Name: Alistipes onderdonkii subsp. vulgaris 3BBH6
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 159606

Type strain:

Species: Alistipes onderdonkii subsp. vulgaris

Strain Designation: 3BBH6

Culture col. no.: DSM 108977, JCM 32839

Strain history: M. Sakamoto; RIKEN BRC-JCM, Japan; 3BBH6.

NCBI tax ID(s): 2585117 (subspecies)

SI-ID 402377

DSM 108977

Special Collections

Other strains from Alistipes onderdonkii subsp. vulgaris

Section

Alistipes onderdonkii subsp. vulgaris 3BBH6 is an anaerobe bacterium that was isolated from Feces of woman.

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	*Bacteroidota*
	Class	*Bacteroidia*
	Order	*Bacteroidales*
	Family	*Rikenellaceae*
	Genus	*Alistipes*
	Species	**Alistipes onderdonkii subsp. vulgaris**
	Full Scientific Name (LPSN)	Alistipes onderdonkii subsp. vulgaris Sakamoto et al. 2020

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %95.715

Information on culture and growth conditions Culture and growth conditions

[Ref.: #66432]

Culture medium

CHOPPED MEAT MEDIUM (DSMZ Medium 78)

[Ref.: #66432]

Culture medium growth

[Ref.: #66432]

Culture medium link

Medium recipe at MediaDive

[Ref.: #66432]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #66432]			growth	37 °C
[Ref.: #67770]			growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]	Ability of spore formation	no Confidence in %94.476
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

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

[Ref.: #66432]	Sample type/isolated from	Feces of woman
[Ref.: #66432]	Geographic location (country and/or sea, region)	Tsukuba
[Ref.: #66432]	Country	Japan
[Ref.: #66432]	Country ISO 3 Code	JPN
[Ref.: #66432]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Feces of a woman in the forties
[Ref.: #67770]	Country	Japan
[Ref.: #67770]	Country ISO 3 Code	JPN
[Ref.: #67770]	Continent	Asia

[Ref.: #69544]	Sample type/isolated from	the faecal samples of healthy Japanese humans
[Ref.: #69544]	Geographic location (country and/or sea, region)	Tsukuba
[Ref.: #69544]	Country	Japan
[Ref.: #69544]	Country ISO 3 Code	JPN
[Ref.: #69544]	Continent	Asia
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence LC468789 (>99% sequence identity) for Alistipes onderdonkii subclade from Microbeatlas

Aquatic Samples	5936
Soil Samples	1356
Animal Samples	169152
Plant Samples	565
Total Samples	177009

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.: #66432]	Alistipes onderdonkii subsp. vulgaris 3BBH6 gene for 16S ribosomal RNA, partial sequence	LC468789	1456	GenBank ENA	2585117 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Alistipes onderdonkii subsp. vulgaris 3BBH6	GCA_006542645	complete	GenBank ENA	2585117 tax ID	*
[Ref.: #66792]	Alistipes sp. 3BBH6	2585117.3	complete	PATRIC	2585117 tax ID	*

[Ref.: #67770]

GC-content

58 mol%

genome sequence analysis

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Alistipes sp. 3BBH6 PATRIC: 2585117.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Alistipes onderdonkii subsp. vulgaris 3BBH6 NCBI: GCA_006542645.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	95.715	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	yes	81.712	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	87.998	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	94.476	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	98.74	no
[Ref.: #69480]	flagellated	motile2+ⓘ	no	89.595	no

Availability in culture collections External links

[Ref.: #66432]

Culture collection no.

DSM 108977, JCM 32839

[Ref.: #112082]

SI-ID 402377

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Alistipes communis sp. nov., Alistipes dispar sp. nov. and Alistipes onderdonkii subsp. vulgaris subsp. nov., isolated from human faeces, and creation of Alistipes onderdonkii subsp. onderdonkii subsp. nov.	Sakamoto M, Ikeyama N, Ogata Y, Suda W, Iino T, Hattori M, Ohkuma M	Int J Syst Evol Microbiol	10.1099/ijsem.0.003778	2020	*

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 )

#66432

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 108977

#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;

#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 )

#69544

Mitsuo Sakamoto, Nao Ikeyama, Yusuke Ogata, Wataru Suda, Takao Iino, Masahira Hattori, Moriya Ohkuma.: Alistipes communis sp. nov., Alistipes dispar sp. nov. and Alistipes onderdonkii subsp. vulgaris subsp. nov., isolated from human faeces, and creation of Alistipes onderdonkii subsp. onderdonkii subsp. nov.. IJSEM 70: 2020 ( DOI 10.1099/ijsem.0.003778 )

#112082

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-ID402377.1 )

* These data were automatically processed and therefore are not curated

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Alistipes sp. 3BBH6

Alistipes onderdonkii subsp. vulgaris 3BBH6

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