Name: Hallerella succinigenes UW S3
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 139940

Type strain:

Species: Hallerella succinigenes

Strain Designation: UW S3, UWS3

Culture col. no.: DSM 104698, JCM 34256

Strain history: B. Abt; DSMZ, Germany; DSM 104698 (=UWS3) <-- A. Neumann; Univ. of Wisconsin, USA; UWS3.

NCBI tax ID(s): 1896222 (species)

SI-ID 405682

DSM 104698

Special Collections

Section

Hallerella succinigenes UW S3 is an obligate anaerobe, rod-shaped bacterium that was isolated from Pig cecum.

rod-shaped
obligate anaerobe
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Fibrobacterota*
	Class	*Fibrobacteria*
	Order	*Fibrobacterales*
	Family	*Fibrobacteraceae*
	Genus	*Hallerella*
	Species	**Hallerella succinigenes**
	Full Scientific Name (LPSN)	Hallerella succinigenes Wylensek et al. 2021

Information on morphological and physiological properties Morphology

[Ref.: #69645]	Cell length	1-2 µm

[Ref.: #69645]	Cell shape	rod-shaped

Information on culture and growth conditions Culture and growth conditions

[Ref.: #42548]

Culture medium

MDM (MODIFIED DEHORITY MEDIUM) (DSMZ Medium 1668)

[Ref.: #42548]

Culture medium growth

[Ref.: #42548]

Culture medium link

Medium recipe at MediaDive

[Ref.: #42548]

Culture medium composition

expand / minimize

[Ref.: #69645]

Culture medium

Gifu Anaerobic Medium, modi?ed

[Ref.: #69645]

Culture medium growth

[Ref.: #69645]

Culture medium

Wilkins-Chalgren Anaerobe broth

[Ref.: #69645]

Culture medium growth

[Ref.: #69645]

Culture medium composition

expand / minimize

[Ref.: #69645]

Culture medium

modified YCFA

[Ref.: #69645]

Culture medium growth

		Temperature
[Ref.: #42548]	growth	37 °C
[Ref.: #67770]	growth	37 °C
[Ref.: #69645]	growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69645]

Oxygen tolerance

obligate anaerobe

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68380]	arginine ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #68367]	cellobiose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	D-glucose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	D-mannitol ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	D-mannose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68380]	D-mannose ChEBI	-	fermentation	* from API rID32A
[Ref.: #68367]	D-xylose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	esculin ChEBI	-	hydrolysis	* from API 20A
[Ref.: #68367]	gelatin ChEBI	-	hydrolysis	* from API 20A
[Ref.: #69645]	glucose ChEBI	+	assimilation
[Ref.: #68367]	glycerol ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	L-arabinose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68380]	L-glutamate ChEBI	+	degradation	* from API rID32A
[Ref.: #68367]	L-rhamnose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	lactose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	maltose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	melezitose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #68367]	raffinose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68380]	raffinose ChEBI	-	fermentation	* from API rID32A
[Ref.: #68367]	salicin ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	sorbitol ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	sucrose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	trehalose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]	tryptophan ChEBI	-	energy source	* from API 20A, API rID32A
[Ref.: #68367]	urea ChEBI	-	hydrolysis	* from API 20A, API rID32A
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #69645]	acetate ChEBI	yes
[Ref.: #69645]	formate ChEBI	yes
[Ref.: #69645]	succinate ChEBI	yes
[Ref.: #68367]	indole ChEBI	no	* from API 20A, API rID32A

	Physiological tests	Metabolite	Indole test
[Ref.: #68380]		indole ChEBI	-	* from API rID32A, API 20A

