Name: Alistipes timonensis JC136
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 24536

Type strain:

Species: Alistipes timonensis

Strain Designation: JC136

Culture col. no.: DSM 25383, CSUR P148, JCM 32780

Strain history: DSM 25383 <-- J.-C. Lagier; Timone Hosp., France; JC136.

NCBI tax ID(s): 1465754 (species)

SI-ID 402297

DSM 25383

Other strains from Alistipes timonensis

A. timonensis CC-5826-WT-bac, DSM 27924

Section

Alistipes timonensis JC136 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from human fecal flora of a healthy patient.

Gram-negative
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	*Rikenellaceae*
	Genus	*Alistipes*
	Species	**Alistipes timonensis**
	Full Scientific Name (LPSN)	Alistipes timonensis Lagier et al. 2014

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %99.979

[Ref.: #20277]

Incubation period

2-3 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #20277]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #20277]

Culture medium growth

[Ref.: #20277]

Culture medium link

Medium recipe at MediaDive

[Ref.: #20277]

Culture medium composition

expand / minimize

[Ref.: #20277]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #20277]

Culture medium growth

[Ref.: #20277]

Culture medium link

Medium recipe at MediaDive

[Ref.: #20277]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #20277]			growth	37 °C
[Ref.: #67770]			growth	37 °C

[Ref.: #20277]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #20277]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %99.558

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.994

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68380]	arginine ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #68380]	D-mannose ChEBI	-	fermentation	* from API rID32A
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #68380]	raffinose ChEBI	-	fermentation	* from API rID32A
[Ref.: #68380]	urea ChEBI	-	hydrolysis	* from API rID32A

	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-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.: #68380]	beta-glucosidase	+	3.2.1.21	* 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]	tyrosine arylamidase	-		* from API rID32A
[Ref.: #68380]	urease	-	3.5.1.5	* from API rID32A
	Only first 10 entries are displayed. Click here to see all.

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.: #20277]	13253	-	-	+	+	-	-	+	-	+/-	+/-	-	-	+	-	-	-	-	-	-	+	-	-	-	-	+	-	-	-	-
[Ref.: #20277]	12450	-	-	-	+	-	-	+	-	-	+	-	-	-	-	-	+	-	-	-	+	-	-	-	-	+	-	-	-	-

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

[Ref.: #20277]	Sample type/isolated from	human fecal flora of a healthy patient
[Ref.: #20277]	Country	Senegal
[Ref.: #20277]	Country ISO 3 Code	SEN
[Ref.: #20277]	Continent	Africa

[Ref.: #67770]	Sample type/isolated from	Fecal flora of a healthy patient in Senegal
* marker position based on {}

Isolation sources categories

#Infection	#Patient	-
#Host	#Human	-
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence JF824799 (>99% sequence identity) for Alistipes timonensis from Microbeatlas

Aquatic Samples	72
Soil Samples	68
Animal Samples	14087
Plant Samples	92
Total Samples	14319

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

[Ref.: #20277]

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.: #20277]	Alistipes timonensis JC136 16S ribosomal RNA gene, partial sequence	JF824799	1423	ENA	1033731 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Alistipes timonensis JC136 P148	GCA_000285455	contig	GenBank	1033731 tax ID
[Ref.: #67770]	Alistipes timonensis JC136 DSM 25383	GCA_900107675	scaffold	GenBank	1033731 tax ID
[Ref.: #66792]	Alistipes timonensis JC136 strain DSM 25383	1033731.11	wgs	PATRIC	1033731 tax ID	*
[Ref.: #66792]	Alistipes timonensis JC136	2547132133	draft	JGI IMG/M	1033731 tax ID	*
[Ref.: #66792]	Alistipes timonensis DSM 25383	2693429854	draft	JGI IMG/M	1033731 tax ID	*

[Ref.: #20277]	GC-content	58.82 mol%	sequence analysis
[Ref.: #67770]	GC-content	58.8 mol%	genome 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: Alistipes timonensis JC136 DSM 25383 NCBI: GCA_900107675.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Alistipes timonensis JC136 strain DSM 25383 PATRIC: 1033731.11
[Ref.: #69480]	motile	no	89.69	no
[Ref.: #69480]	flagellated	no	96.64	no
[Ref.: #69480]	gram-positive	no	98.603	no
[Ref.: #69480]	anaerobic	yes	96.943	yes
[Ref.: #69480]	aerobic	no	94.685	yes
[Ref.: #69480]	halophile	no	87.606	no
[Ref.: #69480]	spore-forming	no	95.673	no
[Ref.: #69480]	thermophile	no	96.783	yes
[Ref.: #69480]	glucose-util	yes	84.498	no
[Ref.: #69480]	glucose-ferment	yes	57.732	no

Availability in culture collections External links

[Ref.: #20277]

Culture collection no.

DSM 25383, CSUR P148, JCM 32780

[Ref.: #88391]

SI-ID 402297

Literature:

Topic	Title	Authors	Journal	DOI	Year
Genetics	Non-contiguous finished genome sequence and description of Alistipes timonensis sp. nov.	Lagier JC, Armougom F, Mishra AK, Nguyen TT, Raoult D, Fournier PE	Stand Genomic Sci	10.4056/sigs.2685971	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 )

#20277

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25383

#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;

#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 .

#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 )

#88391

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-ID402297.1 )

* These data were automatically processed and therefore are not curated

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Alistipes timonensis JC136 DSM 25383

Alistipes timonensis JC136 strain DSM 25383

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