Name: Acidaminococcus intestini DSM 21505
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 99

Type strain:

Species: Acidaminococcus intestini

Culture col. no.: DSM 21505, CCUG 50930, CIP 108586, KCTC 15229, ADV 255.99, AIP 283.01

Strain history: CIP <- 2004, H. Marchandin, Montpellier Hosp., Montpellier, France: strain ADV 255.99

NCBI tax ID(s): 1120921 (strain), 187327 (species)

SI-ID 310986

CIP 108586, CCUG 50930

Special Collections

Section

When using BacDive for research please cite our paper

Acidaminococcus intestini DSM 21505 is an anaerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from Human peritoneal fluid.

coccus-shaped
colony-forming
Gram-negative
anaerobe
mesophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Bacillota*
	Class	*Negativicutes*
	Order	*Acidaminococcales*
	Family	*Acidaminococcaceae*
	Genus	*Acidaminococcus*
	Species	**Acidaminococcus intestini**
	Full Scientific Name (LPSN)	Acidaminococcus intestini Jumas-Bilak et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #22965]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative
[Ref.: #120258]	Gram stain	negative

[Ref.: #22965]	Cell length	0.5-0.6 µm

[Ref.: #22965]	Cell shape	coccus-shaped
[Ref.: #120258]	Cell shape	coccus-shaped
[Ref.: #67771]	Cell shape	coccus-shaped

[Ref.: #22965]	Motility	no
[Ref.: #120258]	Motility	no

[Ref.: #22965]	Type of hemolysis	gamma
[Ref.: #22965]	Colony size	0.3-0.5 mm
[Ref.: #22965]	Colony color	whitish
[Ref.: #22965]	Colony shape	circular
[Ref.: #22965]	Incubation period	2 days
[Ref.: #22965]	Cultivation medium used	Columbia sheep blood agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #15684]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #15684]

Culture medium growth

[Ref.: #15684]

Culture medium link

Medium recipe at MediaDive

[Ref.: #15684]

Culture medium composition

expand / minimize

[Ref.: #15684]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #15684]

Culture medium growth

[Ref.: #15684]

Culture medium link

Medium recipe at MediaDive

[Ref.: #15684]

Culture medium composition

expand / minimize

[Ref.: #22965]

Culture medium

Columbia sheep blood agar

[Ref.: #22965]

Culture medium growth

[Ref.: #42018]

Culture medium

MEDIUM 6 - Columbia agar with 10 % horse blood

[Ref.: #42018]

Culture medium growth

[Ref.: #42018]

Culture medium composition

expand / minimize

[Ref.: #120258]

Culture medium

CIP Medium 6

[Ref.: #120258]

Culture medium growth

[Ref.: #120258]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #15684]	growth	37 °C
[Ref.: #42018]	growth	37 °C
[Ref.: #67771]	growth	37 °C
[Ref.: #120258]	growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #15684]	Oxygen tolerance	anaerobe
[Ref.: #22965]	Oxygen tolerance	obligate anaerobe
[Ref.: #67771]	Oxygen tolerance	anaerobe
[Ref.: #125438]	Oxygen tolerance	anaerobe Confidence in %93.337
[Ref.: #125439]	Oxygen tolerance	anaerobe Confidence in %92.6

[Ref.: #22965]	Ability of spore formation	no
[Ref.: #67771]	Ability of spore formation	no
[Ref.: #125439]	Ability of spore formation	no Confidence in %97.5

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68380]	arginine ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #120258]	cellobiose ChEBI	-	degradation
[Ref.: #120258]	D-arabinose ChEBI	-	degradation
[Ref.: #120258]	D-fructose ChEBI	-	degradation
[Ref.: #120258]	D-glucose ChEBI	-	degradation
[Ref.: #68380]	D-mannose ChEBI	-	fermentation	* from API rID32A
[Ref.: #120258]	D-xylose ChEBI	-	degradation
[Ref.: #120258]	esculin ChEBI	-	hydrolysis
[Ref.: #22965]	L-glutamate ChEBI	+	fermentation
[Ref.: #68380]	L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #22965]	lactate ChEBI	-	growth
[Ref.: #120258]	lactose ChEBI	-	degradation
[Ref.: #120258]	maltose ChEBI	-	degradation
[Ref.: #22965]	nitrate ChEBI	-	reduction
[Ref.: #120258]	nitrate ChEBI	-	reduction
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #120258]	nitrite ChEBI	-	reduction
[Ref.: #68380]	raffinose ChEBI	-	fermentation	* from API rID32A
[Ref.: #120258]	salicin ChEBI	-	degradation
[Ref.: #120258]	sucrose ChEBI	+	degradation
[Ref.: #68380]	tryptophan ChEBI	-	energy source	* from API rID32A
[Ref.: #68380]	urea ChEBI	-	hydrolysis	* from API rID32A
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #22965]	acetate ChEBI	yes
[Ref.: #22965]	butyrate ChEBI	yes
[Ref.: #120258]	indole ChEBI	no
[Ref.: #22965]	propionate ChEBI	yes
[Ref.: #68380]	indole ChEBI	no	* from API rID32A

