Name: Bifidobacterium gallinarum Ch 206-5
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 1705

Type strain:

Species: Bifidobacterium gallinarum

Strain Designation: Ch 206-5

Culture col. no.: DSM 20670, ATCC 33777, CCUG 34990, JCM 6291, BCRC 14679, CGMCC 1.2283, KCTC 3235, LMG 11586

Strain history: J. Watabe EBF 90/38 <-- T. Mitsuoka EBF 90/38 <-- E. M. Barnes EBF 90/38.

NCBI tax ID(s): 78344 (subspecies)

SI-ID 9636

LMG 11586, ATCC 33777, CCUG 34990, DSM 20670, JCM 6291, CCRC 14679, KCTC 3235, AS 1.2283, KCTC 3282, BCRC 14679, CGMCC 1.2283

Section

Bifidobacterium gallinarum Ch 206-5 is an anaerobe, mesophilic bacterium that was isolated from chicken cecum.

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 gallinarum**
	Full Scientific Name (LPSN)	Bifidobacterium gallinarum Watabe et al. 1983

Synonym

Bifidobacterium pullorum subsp. gallinarum

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8992]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #8992]

Culture medium growth

[Ref.: #8992]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8992]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #8992]	growth	37 °C
[Ref.: #52438]	growth	37 °C
[Ref.: #67770]	growth	37 °C

[Ref.: #8992]	Temperature range	mesophilic
[Ref.: #52438]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #8992]	Oxygen tolerance	anaerobe
[Ref.: #52438]	Oxygen tolerance	anaerobe

[Ref.: #8992]	Murein short key	A11.31
[Ref.: #8992]	Murein types	A4alpha L-Lys-D-Asp

	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]	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]	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.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #52438]

Fatty acid	Percentage	ECL
C16:0	25.6	16
C18:1 ω9c	15.1	17.769
C14:0	11.6	14
C18:1 ω9c DMA	9.5	18.226
C18:0	8.1	18
C13:0 3OH/C15:1 i I/H	6.2	14.469
C18:2 ω6,9c/C18:0 ANTE	4.9	17.724
C16:1 ω9c	3.2	15.774
unknown 16.754	2.9	16.754
C12:0	2.6	12
C17:0 iso 3OH	2.5	18.161
C13:1 at 12-13	2.1	12.931
C17:1 ω5c ISO	1.4	16.461
Unidentified	1.2	12.467
C16:1 ω7c	0.9	15.819
Unidentified	0.9	16.278
C17:0 anteiso	0.8	16.722
Unidentified	0.8	10.908

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.: #52438]	4935	-	-	+	+	-	+	+	+	-	-	+	+	-	+	-	-	-	+	+	-	+	+	-	+	-	+	-	-	-

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	vitamin B1 metabolism	92.31	12 of 13
[Ref.: #66794]	threonine metabolism	90	9 of 10
[Ref.: #66794]	starch degradation	90	9 of 10
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	photosynthesis	85.71	12 of 14
[Ref.: #66794]	cellulose degradation	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	valine metabolism	77.78	7 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	77.78	7 of 9
[Ref.: #66794]	NAD metabolism	77.78	14 of 18
[Ref.: #66794]	palmitate biosynthesis	77.27	17 of 22
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	75	6 of 8
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	serine metabolism	66.67	6 of 9
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	purine metabolism	63.83	60 of 94
[Ref.: #66794]	d-xylose degradation	63.64	7 of 11
[Ref.: #66794]	oxidative phosphorylation	62.64	57 of 91
[Ref.: #66794]	gluconeogenesis	62.5	5 of 8
[Ref.: #66794]	ketogluconate metabolism	62.5	5 of 8
[Ref.: #66794]	degradation of sugar alcohols	62.5	10 of 16
[Ref.: #66794]	phenylalanine metabolism	61.54	8 of 13
[Ref.: #66794]	glutamate and glutamine metabolism	60.71	17 of 28
[Ref.: #66794]	lipoate biosynthesis	60	3 of 5
[Ref.: #66794]	pyrimidine metabolism	57.78	26 of 45
[Ref.: #66794]	methionine metabolism	57.69	15 of 26
[Ref.: #66794]	propanol degradation	57.14	4 of 7
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	CO2 fixation in Crenarchaeota	55.56	5 of 9
[Ref.: #66794]	metabolism of disaccharids	54.55	6 of 11
[Ref.: #66794]	leucine metabolism	53.85	7 of 13
[Ref.: #66794]	histidine metabolism	51.72	15 of 29
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	Entner Doudoroff pathway	50	5 of 10
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	50	4 of 8
[Ref.: #66794]	isoprenoid biosynthesis	50	13 of 26
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	mannosylglycerate biosynthesis	50	1 of 2
[Ref.: #66794]	cysteine metabolism	50	9 of 18
[Ref.: #66794]	coenzyme A metabolism	50	2 of 4
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	tetrahydrofolate metabolism	50	7 of 14
[Ref.: #66794]	non-pathway related	50	19 of 38
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	citric acid cycle	50	7 of 14
[Ref.: #66794]	alanine metabolism	48.28	14 of 29
[Ref.: #66794]	degradation of pentoses	46.43	13 of 28
[Ref.: #66794]	urea cycle	46.15	6 of 13
[Ref.: #66794]	proline metabolism	45.45	5 of 11
[Ref.: #66794]	d-mannose degradation	44.44	4 of 9
[Ref.: #66794]	degradation of hexoses	44.44	8 of 18
[Ref.: #66794]	reductive acetyl coenzyme A pathway	42.86	3 of 7
[Ref.: #66794]	lipid metabolism	41.94	13 of 31
[Ref.: #66794]	arginine metabolism	41.67	10 of 24
[Ref.: #66794]	tryptophan metabolism	39.47	15 of 38
[Ref.: #66794]	phenylpropanoid biosynthesis	38.46	5 of 13
[Ref.: #66794]	dTDPLrhamnose biosynthesis	37.5	3 of 8
[Ref.: #66794]	pentose phosphate pathway	36.36	4 of 11
[Ref.: #66794]	vitamin B6 metabolism	36.36	4 of 11
[Ref.: #66794]	tyrosine metabolism	35.71	5 of 14
[Ref.: #66794]	lysine metabolism	35.71	15 of 42
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	sulfoquinovose degradation	33.33	1 of 3
[Ref.: #66794]	formaldehyde oxidation	33.33	1 of 3
[Ref.: #66794]	flavin biosynthesis	33.33	5 of 15
[Ref.: #66794]	octane oxidation	33.33	1 of 3
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	propionate fermentation	30	3 of 10
[Ref.: #66794]	myo-inositol biosynthesis	30	3 of 10
[Ref.: #66794]	glycine metabolism	30	3 of 10
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	25	1 of 4
[Ref.: #66794]	sulfate reduction	23.08	3 of 13
[Ref.: #66794]	ascorbate metabolism	22.73	5 of 22
[Ref.: #66794]	4-hydroxymandelate degradation	22.22	2 of 9
[Ref.: #66794]	nitrate assimilation	22.22	2 of 9
[Ref.: #66794]	glutathione metabolism	21.43	3 of 14
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #8992]	Sample type/isolated from	chicken cecum

