents against Corynebacterium group D2.	Garcia-Rodriguez JA, Garcia Sanchez JE, Munoz Bellido JL, Nebreda Mayoral T, Garcia Sanchez E, Garcia Garcia I.	Antimicrob Agents Chemother	10.1128/aac.35.10.2140	1991
Phylogeny	Evaluation of API Coryne system for identifying coryneform bacteria.	Soto A, Zapardiel J, Soriano F.	J Clin Pathol	10.1136/jcp.47.8.756	1994
	Treatment of encrusted cystitis caused by Corynebacterium group D2 with norfloxacin, ciprofloxacin, and teicoplanin in an experimental model in rats.	Soriano F, Rodriguez-Tudela JL, Castilla C, Aviles P.	Antimicrob Agents Chemother	10.1128/aac.35.12.2587	1991
Phylogeny	High-performance liquid chromatography of corynomycolic acids as a tool in identification of Corynebacterium species and related organisms.	De Briel D, Couderc F, Riegel P, Jehl F, Minck R.	J Clin Microbiol	10.1128/jcm.30.6.1407-1417.1992	1992
Genetics	Complete Genome Sequence of Corynebacterium urealyticum Strain DSM 7111, Isolated from a 9-Year-Old Patient with Alkaline-Encrusted Cystitis.	Guimaraes LC, Soares SC, Albersmeier A, Blom J, Jaenicke S, Azevedo V, Soriano F, Tauch A, Trost E	Genome Announc	10.1128/genomeA.00264-13	2013
Genetics	Genome informatics and vaccine targets in Corynebacterium urealyticum using two whole genomes, comparative genomics, and reverse vaccinology.	Guimaraes L, Soares S, Trost E, Blom J, Ramos R, Silva A, Barh D, Azevedo V	BMC Genomics	10.1186/1471-2164-16-S5-S7	2015
Genetics	Genome sequence and description of Corynebacterium ihumii sp. nov.	Padmanabhan R, Dubourg G, Lagier JC, Couderc C, Michelle C, Raoult D, Fournier PE.	Stand Genomic Sci	10.4056/sigs.5149006	2014

References

#2988	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 7111
#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 )
#46775	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 18159
#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) .
#68379	Automatically annotated from API Coryne .
#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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Corynebacterium urealyticum (DSM 7111, ATCC 43044, Garcia)

Name and taxonomic classification

Morphology

Cell morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Murein

Metabolite utilization

Enzymes

API coryne

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000338095

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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