Name: Basfia succiniciproducens JF4016
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 11757

Type strain:

Species: Basfia succiniciproducens

Strain Designation: JF4016

Culture col. no.: DSM 22022, CCUG 57335

Strain history: <- P. Kuhnert, Univ. Bern, Switzerland; JF4016

NCBI tax ID(s): 653940 (species)

SI-ID 402638

DSM 22022, CCUG 57335

Other strains from Basfia succiniciproducens

B. succiniciproducens CCUG 57762
B. succiniciproducens CCUG 57763
B. succiniciproducens CCUG 57764
B. succiniciproducens CCUG 57765
B. succiniciproducens CCUG 57766

Section

Basfia succiniciproducens JF4016 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from rumen of a Simmental cow.

Gram-negative
ovoid-shaped
aerobe
mesophilic
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Pasteurellales*
	Family	*Pasteurellaceae*
	Genus	*Basfia*
	Species	**Basfia succiniciproducens**
	Full Scientific Name (LPSN)	Basfia succiniciproducens Kuhnert et al. 2010

Information on morphological and physiological properties Morphology

[Ref.: #29375]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.977

[Ref.: #29375]	Cell width	0.3 µm

[Ref.: #29375]	Cell shape	ovoid-shaped

[Ref.: #29375]	Motility	no

[Ref.: #16038]	Type of hemolysis	alpha
[Ref.: #16038]	Hemolysis ability	1
[Ref.: #16038]	Incubation period	1-2 days

[Ref.: #61289]	Incubation period	1 day

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16038]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #16038]

Culture medium growth

[Ref.: #16038]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16038]

Culture medium composition

expand / minimize

[Ref.: #16038]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #16038]

Culture medium growth

[Ref.: #16038]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #16038]	growth	37 °C
[Ref.: #29375]	growth	37 °C
[Ref.: #61289]	growth	37 °C

[Ref.: #16038]	Temperature range	mesophilic
[Ref.: #29375]	Temperature range	mesophilic
[Ref.: #61289]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #16038]	Oxygen tolerance	aerobe
[Ref.: #29375]	Oxygen tolerance	facultative anaerobe
[Ref.: #61289]	Oxygen tolerance	microaerophile

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.991

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68377]	D-glucose ChEBI	+	builds acid from	* from API NH
[Ref.: #68369]	D-glucose ChEBI	+	fermentation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #29375]	dextrin ChEBI	+	carbon source
[Ref.: #68369]	esculin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #29375]	fructose ChEBI	+	carbon source
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	L-arabinose ChEBI	+	assimilation	* from API 20NE
[Ref.: #29375]	maltose ChEBI	+	carbon source
[Ref.: #68369]	maltose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	N-acetylglucosamine ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE
[Ref.: #68377]	ornithine ChEBI	-	degradation	* from API NH
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE, API NH
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68377]		indole ChEBI	no	* from API NH, API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68377]		indole ChEBI	-	* from API NH, API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68369]	beta-glucosidase	-	3.2.1.21	* from API 20NE
[Ref.: #16038]	catalase	-	1.11.1.6
[Ref.: #29375]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68369]	cytochrome oxidase	-	1.9.3.1	* from API 20NE
[Ref.: #16038]	cytochrome-c oxidase	+	1.9.3.1
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68377]	ornithine decarboxylase	-	4.1.1.17	* from API NH
[Ref.: #68377]	tryptophan deaminase	-	4.1.99.1	* from API NH
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE

API® 20NE:

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

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #16038]	24768	+	-	+	-	-	-	-	+	+	+	+	+	+	+	+	-	-	+	-	-	-
[Ref.: #16038]	23841	+	-	+	-	-	-	-	+	+/-	+	+/-	+/-	+	+	+	-	-	+/-	-	-	not determinedn.d.

