Name: Bifidobacterium catenulatum subsp. kashiwanohense HM2-2
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 1751

Type strain:

Species: Bifidobacterium catenulatum subsp. kashiwanohense

Strain Designation: HM2-2

Culture col. no.: DSM 21854, JCM 15439, KCTC 15185

Strain history: H. Morita HM2-2.

NCBI tax ID(s): 630129 (subspecies)

SI-ID 378451

DSM 21854, JCM 15439, LMG 27585

Section

Bifidobacterium catenulatum subsp. kashiwanohense HM2-2 is an anaerobe, mesophilic bacterium that was isolated from faeces of a healthy infant .

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	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Bifidobacteriales*
	Family	*Bifidobacteriaceae*
	Genus	*Bifidobacterium*
	Species	**Bifidobacterium catenulatum subsp. kashiwanohense**
	Full Scientific Name (LPSN)	Bifidobacterium catenulatum subsp. kashiwanohense (Morita et al. 2011) Nouioui et al. 2018

Synonym

Bifidobacterium kashiwanohense

Information on culture and growth conditions Culture and growth conditions

[Ref.: #15993]

Culture medium

BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58)

[Ref.: #15993]

Culture medium growth

[Ref.: #15993]

Culture medium link

Medium recipe at MediaDive

[Ref.: #15993]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #15993]			growth	37 °C
[Ref.: #67770]			growth	37 °C

[Ref.: #15993]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #15993]

Oxygen tolerance

anaerobe

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68371]	cellobiose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-arabinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-arabitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-galactose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-glucose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-lyxose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-mannitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-mannose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-ribose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-tagatose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	erythritol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	esculin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	galactitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	glycerol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	glycogen ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	inulin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-arabitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-rhamnose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-sorbose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-xylose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	melezitose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl alpha-D-glucopyranoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl alpha-D-mannoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	myo-inositol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	N-acetylglucosamine ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	Potassium 2-ketogluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	ribitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	salicin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	starch ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	trehalose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	xylitol ChEBI	-	builds acid from	* from API 50CH acid
	Only first 10 entries are displayed. Click here to see all.

API® 50CH acid:

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

	API ID	ControlQ	Acid from glycerolGLY	Acid from erythritolERY	Acid from D-arabinoseDARA	Acid from L-arabinoseLARA	Acid from D-riboseRIB	Acid from D-xyloseDXYL	Acid from L-xyloseLXYL	Acid from D-adonitolADO	Acid from methyl beta-D-xylopyranosideMDX	Acid from D-galactoseGAL	Acid from D-glucoseGLU	Acid from D-fructoseFRU	Acid from D-mannoseMNE	Acid from L-sorboseSBE	Acid from L-rhamnoseRHA	Acid from dulcitolDUL	Acid from inositolINO	Acid from D-mannitolMAN	Acid from D-sorbitolSOR	Acid from methyl alpha-D-mannopyranosideMDM	Acid from methyl alpha-D-glucopyranosideMDG	Acid from N-acetyl-glucosamineNAG	Acid from amygdalinAMY	Acid from arbutinARB	Acid from esculinESC	Acid from salicinSAL	Acid from cellobioseCEL	Acid from maltoseMAL	Acid from lactoseLAC	Acid from melibioseMEL	Acid from sucroseSAC	Acid from trehaloseTRE	Acid from inulinINU	Acid from melezitoseMLZ	Acid from raffinoseRAF	Acid from starchAMD	Acid from glycogenGLYG	Acid from xylitolXLT	Acid from gentiobioseGEN	Acid from turanoseTUR	Acid from D-lyxoseLYX	Acid from D-tagatoseTAG	Acid from D-fucoseDFUC	Acid from L-fucoseLFUC	Acid from D-arabitolDARL	Acid from L-arabitolLARL	Acid from gluconateGNT	Acid from 2-Ketogluconate2KG	Acid from 5-Ketogluconate5KG
[Ref.: #15993]	14745	-	-	-	-	+	+	+	-	-	-	+	+	+	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
[Ref.: #15993]	14744	-	-	-	-	+	+	+	-	-	-	+	+	+	-	-	-	-	-	-	+	-	-	-	+	+	+	-	-	+	+	+	+	-	-	-	+	-	-	-	+	+	-	-	-	-	-	-	+	-	-
[Ref.: #15993]	14743	-	-	-	-	-	+	-	-	-	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+/-

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

[Ref.: #15993]	Sample type/isolated from	faeces of a healthy infant (male; 1.5 years old)
[Ref.: #15993]	Geographic location (country and/or sea, region)	Kanagawa
[Ref.: #15993]	Country	Japan
[Ref.: #15993]	Country ISO 3 Code	JPN
[Ref.: #15993]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Faeces of a healthy infant (1.5 years old)
[Ref.: #67770]	Geographic location (country and/or sea, region)	Kashiha, Chiba
[Ref.: #67770]	Country	Japan
[Ref.: #67770]	Country ISO 3 Code	JPN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

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

[Ref.: #15993]

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.: #15993]	Bifidobacterium catenulatum subsp. kashiwanohense gene for 16S ribosomal RNA, partial sequence, strain: HM2-2	AB425276.2	1515	ENA	1150460 tax ID
[Ref.: #67770]	Bifidobacterium catenulatum subsp. kashiwanohense gene for 16S ribosomal RNA, partial sequence, strain: HM2-2	AB425276	1515	ENA	1150460 tax ID
[Ref.: #67770]	Bifidobacterium catenulatum subsp. kashiwanohense gene for 16S ribosomal RNA, partial sequence	LC483552	1466	ENA	630129 tax ID

