Dysgonomonas oryzarvi (DSM 105828, JCM 16859, KCTC 5936)

Name: Dysgonomonas oryzarvi (DSM 105828, JCM 16859, KCTC 5936)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 140047

Type strain

Strain Designation Dy73

Culture col. no. DSM 105828 JCM 16859 KCTC 5936 Dy73

NCBI tax ID(s) 722737

Special Collections DSMZ JCM KCTC Literature strains

Links

Dysgonomonas oryzarvi Dy73 is a facultative anaerobe, mesophilic, Gram-negative prokaryote that was isolated from broth sample of microbial fuel cell.

Gram-negative ovoid-shaped facultative anaerobe mesophilic 16S sequence

Name and taxonomic classification

SI-ID 398352

KCTC 5936,JCM 16859,DSM 105828

@ref 20215

Last LPSN update 2025-12-16 10:03:29

Domain Pseudomonadati

Phylum Bacteroidota

Class Bacteroidia

Order Bacteroidales

Family Dysgonomonadaceae

Genus Dysgonomonas

Species Dysgonomonas oryzarvi

Full scientific name Dysgonomonas oryzarvi Kodama et al. 2012

BacDive ID	Other strains from **Dysgonomonas oryzarvi** (1)	Type strain
133815	D. oryzarvi

Morphology

Cell morphology

@ref	Gram stain	Cell shape
30573	negative	ovoid-shaped
67771		rod-shaped
67771	negative

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
42654	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
42654	PYG MEDIUM (MODIFIED) (DSMZ Medium 104)		Medium recipe at MediaDive	Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
42654	positive	growth	37	mesophilic
67770	positive	growth	37	mesophilic
67771	positive	growth	37	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
30573	facultative anaerobe
67771	anaerobe

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30573	22599 ChEBI	arabinose	+	carbon source
30573	17057 ChEBI	cellobiose	+	carbon source
30573	28757 ChEBI	fructose	+	carbon source
30573	28260 ChEBI	galactose	+	carbon source
30573	17234 ChEBI	glucose	+	carbon source
30573	17716 ChEBI	lactose	+	carbon source
30573	17306 ChEBI	maltose	+	carbon source
30573	37684 ChEBI	mannose	+	carbon source
30573	16634 ChEBI	raffinose	+	carbon source
30573	26546 ChEBI	rhamnose	+	carbon source
30573	33942 ChEBI	ribose	+	carbon source
30573	17992 ChEBI	sucrose	+	carbon source
30573	18222 ChEBI	xylose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
30573	alkaline phosphatase	+	3.1.3.1
30573	alpha-galactosidase	+	3.2.1.22

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2
#Engineered	#Bioreactor
#Host	#Microbial

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
42654	broth sample of microbial fuel cell	Japan	JPN	Asia
67770	Microbial fuel cell
67771	From broth, cassette-electrode microbial fuel cell	Japan	JPN	Asia

Taxonmaps

69479

Global distribution of 16S sequence AB547446 (>99% sequence identity) for Dysgonomonas from Microbeatlas

Aquatic Samples	5965
Soil Samples	933
Animal Samples	4917
Plant Samples	388
Total Samples	12203

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
42654	1	Risk group (German classification)

Sequence information

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
42654	Dysgonomonas oryzarvi gene for 16S rRNA, partial sequence	AB547446	1429		722737

GC content

@ref	GC-content (mol%)	Method
42654	37.5	high performance liquid chromatography (HPLC)
67771	37.5

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	A 16S rRNA Gene and Draft Genome Database for the Murine Oral Bacterial Community.	Joseph S, Aduse-Opoku J, Hashim A, Hanski E, Streich R, Knowles SCL, Pedersen AB, Wade WG, Curtis MA.	mSystems	10.1128/msystems.01222-20	2021
Phylogeny	Dysgonomonas oryzarvi sp. nov., isolated from a microbial fuel cell.	Kodama Y, Shimoyama T, Watanabe K	Int J Syst Evol Microbiol	10.1099/ijs.0.039040-0	2012

References

#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 )
#26904	IJSEM 3055 2012 ( DOI 10.1099/ijs.0.039040-0 , PubMed 22307505 )
#30573	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26904
#42654	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 105828
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#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.: MicrobeAtlas 1.0 beta .
#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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Dysgonomonas oryzarvi (DSM 105828, JCM 16859, KCTC 5936)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

16S sequences

GC content

Genome-based predictions

Literature

Literature

References

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