API® NH:

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

	API ID	Penicillinase productionPEN	Acid from D-glucoseGLU	Acid from D-fructoseFRU	Acid from maltoseMAL	Acid from sucroseSAC	Ornithine decarboxylaseODC	Urease/urea hydrolysisURE	LipaseLIP	Alkaline phosphatasePAL	beta-Galactosidasebeta GAL	Proline arylamidaseProA	gamma-Glutamyl transferaseGGT	Indole productionIND
[Ref.: #16038]	6151	+	+	+	+	-	-	+	+	+	-	+	-	-
[Ref.: #16038]	6150	+	+	-	+	-	-	-	-	-	-	-	-	-
[Ref.: #16038]	5722	-	+	+	-	+	-	-	-	-	-	-	-	-
[Ref.: #16038]	5721	-	+	+	+	+	-	-	+	+	+	-	+	-

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

[Ref.: #16038]	Sample type/isolated from	rumen of a Simmental cow
[Ref.: #16038]	Geographic location (country and/or sea, region)	Bern
[Ref.: #16038]	Country	Switzerland
[Ref.: #16038]	Country ISO 3 Code	CHE
[Ref.: #16038]	Continent	Europe

[Ref.: #61289]	Sample type/isolated from	Rumen of a Simmental cow
[Ref.: #61289]	Sampling date	2007-05-01
[Ref.: #61289]	Geographic location (country and/or sea, region)	Bern
[Ref.: #61289]	Country	Switzerland
[Ref.: #61289]	Country ISO 3 Code	CHE
[Ref.: #61289]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Host	#Mammals	#Bovinae (Cow, Cattle)
#Host Body-Site	#Organ	#Rumen

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence FJ463881 (>99% sequence identity) for Basfia from Microbeatlas

Aquatic Samples	273
Soil Samples	129
Animal Samples	6032
Plant Samples	32
Total Samples	6466

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

[Ref.: #16038]

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.: #16038]	Basfia succiniciproducens strain JF4016 16S ribosomal RNA gene, partial sequence	FJ463881	1365	ENA	653940 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Basfia succiniciproducens JF4016	GCA_011455875	complete	GenBank	653940 tax ID	*
[Ref.: #66792]	Basfia succiniciproducens DSM 22022	GCA_900101275	scaffold	GenBank	653940 tax ID	*
[Ref.: #66792]	Basfia succiniciproducens strain DSM 22022	653940.3	wgs	PATRIC	653940 tax ID	*
[Ref.: #66792]	Basfia succiniciproducens DSM 22022	2593339214	draft	JGI IMG/M	653940 tax ID	*

[Ref.: #16038]

GC-content

42.5 mol%

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Basfia succiniciproducens JF4016 NCBI: GCA_011455875.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Basfia succiniciproducens JF4016 NCBI: GCA_011455875.1
[Ref.: #69480]	motile	no	90.298	no
[Ref.: #69480]	flagellated	no	96.937	yes
[Ref.: #69480]	gram-positive	no	98.199	yes
[Ref.: #69480]	anaerobic	no	96.079	no
[Ref.: #69480]	aerobic	no	93.159	no
[Ref.: #69480]	halophile	no	53.428	no
[Ref.: #69480]	spore-forming	no	98.861	no
[Ref.: #69480]	glucose-util	no	51.469	no
[Ref.: #69480]	thermophile	no	99.072	yes
[Ref.: #69480]	glucose-ferment	yes	70.023	yes

Availability in culture collections External links

[Ref.: #16038]

Culture collection no.

DSM 22022, CCUG 57335

[Ref.: #80975]

SI-ID 402638

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Basfia succiniciproducens gen. nov., sp. nov., a new member of the family Pasteurellaceae isolated from bovine rumen.	Kuhnert P, Scholten E, Haefner S, Mayor D, Frey J	Int J Syst Evol Microbiol	10.1099/ijs.0.011809-0	2009	*

References

#16038

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22022

#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 )

#29375

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 #25783 (see below)

#61289 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 57335

#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) .

#68369

Automatically annotated from API 20NE .

#68377

Automatically annotated from API NH .

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#80975

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-ID402638.1 )

#25783

IJSEM 44 2010 ( DOI 10.1099/ijs.0.011809-0 , PubMed 19648315 )

* These data were automatically processed and therefore are not curated

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