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Bifidobacterium catenulatum subsp. kashiwanohense JCM 15439 = DSM 21854	GCA_000771545	contig	GenBank	1150460 tax ID
[Ref.: #67770]	Bifidobacterium catenulatum subsp. kashiwanohense JCM 15439 = DSM 21854	GCA_000741605	contig	GenBank	1150460 tax ID
[Ref.: #66792]	Bifidobacterium kashiwanohense JCM 15439 = DSM 21854	1150460.3	wgs	PATRIC	1150460 tax ID	*
[Ref.: #66792]	Bifidobacterium kashiwanohense JCM 15439 = DSM 21854	1150460.12	plasmid	PATRIC	1150460 tax ID	*
[Ref.: #66792]	Bifidobacterium kashiwanohense JCM 15439 = DSM 21854	1150460.7	complete	PATRIC	1150460 tax ID	*
[Ref.: #66792]	Bifidobacterium kashiwanohense JCM 15439 = DSM 21854	1150460.6	wgs	PATRIC	1150460 tax ID	*

[Ref.: #15993]

GC-content

56.3 mol%

high performance liquid chromatography (HPLC)

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Bifidobacterium catenulatum subsp. kashiwanohense JCM 15439 = DSM 21854 JCM 15439 NCBI: GCA_001042615.1
[Ref.: #69480]	motile	no	94.687	no
[Ref.: #69480]	flagellated	no	97.143	no
[Ref.: #69480]	gram-positive	yes	91.03	no
[Ref.: #69480]	anaerobic	yes	97.241	no
[Ref.: #69480]	aerobic	no	97.321	no
[Ref.: #69480]	halophile	no	69.086	no
[Ref.: #69480]	spore-forming	no	94.765	no
[Ref.: #69480]	thermophile	no	95.677	no
[Ref.: #69480]	glucose-util	yes	90.551	no
[Ref.: #69480]	glucose-ferment	yes	82.719	no

Availability in culture collections External links

[Ref.: #15993]

Culture collection no.

DSM 21854, JCM 15439, KCTC 15185

[Ref.: #71398]

SI-ID 378451

Literature:

Only first 10 entries are displayed. Click here to see all.

	Title	Authors	Journal	DOI	Year
Metabolism	Diversification of a Fucosyllactose Transporter within the Genus Bifidobacterium.	Ojima MN, Asao Y, Nakajima A, Katoh T, Kitaoka M, Gotoh A, Hirose J, Urashima T, Fukiya S, Yokota A, Abou Hachem M, Sakanaka M, Katayama T	Appl Environ Microbiol	10.1128/AEM.01437-21	2021	*
Phylogeny	Bifidobacteria in two-toed sloths (Choloepus didactylus): phylogenetic characterization of the novel taxon Bifidobacterium choloepi sp. nov.	Modesto M, Satti M, Watanabe K, Huang CH, Liou JS, Tamura T, Saito S, Mori K, Huang L, Sandri C, Spiezio C, Sgorbati B, Scarafile D, Camma C, Ancora M, Patavino C, Arita M, Mattarelli P	Int J Syst Evol Microbiol	10.1099/ijsem.0.004506	2020	*
Metabolism	Fucosyllactose and L-fucose utilization of infant Bifidobacterium longum and Bifidobacterium kashiwanohense.	Bunesova V, Lacroix C, Schwab C	BMC Microbiol	10.1186/s12866-016-0867-4	2016	*
Genetics	Complete Genome Sequence of Bifidobacterium kashiwanohense JCM 15439T, Isolated from Feces from a Healthy Japanese Infant.	Morita H, Toh H, Nakano A, Oshima K, Takagi M, Suda W, Tanabe S, Hattori M	Genome Announc	10.1128/genomeA.00255-15	2015	*
Transcriptome	Complete sequence analysis of two cryptic plasmids from Bifidobacterium kashiwanohense JCM 15439 (type strain) isolated from healthy infant feces.	Takahata M, Toh H, Nakano A, Takagi M, Murakami M, Ishii Y, Takizawa T, Tanabe S, Morita H	Anim Sci J	10.1111/asj.12095	2013	*
Phylogeny	Bifidobacterium kashiwanohense sp. nov., isolated from healthy infant faeces.	Morita H, Nakano A, Onoda H, Toh H, Oshima K, Takami H, Murakami M, Fukuda S, Takizawa T, Kuwahara T, Ohno H, Tanabe S, Hattori M	Int J Syst Evol Microbiol	10.1099/ijs.0.024521-0	2010	*
	Genomic Island-Mediated Horizontal Transfer of the Erythromycin Resistance Gene erm(X) among Bifidobacteria.	Li B, Chen D, Lin F, Wu C, Cao L, Chen H, Hu Y, Yin Y	Appl Environ Microbiol	10.1128/aem.00410-22	2022	*

References

#15993

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21854

#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) .

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

#68371

Automatically annotated from API 50CH acid .

#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) .

#71398

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-ID378451.1 )

* These data were automatically processed and therefore are not curated

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Bifidobacterium catenulatum subsp. kashiwanohense JCM 15439 = DSM 21854 JCM 15439

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