Butyricimonas synergistica MT01 | Type strain | DSM 23225, CCUG 56610, JCM 15148, KCTC 15147 | BacDiveID:12522

Strain identifier

BacDive ID: 12522

Type strain:

Species: Butyricimonas synergistica

Strain Designation: MT01

Culture col. no.: DSM 23225, CCUG 56610, JCM 15148, KCTC 15147

Strain history: A. Takagaki MT01.

NCBI tax ID(s): 1121129 (strain), 544644 (species)

SI-ID 406189

DSM 23225, CCUG 56610

Section

Butyricimonas synergistica MT01 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from rat faeces.

Gram-negative
rod-shaped
anaerobe
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	*Bacteroidota*
	Class	*Bacteroidia*
	Order	*Bacteroidales*
	Family	*Odoribacteraceae*
	Genus	*Butyricimonas*
	Species	**Butyricimonas synergistica**
	Full Scientific Name (LPSN)	Butyricimonas synergistica Sakamoto et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #29161]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.993

[Ref.: #29161]	Cell length	1.5 µm

[Ref.: #29161]	Cell width	1 µm

[Ref.: #29161]	Cell shape	rod-shaped

[Ref.: #29161]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %90.802

[Ref.: #16756]	Type of hemolysis	gamma

[Ref.: #61041]	Incubation period	2 days

Pigment production

yes

Multimedia content

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Information on culture and growth conditions Culture and growth conditions

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

Culture medium growth

Culture medium link

Medium recipe at MediaDive

Culture medium composition

expand / minimize

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

Culture medium growth

Culture medium link

Medium recipe at MediaDive

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #16756]			growth	37 °C
[Ref.: #61041]			growth	37 °C
[Ref.: #67770]			growth	37 °C

[Ref.: #16756]	Temperature range	mesophilic
[Ref.: #61041]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #16756]	Oxygen tolerance	anaerobe
[Ref.: #29161]	Oxygen tolerance	anaerobe
[Ref.: #61041]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %99.999

[Ref.: #29161]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.958

[Ref.: #29161]	Observation	aggregates in clumps
[Ref.: #67770]	Observation	quinones: MK-10

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29161]		acetate ChEBI	+	carbon source
[Ref.: #29161]		alanine ChEBI	+	carbon source
[Ref.: #68380]		arginine ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #68367]		cellobiose ChEBI	-	builds acid from	* from API 20A
[Ref.: #68367]		D-mannitol 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.: #29161]		glucose ChEBI	+	carbon source
[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.: #29161]		mannose ChEBI	+	carbon source
[Ref.: #68367]		melezitose ChEBI	-	builds acid from	* from API 20A
[Ref.: #29161]		N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #68380]		nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #29161]		propionate ChEBI	+	carbon source
[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.: #29161]		succinate ChEBI	+	carbon source
[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	Metabolite	Production
[Ref.: #29161]		indole ChEBI	yes
[Ref.: #68367]		indole ChEBI	yes	* from API 20A, API rID32A

	Physiological tests	Metabolite	Indole test
[Ref.: #29161]		indole ChEBI	+
[Ref.: #68380]		indole ChEBI	+	* from API rID32A, API 20A

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #68380]		alanine arylamidase	+	3.4.11.2	* from API rID32A
[Ref.: #29161]		alkaline phosphatase	+	3.1.3.1
[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.: #29161]		alpha-galactosidase	+	3.2.1.22
[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-glucosidase	-	3.2.1.21	* from API rID32A
[Ref.: #68380]		beta-glucuronidase	-	3.2.1.31	* from API rID32A
[Ref.: #16756]		catalase	-	1.11.1.6
[Ref.: #68367]		catalase	-	1.11.1.6	* from API 20A
[Ref.: #16756]		cytochrome-c oxidase	-	1.9.3.1
[Ref.: #29161]		gelatinase	+
[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]		N-acetyl-beta-glucosaminidase	+	3.2.1.52	* 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.: #16756]	2078	+	-	+/-	-	-	-	-	-	-	-	-	+	-	-	+/-	-	-	-	-	-	-	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.: #16756]	12423	-	-	+	-	-	-	-	-	-	+	-	-	+	-	-	+	+	-	-	+	-	-	-	-	+	-	-	+	-

