Olsenella umbonata (DSM 105334, WB01-CNA04-AN)

Name: Olsenella umbonata (DSM 105334, WB01-CNA04-AN)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 159567

Type strain

Strain Designation WB01-CNA04-AN

Culture col. no. DSM 105334 WB01-CNA04-AN

NCBI tax ID(s) 604330

Special Collections DSMZ Pig DZIF

History DSMZ <- E. Allen-Vercoe, Univ. Guelph, Ontario, Canada;

Links

Olsenella umbonata WB01-CNA04-AN is a bacterium that was isolated from wild boar.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 402590

DSM 105334

@ref 20215

Last LPSN update 2026-05-29 08:44:13

Domain Bacteria

Phylum Actinomycetota

Class Coriobacteriia

Order Coriobacteriales

Family Atopobiaceae

Genus Olsenella

Species Olsenella umbonata

Full scientific name Olsenella umbonata Kraatz et al. 2011

Synonyms (1)

Parafannyhessea umbonata

BacDive ID	Other strains from **Olsenella umbonata** (3)	Type strain
3062	O. umbonata lac31, DSM 22620, CCUG 58604, JCM 16156, ... (type strain)
3061	O. umbonata A2, DSM 22619, CCUG 58212, JCM 16157
159566	O. umbonata CA-693-APC-4B, DSM 105184

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
66393	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
66393	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)
66393	positive	growth	37

Physiology and metabolism

Spore formation

@ref	Spore formation	Confidence
125439		99.069

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68380	29016 ChEBI	arginine	+	hydrolysis	from API rID32A
68380	16024 ChEBI	D-mannose	+	fermentation	from API rID32A
68380	29985 ChEBI	L-glutamate	-	degradation	from API rID32A
68380	17632 ChEBI	nitrate	-	reduction	from API rID32A
68380	16634 ChEBI	raffinose	-	fermentation	from API rID32A
68380	27897 ChEBI	tryptophan	-	energy source	from API rID32A
68380	16199 ChEBI	urea	-	hydrolysis	from API rID32A

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68380	35581 ChEBI	indole		from API rID32A

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68380	35581 ChEBI	indole	-	from API rID32A

Enzymes

@ref	Value	Activity	Ec
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
68380	beta-glucuronidase	-	3.2.1.31	from API rID32A
68380	glutamate decarboxylase	-	4.1.1.15	from API rID32A
68380	glutamyl-glutamate arylamidase	-		from API rID32A
68380	histidine arylamidase	+		from API rID32A
68380	L-arginine arylamidase	+		from API rID32A
68380	leucine arylamidase	+	3.4.11.1	from API rID32A
68380	leucyl glycin arylamidase	-	3.4.11.1	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

API rID32A

@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
66393	-	+	-	-	-	+	-	-	-	-	+	-	-	-	-	-	+	+	+	-	-	+	-	-	+/-	+/-	+	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Mammals	#Suidae (Pig,Swine)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
66393	wild boar	Stratford, Ontario	Canada	CAN	North America

Taxonmaps

69479

Global distribution of 16S sequence MN537488 (>99% sequence identity) for Olsenella umbonata subclade from Microbeatlas

Aquatic Samples	902
Soil Samples	512
Animal Samples	12522
Plant Samples	255
Total Samples	14191

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
66393	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
124043	ASM969584v1 assembly for Parafannyhessea umbonata WB01_CNA04	contig	GCA_009695845	604330.56	8080324265	604330	78.41

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
66393	Parafannyhessea umbonata strain DSM 105334 16S ribosomal RNA gene, partial sequence	MN537488	1415		604330

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM969584v1 assembly for Parafannyhessea umbonata WB01_CNA04
NCBI: GCA_009695845

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate anaerobe	89.96	no
125439	gram_stain	BacteriaNetⓘ	negative	76.83	no
125439	motility	BacteriaNetⓘ	yes	49.97	no
125439	spore_formation	BacteriaNetⓘ	no	99.07	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Olsenella umbonata strain WB01_CNA04
PATRIC: 604330.56

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	78.00	no
125438	anaerobic	anaerobicⓘ	yes	89.38	no
125438	spore-forming	spore-formingⓘ	no	72.87	no
125438	aerobic	aerobicⓘ	no	94.05	no
125438	thermophilic	thermophileⓘ	no	89.25	no
125438	flagellated	motile2+ⓘ	no	87.60	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Direct Conversion of Food Waste Extract into Caproate: Metagenomics Assessment of Chain Elongation Process.	Crognale S, Braguglia CM, Gallipoli A, Gianico A, Rossetti S, Montecchio D.	Microorganisms	10.3390/microorganisms9020327	2021

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 )
#66393	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 105334
#68380	Automatically annotated from API rID32A .
#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 .
#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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Olsenella umbonata (DSM 105334, WB01-CNA04-AN)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Spore formation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API rID32A

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_009695845

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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