[Ref.: #52438]	Sample type/isolated from	Chicken caecum

[Ref.: #67770]	Sample type/isolated from	Chicken cecum
* marker position based on {}

Isolation sources categories

#Host	#Birds	#Chicken
#Host Body-Site	#Gastrointestinal tract	#Large intestine

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence LC071844 (>99% sequence identity) for Bifidobacterium pullorum subclade from Microbeatlas

Aquatic Samples	1025
Soil Samples	710
Animal Samples	40343
Plant Samples	221
Total Samples	42299

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

[Ref.: #8992]

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:

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

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Bifidobacterium gallinarum gene for 16S ribosomal RNA, partial sequence, strain: JCM 6291	LC071844	1433	ENA	78344 tax ID
[Ref.: #20218]	Bifidobacterium gallinarum strain DSM 20670 16S ribosomal RNA gene, partial sequence	GQ487636	129	ENA	78344 tax ID	*
[Ref.: #20218]	Bifidobacterium gallinarum gene for 16S rRNA, partial sequence, strain: JCM 6291	AB116302	474	ENA	78344 tax ID	*
[Ref.: #20218]	Bifidobacterium gallinarum gene for 16S rRNA, partial sequence, strain: JCM 6291	AB507098	654	ENA	78344 tax ID	*
[Ref.: #20218]	Bifidobacterium gallinarum gene for 16S rRNA, partial sequence, strain: JCM 6291	D86191	1509	ENA	78344 tax ID	*
[Ref.: #20218]	Bifidobacterium gallinarum strain KCTC 3235 16S ribosomal RNA gene, partial sequence	GU361821	1475	ENA	78344 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 pullorum subsp. gallinarum DSM 20670	GCA_000771505	contig	GenBank	1437602 tax ID
[Ref.: #67770]	Bifidobacterium pullorum subsp. gallinarum LMG 11586	GCA_000741215	contig	GenBank	78344 tax ID
[Ref.: #66792]	Bifidobacterium gallinarum DSM 20670	1437602.3	wgs	PATRIC	1437602 tax ID	*
[Ref.: #66792]	Bifidobacterium gallinarum strain LMG 11586	78344.3	wgs	PATRIC	78344 tax ID	*
[Ref.: #66792]	Bifidobacterium pullorum gallinarum DSM 20670	2690316009	draft	JGI IMG/M	1437602 tax ID	*
[Ref.: #66792]	Bifidobacterium pullorum gallinarum LMG 11586	2597490217	draft	JGI IMG/M	78344 tax ID	*

[Ref.: #8992]	GC-content	66.4 mol%
[Ref.: #67770]	GC-content	64.2 mol%

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 gallinarum DSM 20670 PATRIC: 1437602.3
[Ref.: #69480]	motile	no	95.667	no
[Ref.: #69480]	gram-positive	yes	91.144	no
[Ref.: #69480]	anaerobic	yes	98.725	yes
[Ref.: #69480]	halophile	no	78.144	no
[Ref.: #69480]	spore-forming	no	95.809	no
[Ref.: #69480]	glucose-util	yes	84.957	no
[Ref.: #69480]	thermophile	no	92.399	yes
[Ref.: #69480]	aerobic	no	97.783	yes
[Ref.: #69480]	flagellated	no	96.849	no
[Ref.: #69480]	glucose-ferment	yes	81.418	no

Availability in culture collections External links

[Ref.: #8992]

Culture collection no.

DSM 20670, ATCC 33777, CCUG 34990, JCM 6291, BCRC 14679, CGMCC 1.2283, KCTC 3235, LMG 11586

[Ref.: #71352]

SI-ID 9636

References

#8992

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 20670

#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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#52438 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 34990

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#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) .

#71352

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-ID9636.1 )

* These data were automatically processed and therefore are not curated

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Search for species Bifidobacterium gallinarum subsp. gallinarum in external resources:
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Bifidobacterium gallinarum DSM 20670

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