Name: Agathobacter rectalis A1-86
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 5441

Type strain:

Species: Agathobacter rectalis

Strain Designation: A1-86

Culture col. no.: DSM 17629, NCIMB 14373

Strain history: <- S. Duncan; A1-86

NCBI tax ID(s): 657318 (strain), 39491 (species)

SI-ID 397561

DSM 17629

Special Collections

DSMZ

Other strains from Agathobacter rectalis

Section

Agathobacter rectalis A1-86 is an anaerobe bacterium that was isolated from faecal sample, adult female.

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	*Bacillota*
	Class	*Clostridia*
	Order	*Eubacteriales*
	Family	*Lachnospiraceae*
	Genus	*Agathobacter*
	Species	**Agathobacter rectalis**
	Full Scientific Name (LPSN)	Agathobacter rectalis (Hauduroy et al. 1937) Rosero et al. 2016

	Synonym	"Bacteroides* rectalis"*
	Synonym	Eubacterium rectale

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7093]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #7093]

Culture medium growth

[Ref.: #7093]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7093]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #7093]			growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #7093]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %93.804

	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]	L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #68380]	raffinose ChEBI	-	fermentation	* from API rID32A
[Ref.: #68380]	tryptophan ChEBI	-	energy source	* from API rID32A
[Ref.: #68380]	urea ChEBI	-	hydrolysis	* from API rID32A

	Metabolite production	Metabolite	Production
[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.: #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]	arginine dihydrolase	-	3.5.3.6	* from API rID32A
[Ref.: #68380]	beta-Galactosidase 6-phosphate	-		* from API rID32A
[Ref.: #68380]	beta-glucuronidase	-	3.2.1.31	* from API rID32A
[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
	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.: #7093]	12655	-	-	+	+	-	+	+/-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
[Ref.: #7093]	12654	-	-	+	+	-	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
[Ref.: #7093]	12653	-	-	+	+/-	-	+/-	-	+	-	-	-	-	-	-	not determinedn.d.	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	-
[Ref.: #7093]	12652	-	-	+	+	-	+	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
[Ref.: #7093]	12651	-	-	+	+	-	+	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

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

[Ref.: #7093]	Sample type/isolated from	faecal sample, adult female
[Ref.: #7093]	Geographic location (country and/or sea, region)	Aberdeen, Scotland
[Ref.: #7093]	Country	United Kingdom
[Ref.: #7093]	Country ISO 3 Code	GBR
[Ref.: #7093]	Continent	Europe
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AJ270475 (>99% sequence identity) for [Eubacterium] rectale subclade from Microbeatlas

Aquatic Samples	1562
Soil Samples	291
Animal Samples	68496
Plant Samples	68
Total Samples	70417

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

[Ref.: #7093]

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.: #7093]	Butyrate-producing bacterium A1-86 16S rRNA gene	AJ270475	1506	GenBank ENA	105829 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Agathobacter rectalis DSM 17629	GCA_000209935	chromosome	GenBank ENA	657318 tax ID	*
[Ref.: #66792]	[Eubacterium] rectale DSM 17629	657318.12	wgs	PATRIC	657318 tax ID	*
[Ref.: #66792]	Eubacterium rectale DSM 17629	657318.4	complete	PATRIC	657318 tax ID	*
[Ref.: #66792]	Eubacterium rectale DSM 17629	650377936	complete	JGI IMG/M	657318 tax ID	*

[Ref.: #7093]

GC-content

41.2 mol%

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Eubacterium rectale DSM 17629 PATRIC: 657318.4
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	73.1	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	yes	93.804	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	57.788	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	95.717	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	92.505	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	74.108	no

Availability in culture collections External links

[Ref.: #7093]

Culture collection no.

DSM 17629, NCIMB 14373

[Ref.: #74929]

SI-ID 397561

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Opinions 100, 101 and 102.	Arahal DR	Int J Syst Evol Microbiol	10.1099/ijsem.0.004390	2020	*
Metabolism	Molecular details of a starch utilization pathway in the human gut symbiont Eubacterium rectale.	Cockburn DW, Orlovsky NI, Foley MH, Kwiatkowski KJ, Bahr CM, Maynard M, Demeler B, Koropatkin NM	Mol Microbiol	10.1111/mmi.12859	2014	*
Metabolism	Fermentation RS3 derived from sago and rice starch with Clostridium butyricum BCC B2571 or Eubacterium rectale DSM 17629.	Purwani EY, Purwadaria T, Suhartono MT	Anaerobe	10.1016/j.anaerobe.2011.09.007	2011	*
Phylogeny	Proposal of a neotype strain (A1-86) for Eubacterium rectale. Request for an opinion.	Duncan SH, Flint HJ	Int J Syst Evol Microbiol	10.1099/ijs.0.2008/004580-0	2008	*

References

#7093

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17629

#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 )

#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) .

#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) .

#74929

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-ID397561.1 )

* These data were automatically processed and therefore are not curated

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Eubacterium rectale DSM 17629

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