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

[Ref.: #16756]	Sample type/isolated from	rat faeces
[Ref.: #16756]	Country	Japan
[Ref.: #16756]	Country ISO 3 Code	JPN
[Ref.: #16756]	Continent	Asia

[Ref.: #61041]	Sample type/isolated from	Mouse feces
[Ref.: #61041]	Sampling date	2007-12-01
[Ref.: #61041]	Country	Japan
[Ref.: #61041]	Country ISO 3 Code	JPN
[Ref.: #61041]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Rat feces
* marker position based on {}

Isolation sources categories

#Host	#Mammals	#Muridae (Mouse/Rat)
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

What are isolation sources categories?

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

Biosafety level

1

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.: #16756]	Butyricimonas synergistica gene for 16S ribosomal RNA, partial sequence	AB443948	1484	ENA	544644 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Butyricimonas synergistica DSM 23225	GCA_000379665	scaffold	GenBank	1121129 tax ID
[Ref.: #66792]	Butyricimonas synergistica DSM 23225	1121129.3	wgs	PATRIC	1121129 tax ID	*
[Ref.: #66792]	Butyricimonas synergistica DSM 23225	2515154026	draft	JGI IMG/M	1121129 tax ID	*

[Ref.: #16756]	GC-content	46.4 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29161]	GC-content	46.4 mol%
[Ref.: #16756]	GC-content	44.8 mol%	high performance liquid chromatography (HPLC)
[Ref.: #16756]	GC-content	44.8 mol%	sequence analysis

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: Butyricimonas synergistica DSM 23225 DSM 23225 NCBI: GCA_000379665.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Butyricimonas synergistica DSM 23225 PATRIC: 1121129.3
[Ref.: #69480]	motile	no	90.558	no
[Ref.: #69480]	flagellated	no	97.213	yes
[Ref.: #69480]	gram-positive	no	96.753	no
[Ref.: #69480]	anaerobic	yes	98.812	no
[Ref.: #69480]	aerobic	no	97.642	yes
[Ref.: #69480]	halophile	no	84.017	no
[Ref.: #69480]	spore-forming	no	92.375	yes
[Ref.: #69480]	thermophile	no	97.698	no
[Ref.: #69480]	glucose-util	yes	89.105	yes
[Ref.: #69480]	glucose-ferment	no	57.653	no

Availability in culture collections External links

Culture collection no.

DSM 23225, CCUG 56610, JCM 15148, KCTC 15147

SI-ID 406189

*

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Butyricimonas faecihominis sp. nov. and Butyricimonas paravirosa sp. nov., isolated from human faeces, and emended description of the genus Butyricimonas.	Sakamoto M, Tanaka Y, Benno Y, Ohkuma M	Int J Syst Evol Microbiol	10.1099/ijs.0.065318-0	2014	*
Phylogeny	Butyricimonas synergistica gen. nov., sp. nov. and Butyricimonas virosa sp. nov., butyric acid-producing bacteria in the family 'Porphyromonadaceae' isolated from rat faeces.	Sakamoto M, Takagaki A, Matsumoto K, Kato Y, Goto K, Benno Y	Int J Syst Evol Microbiol	10.1099/ijs.0.007674-0	2009	*

References

#16756

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 23225

#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 )

#29161

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 #25585 (see below)

#61041 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 56610

#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) .

#66793

Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )

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

#68367

Automatically annotated from API 20A .

#68380

Automatically annotated from API rID32A .

#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 )

#81741

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-ID406189.1 )

#25585

IJSEM 1748 2009 ( DOI 10.1099/ijs.0.007674-0 , PubMed 19542124 )

* These data were automatically processed and therefore are not curated

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