	Enzyme	Enzyme activity	EC number
[Ref.: #68380]	alanine arylamidase	-	3.4.11.2	* from API rID32A
[Ref.: #68380]	alkaline phosphatase	-	3.1.3.1	* from API rID32A
[Ref.: #68380]	alpha-arabinosidase	-	3.2.1.55	* from API rID32A
[Ref.: #68380]	alpha-fucosidase	-	3.2.1.51	* from API rID32A
[Ref.: #68380]	alpha-galactosidase	-	3.2.1.22	* from API rID32A
[Ref.: #68380]	alpha-glucosidase	-	3.2.1.20	* from API rID32A
[Ref.: #68380]	arginine dihydrolase	-	3.5.3.6	* from API rID32A
[Ref.: #68380]	beta-galactosidase	-	3.2.1.23	* from API rID32A
[Ref.: #68380]	beta-Galactosidase 6-phosphate	-		* from API rID32A
[Ref.: #68367]	beta-glucosidase	-	3.2.1.21	* from API 20A
[Ref.: #68380]	beta-glucuronidase	-	3.2.1.31	* from API rID32A
[Ref.: #68367]	gelatinase	-		* from API 20A
[Ref.: #68380]	glutamate decarboxylase	+	4.1.1.15	* from API rID32A
[Ref.: #68380]	glutamyl-glutamate arylamidase	-		* from API rID32A
[Ref.: #68380]	glycin arylamidase	-		* from API rID32A
[Ref.: #68380]	histidine arylamidase	-		* from API rID32A
[Ref.: #68380]	L-arginine arylamidase	+		* from API rID32A
[Ref.: #68380]	leucine arylamidase	-	3.4.11.1	* from API rID32A
[Ref.: #68380]	leucyl glycin arylamidase	-	3.4.11.1	* from API rID32A
[Ref.: #68380]	phenylalanine arylamidase	-		* from API rID32A
[Ref.: #68380]	proline-arylamidase	-	3.4.11.5	* from API rID32A
[Ref.: #68380]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API rID32A
[Ref.: #68380]	serine arylamidase	-		* from API rID32A
[Ref.: #68380]	tryptophan deaminase	-	4.1.99.1	* from API rID32A
[Ref.: #68380]	tyrosine arylamidase	-		* from API rID32A
[Ref.: #68380]	urease	-	3.5.1.5	* from API rID32A, API 20A
	Only first 10 entries are displayed. Click here to see all.

API® 20A:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Indole productionIND	Urease/urea hydrolysisURE	Acid from D-glucoseGLU	Acid from D-mannitolMAN	Acid from lactoseLAC	Acid from sucroseSAC	Acid from maltoseMAL	Acid from salicinSAL	Acid from D-xyloseXYL	Acid from L-arabinoseARA	Gelatinase/gelatin hydrolysisGEL	Esculin hydrolysis/beta-glucosidaseESC	Acid from glycerolGLY	Acid from cellobioseCEL	Acid from D-mannoseMNE	Acid from melezitoseMLZ	Acid from raffinoseRAF	Acid from sorbitolSOR	Acid from L-rhamnoseRHA	Acid from trehaloseTRE	CatalaseCAT	Spores presentSPOR	GramGRAM	Morphology coccus="+" rod="-"COCC
[Ref.: #42548]	2156	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

API® rID32A:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Urease/urea hydrolysisURE	Arginine dihydrolaseADH (Arg)	alpha-Galactosidasealpha GAL	beta-Galactosidasebeta GAL	beta-Galactosidase 6-phosphatebeta GP	alpha-Glucosidasealpha GLU	beta-Glucosidasebeta GLU	alpha-Arabinosidasealpha ARA	beta-Glucuronidasebeta GUR	beta-N-Acetyl-beta-glucosaminidasebeta NAG	Fermentation of D-mannoseMNE	Fermentation of raffinoseRAF	Glutamate decarboxylaseGDC	alpha-Fucosidasealpha FUC	Reduction of nitrateNIT	Indole productionIND	Alkaline phosphatasePAL	L-arginine arylamidaseArgA	Proline arylamidaseProA	Leucyl glycin arylamidaseLGA	Phenylalanine arylamidasePheA	Leucine arylamidaseLeuA	Pyrrolidonyl arylamidasePyrA	Tyrosine arylamidaseTyrA	Alanine arylamidaseAlaA	Glycin arylamidaseGlyA	Histidine arylamidaseHisA	Glutamyl-glutamate arylamidaseGGA	Serine arylamidaseSerA
[Ref.: #42548]	12989	-	-	-	-	-	-	+/-	-	-	+/-	-	-	+	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #42548]	Sample type/isolated from	Pig cecum
[Ref.: #42548]	Geographic location (country and/or sea, region)	Madison, WI
[Ref.: #42548]	Country	USA
[Ref.: #42548]	Country ISO 3 Code	USA
[Ref.: #42548]	Continent	North America

