Name: Branchiibius hedensis 29717
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 3932

Type strain:

Species: Branchiibius hedensis

Strain Designation: 29717

Culture col. no.: DSM 22951, NBRC 106121, Mer 29717

Strain history: <- A. Arisawa, Mercian Corporation, Iwata, Japan; 29717 <- S. Sugimoto

NCBI tax ID(s): 672460 (species)

SI-ID 405955

DSM 22951

Section

Branchiibius hedensis 29717 is a mesophilic bacterium that was isolated from branchia of a Japanese codling, Physiculus japonicus.

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	*Micrococcales*
	Family	*Dermacoccaceae*
	Genus	*Branchiibius*
	Species	**Branchiibius hedensis**
	Full Scientific Name (LPSN)	Branchiibius hedensis Sugimoto et al. 2011

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #69480]	Motility	no Confidence in %94.425

[Ref.: #69232]	Colony color	Light ivory (1015)
[Ref.: #69232]	Cultivation medium used	ISP 7

[Ref.: #69232]	Colony color	Oyster white (1013)
[Ref.: #69232]	Cultivation medium used	ISP 2

[Ref.: #69232]	Colony color	Oyster white (1013)
[Ref.: #69232]	Cultivation medium used	ISP 3

[Ref.: #69232]	Colony color	Oyster white (1013)
[Ref.: #69232]	Cultivation medium used	ISP 4

[Ref.: #69232]	Colony color	Oyster white (1013)
[Ref.: #69232]	Cultivation medium used	ISP 5

[Ref.: #69232]	Colony color	Oyster white (1013)
[Ref.: #69232]	Cultivation medium used	suter with tyrosine

[Ref.: #69232]	Colony color	Oyster white (1013)
[Ref.: #69232]	Cultivation medium used	suter without tyrosine

[Ref.: #69232]	Pigment production	no
[Ref.: #69232]	Pigment name	Melanin
[Ref.: #69232]	Pigment production	no
[Ref.: #69232]	Pigment name	soluble pigment

[Ref.: #69232]	Multicellular complex forming ability	no
[Ref.: #69232]	Multicellular complex name	Aerial mycelium
[Ref.: #69232]	Medium Name (multicellularity)	ISP 2

[Ref.: #69232]	Multicellular complex forming ability	no
[Ref.: #69232]	Multicellular complex name	Aerial mycelium
[Ref.: #69232]	Medium Name (multicellularity)	ISP 3

[Ref.: #69232]	Multicellular complex forming ability	no
[Ref.: #69232]	Multicellular complex name	Aerial mycelium
[Ref.: #69232]	Medium Name (multicellularity)	ISP 4

[Ref.: #69232]	Multicellular complex forming ability	no
[Ref.: #69232]	Multicellular complex name	Aerial mycelium
[Ref.: #69232]	Medium Name (multicellularity)	ISP 5

[Ref.: #69232]	Multicellular complex forming ability	no
[Ref.: #69232]	Multicellular complex name	Aerial mycelium
[Ref.: #69232]	Medium Name (multicellularity)	ISP 7

[Ref.: #69232]	Multicellular complex forming ability	no
[Ref.: #69232]	Multicellular complex name	Aerial mycelium
[Ref.: #69232]	Medium Name (multicellularity)	suter with tyrosine

[Ref.: #69232]	Multicellular complex forming ability	no
[Ref.: #69232]	Multicellular complex name	Aerial mycelium
[Ref.: #69232]	Medium Name (multicellularity)	suter without tyrosine

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16629]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #16629]

Culture medium growth

[Ref.: #16629]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16629]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #16629]			growth	28 °C

[Ref.: #16629]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Ability of spore formation

no Confidence in %99.689

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #69232]		NaCl		growth	0-2.5	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #69232]	arabinose ChEBI	+	growth
[Ref.: #69232]	cellulose ChEBI	+	growth
[Ref.: #68379]	D-glucose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-mannitol ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-ribose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-xylose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	esculin ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #69232]	fructose ChEBI	+	growth
[Ref.: #68379]	gelatin ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #69232]	glucose ChEBI	+	growth
[Ref.: #68379]	glycogen ChEBI	-	fermentation	* from API Coryne
[Ref.: #69232]	inositol ChEBI	+/-	growth
[Ref.: #68379]	lactose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	maltose ChEBI	-	fermentation	* from API Coryne
[Ref.: #69232]	mannose ChEBI	+/-	growth
[Ref.: #68379]	nitrate ChEBI	-	reduction	* from API Coryne
[Ref.: #69232]	raffinose ChEBI	+/-	growth
[Ref.: #69232]	rhamnose ChEBI	+/-	growth
[Ref.: #69232]	sucrose ChEBI	+	growth
[Ref.: #68379]	sucrose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	urea ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #69232]	xylose ChEBI	+/-	growth
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym, API Coryne
[Ref.: #68382]	alpha-chymotrypsin	+	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym, API Coryne
[Ref.: #68382]	beta-galactosidase	+	3.2.1.23	* from API zym
[Ref.: #68379]	beta-galactosidase	-	3.2.1.23	* from API Coryne
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym, API Coryne
[Ref.: #68382]	beta-glucuronidase	+	3.2.1.31	* from API zym
[Ref.: #68379]	beta-glucuronidase	-	3.2.1.31	* from API Coryne
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68379]	gelatinase	+		* from API Coryne
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	+		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym
[Ref.: #68379]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API Coryne
[Ref.: #68379]	pyrazinamidase	+	3.5.1.B15	* from API Coryne
[Ref.: #68379]	pyrrolidonyl arylamidase	+	3.4.19.3	* from API Coryne
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #68379]	urease	+	3.5.1.5	* from API Coryne
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® Coryne:

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

	API ID	Reduction of nitrateNIT	PyrazinamidasePYZ	Pyrrolidonyl arylamidasePYRA	Alkaline phosphatasePAL	beta-Glucuronidasebeta GUR	beta-Galactosidasebeta GAL	alpha-Glucosidasealpha GLU	N-Acetyl-beta-Glucosidasebeta NAG	Esculin hydrolysis/beta-GlucosidaseESC	Urease/urea hydrolysisURE	Gelatinase/gelatin hydrolysisGEL	Control fermentationControl	Fermentation of D-glucoseGLU	Fermentation of D-riboseRIB	Fermentation of D-xyloseXYL	Fermentation of D-mannitolMAN	Fermentation of maltoseMAL	Fermentation of lactoseLAC	Fermentation of sucroseSAC	Fermentation of glycogenGLYG	CatalaseCAT
[Ref.: #69232]	3726	-	+	+	+	-	-	+	-	+	+	+	not determinedn.d.	-	-	-	-	-	-	-	-	not determinedn.d.

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.: #69232]	5910	not determinedn.d.	+	+	+	+	+	+	+	+	+	+	+/-	+/-	+	+	+	+	+	+/-	+/-

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

[Ref.: #16629]	Sample type/isolated from	branchia of a Japanese codling, Physiculus japonicus
[Ref.: #16629]	Host species	Physiculus japonicus
[Ref.: #16629]	Geographic location (country and/or sea, region)	Shizuoka prefecture, Suruga Bay, Heda
[Ref.: #16629]	Country	Japan
[Ref.: #16629]	Country ISO 3 Code	JPN
[Ref.: #16629]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host	#Fishes	-
#Host Body-Site	#Oral cavity and airways	#Airways

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB520822 (>99% sequence identity) for Branchiibius from Microbeatlas

Aquatic Samples	355
Soil Samples	151
Animal Samples	1282
Plant Samples	55
Total Samples	1843

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

[Ref.: #16629]

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.: #16629]	Branchiibius hedensis gene for 16S ribosomal RNA, partial sequence	AB520822	1524	ENA	672460 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Branchiibius hedensis DSM 22951	GCA_900108585	contig	GenBank	672460 tax ID	*
[Ref.: #66792]	Branchiibius hedensis DSM 22951	GCA_003149195	contig	GenBank	672460 tax ID	*
[Ref.: #66792]	Branchiibius hedensis strain DSM 22951	672460.4	wgs	PATRIC	672460 tax ID	*
[Ref.: #66792]	Branchiibius hedensis strain DSM 22951	672460.3	wgs	PATRIC	672460 tax ID	*
[Ref.: #66792]	Branchiibius hedensis DSM 22951	2634166369	draft	JGI IMG/M	672460 tax ID	*

[Ref.: #16629]

GC-content

68 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 GenomeNet Sporulation v. 1 based on: Branchiibius hedensis strain DSM 22951 PATRIC: 672460.3
[Ref.: #69481]	spore-forming	no	80	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Branchiibius hedensis strain DSM 22951 PATRIC: 672460.4
[Ref.: #69480]	gram-positive	yes	92.64	no
[Ref.: #69480]	anaerobic	no	98.794	no
[Ref.: #69480]	halophile	no	95.387	no
[Ref.: #69480]	spore-forming	no	82.68	no
[Ref.: #69480]	glucose-util	yes	90.205	yes
[Ref.: #69480]	thermophile	no	99.227	yes
[Ref.: #69480]	flagellated	no	98.341	no
[Ref.: #69480]	motile	no	95.206	no
[Ref.: #69480]	aerobic	yes	88.619	no
[Ref.: #69480]	glucose-ferment	no	91.085	yes

Availability in culture collections External links

[Ref.: #16629]

Culture collection no.

DSM 22951, NBRC 106121, Mer 29717

[Ref.: #73442]

SI-ID 405955

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Allobranchiibius huperziae gen. nov., sp. nov., a member of Dermacoccaceae isolated from the root of a medicinal plant Huperzia serrata (Thunb.).	Ai MJ, Sun Y, Sun HM, Liu HY, Yu LY, Zhang YQ	Int J Syst Evol Microbiol	10.1099/ijsem.0.002284	2017	*
Phylogeny	Branchiibius cervicis sp. nov., a novel species isolated from patients with atopic dermatitis.	Tomida J, Sakamoto D, Sugita T, Fujiwara N, Naka T, Hamada M, Morita Y, Kawamura Y	Syst Appl Microbiol	10.1016/j.syapm.2011.08.003	2011	*
Phylogeny	Branchiibius hedensis gen. nov., sp. nov., an actinobacterium isolated from a Japanese codling (Physiculus japonicus).	Sugimoto S, Kato T, Ito M, Sakata N, Tsuchida T, Matsumoto A, Takahashi Y	Int J Syst Evol Microbiol	10.1099/ijs.0.023648-0	2010	*

References

#16629

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22951

#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) .

#68379

Automatically annotated from API Coryne .

#68382

Automatically annotated from API zym .

#69232

Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .

#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 )

#73442

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-ID405955.1 )

* These data were automatically processed and therefore are not curated

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Branchiibius hedensis strain DSM 22951

Branchiibius hedensis strain DSM 22951

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