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

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68380]	alanine arylamidase	-	3.4.11.2	* from API rID32A
[Ref.: #68382]	alkaline phosphatase	-	3.1.3.1	* from API zym, API rID32A
[Ref.: #68380]	alpha-arabinosidase	-	3.2.1.55	* from API rID32A
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym, API rID32A
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym, API rID32A
[Ref.: #68382]	alpha-glucosidase	-	3.2.1.20	* from API zym, API rID32A
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #120258]	amylase	-
[Ref.: #68380]	arginine dihydrolase	-	3.5.3.6	* from API rID32A
[Ref.: #120258]	beta-galactosidase	-	3.2.1.23
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym, API rID32A
[Ref.: #68380]	beta-Galactosidase 6-phosphate	-		* from API rID32A
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym, API rID32A
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym, API rID32A
[Ref.: #120258]	caseinase	-	3.4.21.50
[Ref.: #22965]	catalase	-	1.11.1.6
[Ref.: #120258]	catalase	-	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #22965]	cytochrome oxidase	-	1.9.3.1
[Ref.: #120258]	DNase	-
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	-		* from API zym
[Ref.: #22965]	gelatinase	-
[Ref.: #120258]	gelatinase	-
[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.: #120258]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	-	3.4.11.1	* from API zym
[Ref.: #68380]	leucyl glycin arylamidase	-	3.4.11.1	* from API rID32A
[Ref.: #120258]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym, API rID32A
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #120258]	oxidase	-
[Ref.: #68380]	phenylalanine arylamidase	-		* from API rID32A
[Ref.: #68380]	proline-arylamidase	-	3.4.11.5	* from API rID32A
[Ref.: #120258]	protease	-
[Ref.: #68380]	serine arylamidase	-		* from API rID32A
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #68380]	tryptophan deaminase	-	4.1.99.1	* from API rID32A
[Ref.: #120258]	tween esterase	-
[Ref.: #68380]	tyrosine arylamidase	-		* from API rID32A
[Ref.: #120258]	urease	-	3.5.1.5
[Ref.: #68380]	urease	-	3.5.1.5	* from API rID32A
[Ref.: #68382]	valine arylamidase	-		* from API zym
	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.: #15684]	14447	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	+/-	+/-	-	-	+	+	-	-
[Ref.: #15684]	14095	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	+	-	-	-	+	+	-	-

API® zym:

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

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #120258]	11307	-	-	+	-	-	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-

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

[Ref.: #15684]	Sample type/isolated from	Human peritoneal fluid
[Ref.: #15684]	Geographic location (country and/or sea, region)	University Hospital Arnaud de Villeneuve, Montpellier
[Ref.: #15684]	Country	France
[Ref.: #15684]	Country ISO 3 Code	FRA
[Ref.: #15684]	Continent	Europe

[Ref.: #22965]	Sample type/isolated from	gastro-intestinal tract of humans
[Ref.: #22965]	Enrichment culture	Columbia sheep blood agar
[Ref.: #22965]	Enrichment culture duration	2-5 days
[Ref.: #22965]	Enrichment culture temperature	37.0 ̊C

[Ref.: #59050]	Sample type/isolated from	Human peritoneal fluid,45-yr-old man
[Ref.: #59050]	Sampling date	1999-06-01
[Ref.: #59050]	Geographic location (country and/or sea, region)	Montpellier
[Ref.: #59050]	Country	France
[Ref.: #59050]	Country ISO 3 Code	FRA
[Ref.: #59050]	Continent	Europe