[Ref.: #67770]	Sample type/isolated from	Cecum of a pig in Madison
[Ref.: #67770]	Geographic location (country and/or sea, region)	Wisconsin
[Ref.: #67770]	Country	USA
[Ref.: #67770]	Country ISO 3 Code	USA
[Ref.: #67770]	Continent	North America

[Ref.: #69645]	Sample type/isolated from	Pig caecum
[Ref.: #69645]	Geographic location (country and/or sea, region)	Madison, Wisconsin
[Ref.: #69645]	Country	USA
[Ref.: #69645]	Country ISO 3 Code	USA
[Ref.: #69645]	Continent	North America
[Ref.: #69645]	Enrichment culture	Modified Dehority Medium (DSMZ medium 1668)
[Ref.: #69645]	Enrichment culture composition	supplemented with 10 g cellobiose
[Ref.: #69645]	Enrichment culture duration	5 days
[Ref.: #69645]	Enrichment culture temperature	37 ̊C
[Ref.: #69645]	Isolation/enrichment procedure	anaerobic
* marker position based on {}

Isolation sources categories

#Host	#Mammals	#Suidae (Pig,Swine)
#Host Body-Site	#Gastrointestinal tract	#Small intestine

What are isolation sources categories?

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #42548]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #42548]	Hallerella succinigenes strain UWS3 16S ribosomal RNA gene, partial sequence	MN537467	1521	GenBank ENA	2652275 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Hallerella succinigenes UWS3	GCA_002797675	contig	GenBank ENA	1896222 tax ID	*
[Ref.: #66792]	Hallerella succinigenes UWS3	2747842507	draft	JGI IMG/M	1896222 tax ID	*

[Ref.: #67770]

GC-content

49.2 mol%

genome sequence analysis

Availability in culture collections External links

[Ref.: #42548]

Culture collection no.

DSM 104698, JCM 34256

[Ref.: #96370]

SI-ID 405682

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 )

#42548

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 104698

#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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#68367

Automatically annotated from API 20A .

#68380

Automatically annotated from API rID32A .

#69645

David Wylensek, Thomas C. A. Hitch, Thomas Riedel, Afrizal Afrizal, Neeraj Kumar, Esther Wortmann, Tianzhe Liu, Saravanan Devendran, Till R. Lesker, Sara B. Hernández, Viktoria Heine, Eva M. Buhl, Paul M. D'Agostino, Fabio Cumbo, Thomas Fischöder, Marzena Wyschkon, Torey Looft, Valeria R. Parreira, Birte Abt, Heidi L. Doden, Lindsey Ly, João M. P. Alves, Markus Reichlin, Krzysztof Flisikowski, Laura Navarro Suarez, Anthony P. Neumann, Garret Suen, Tomas de Wouters, Sascha Rohn, Ilias Lagkouvardos, Emma Allen-Vercoe, Cathrin Spröer, Boyke Bunk, Anja J. Taverne-Thiele, Marcel Giesbers, Jerry M. Wells, Klaus Neuhaus, Angelika Schnieke, Felipe Cava, Nicola Segata, Lothar Elling, Till Strowig, Jason M. Ridlon, Tobias A. M. Gulder, Jörg Overmann, Thomas Clavel: A collection of bacterial isolates from the pig intestine reveals functional and taxonomic diversity. Nat. Commun. 11: 2020 ( DOI 10.1038/s41467-020-19929-w )

#96370

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID405682.1 )

* These data were automatically processed and therefore are not curated

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