[Ref.: #67771]	Sample type/isolated from	From human peritoneal fluid, 45-yr-old man
[Ref.: #67771]	Geographic location (country and/or sea, region)	University Hospital Arnaud de Villeneuve, Montpellier
[Ref.: #67771]	Country	France
[Ref.: #67771]	Country ISO 3 Code	FRA
[Ref.: #67771]	Continent	Europe

[Ref.: #120258]	Sample type/isolated from	Human, Peritoneal liquid
[Ref.: #120258]	Geographic location (country and/or sea, region)	Montpellier
[Ref.: #120258]	Country	France
[Ref.: #120258]	Country ISO 3 Code	FRA
[Ref.: #120258]	Continent	Europe
[Ref.: #120258]	Isolation date	1999
* marker position based on {}

Isolation sources categories

#Infection	#Patient	-
#Host	#Human	-
#Host Body Product	#Fluids	-
#Host Body-Site	#Other	#Abdomen

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence NR_041894 (>99% sequence identity) for Acidaminococcus intestini subclade from Microbeatlas

Aquatic Samples	4666
Soil Samples	822
Animal Samples	82055
Plant Samples	420
Total Samples	87963

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

[Ref.: #15684]	Biosafety level	2	Risk group (German classification) According to TRBA 466
[Ref.: #120258]	Biosafety level	1	Risk group (French classification)

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.: #15684]	Acidaminococcus intestini strain ADV 255.99 16S ribosomal RNA gene, partial sequence	AF473835	1439	GenBank ENA	187327 tax ID
[Ref.: #15684]	Acidaminococcus intestini strain ADV 255.99 16S ribosomal RNA, partial sequence	NR_041894	1439	GenBank ENA	187327 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67771]	Acidaminococcus intestini DSM 21505	GCA_000425045	scaffold	GenBank ENA	1120921 tax ID
[Ref.: #66792]	Acidaminococcus intestini DSM 21505	1120921.3	wgs	PATRIC	1120921 tax ID	*
[Ref.: #66792]	Acidaminococcus intestini DSM 21505	2524614855	draft	JGI IMG/M	1120921 tax ID	*

[Ref.: #15684]	GC-content	49.3 mol%
[Ref.: #22965]	GC-content	49.3 mol%	high performance liquid chromatography (HPLC)

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

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Acidaminococcus intestini DSM 21505 PATRIC: 1120921.3
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	86.573	yes
[Ref.: #125438]	anaerobic	anaerobicⓘ	yes	93.337	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	74.643	no
[Ref.: #125438]	aerobic	aerobicⓘ	no	96.486	yes
[Ref.: #125438]	thermophile	thermophilicⓘ	no	90.357	no
[Ref.: #125438]	motile2+	flagellatedⓘ	no	86.562	yes

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Acidaminococcus intestini DSM 21505 NCBI: GCA_000425045
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	97.5
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	57.1
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	negative	75.8
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	anaerobe	92.6

Availability in culture collections External links

[Ref.: #15684]

Culture collection no.

DSM 21505, CCUG 50930, CIP 108586, KCTC 15229, ADV 255.99, AIP 283.01

[Ref.: #69782]

SI-ID 310986

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Acidaminococcus intestini sp. nov., isolated from human clinical samples.	Jumas-Bilak E, Carlier JP, Jean-Pierre H, Mory F, Teyssier C, Gay B, Campos J, Marchandin H	Int J Syst Evol Microbiol	10.1099/ijs.0.64883-0	2007	*

References

#15684

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21505

#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 )

#22965

Estelle Jumas-Bilak,Jean-Philippe Carlier,Hélène Jean-Pierre,Francine Mory,Corinne Teyssier,Bernard Gay,Josiane Campos,Hélène Marchandin: Acidaminococcus intestini sp. nov., isolated from human clinical samples. IJSEM 57: 2314 - 2319 2007 ( DOI 10.1099/ijs.0.64883-0 , PubMed 17911303 )

#42018 ; Curators of the CIP;
#59050 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 50930

#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) .

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#68380

Automatically annotated from API rID32A .

#68382

Automatically annotated from API zym .

#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 .

#69782

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-ID310986.1 )

#120258 Collection of Institut Pasteur ; Curators of the CIP; CIP 108586

#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 .

* These data were automatically processed and therefore are not curated

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