Name: Bradyrhizobium yuanmingense CIP 108027
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 134681

Type strain:

Species: Bradyrhizobium yuanmingense

Culture col. no.: CIP 108027, CFNEB 101, CCBAU 10071

Strain history: CIP <- 2003, W.X. Chen, China Agric. Univ., Beijing, China: strain CCBAU 10071

NCBI tax ID(s): 108015 (species)

SI-ID 100569

LMG 21827, CIP 108027, NBRC 100594, AS 1.3531

Section

Bradyrhizobium yuanmingense CIP 108027 is a mesophilic, Gram-negative, rod-shaped bacterium of the family Nitrobacteraceae.

Gram-negative
rod-shaped
mesophilic
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	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Nitrobacteraceae*
	Genus	*Bradyrhizobium*
	Species	**Bradyrhizobium yuanmingense**
	Full Scientific Name (LPSN)	Bradyrhizobium yuanmingense Yao et al. 2002

Information on morphological and physiological properties Morphology

[Ref.: #33193]	Gram stain	negative

[Ref.: #33193]	Cell shape	rod-shaped

[Ref.: #33193]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #33193]

Culture medium

MEDIUM 57 - for Streptomyces, Nocardioides, Lentzea albidocapillata and Streptoverticillium reticulum

[Ref.: #33193]

Culture medium growth

[Ref.: #33193]

Culture medium composition

expand / minimize

[Ref.: #33193]

Culture medium

CIP Medium 57

[Ref.: #33193]

Culture medium growth

[Ref.: #33193]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #33193]		growth	30 °C
[Ref.: #33193]		growth	25-41 °C
[Ref.: #33193]	no	growth	10 °C
[Ref.: #33193]	no	growth	45 °C

[Ref.: #33193]	Temperature range	mesophilic
[Ref.: #33193]	Temperature range	psychrophilic
[Ref.: #33193]	Temperature range	thermophilic

Information on physiology and metabolism Physiology and metabolism

	Salt	Tested relation		Salt conc.
[Ref.: #33193]	NaCl	no	growth	0	%
[Ref.: #33193]	NaCl	no	growth	2	%
[Ref.: #33193]	NaCl	no	growth	4	%
[Ref.: #33193]	NaCl	no	growth	6	%
[Ref.: #33193]	NaCl	no	growth	8	%
[Ref.: #33193]	NaCl	no	growth	10	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #33193]	citrate ChEBI	-	carbon source
[Ref.: #33193]	esculin ChEBI	+	hydrolysis
[Ref.: #33193]	hippurate ChEBI	+	hydrolysis
[Ref.: #33193]	nitrate ChEBI	+	reduction
[Ref.: #33193]	nitrate ChEBI	-	respiration
[Ref.: #33193]	nitrite ChEBI	-	reduction

	Antibiotica	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #33193]		0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)	no	yes

	Metabolite production	Metabolite	Production
[Ref.: #33193]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #33193]		acetoin ChEBI	-
[Ref.: #33193]		glucose ChEBI		+

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	-	3.1.3.2	* from API zym
[Ref.: #33193]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	-	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #33193]	amylase	-
[Ref.: #33193]	beta-galactosidase	+	3.2.1.23
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #33193]	caseinase	+	3.4.21.50
[Ref.: #33193]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #33193]	DNase	-
[Ref.: #68382]	esterase (C 4)	-		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #33193]	gamma-glutamyltransferase	+	2.3.2.2
[Ref.: #33193]	gelatinase	+/-
[Ref.: #33193]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #33193]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #33193]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #33193]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #33193]	oxidase	-
[Ref.: #33193]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #33193]	protease	+
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #33193]	tryptophan deaminase	-
[Ref.: #33193]	tween esterase	-
[Ref.: #33193]	urease	+	3.5.1.5
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

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.: #33193]	10828	-	+	-	+	-	+	-	-	+	-	-	+	-	-	-	-	-	-	-	-

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

[Ref.: #33193]	Sample type/isolated from	Lespedera cuneata
[Ref.: #33193]	Geographic location (country and/or sea, region)	Beijing
[Ref.: #33193]	Country	China
[Ref.: #33193]	Country ISO 3 Code	CHN
[Ref.: #33193]	Continent	Asia
[Ref.: #33193]	Isolation date	1995

[Ref.: #33193]	Geographic location (country and/or sea, region)	Beijing
[Ref.: #33193]	Country	China
[Ref.: #33193]	Country ISO 3 Code	CHN
[Ref.: #33193]	Continent	Asia
* marker position based on {}

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

[Ref.: #33193]

Biosafety level

Risk group (French classification)

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Bradyrhizobium yuanmingense CCBAU 10071	GCA_900094575	scaffold	GenBank	108015 tax ID	*
[Ref.: #66792]	Bradyrhizobium yuanmingense strain CCBAU 10071	108015.31	wgs	PATRIC	108015 tax ID	*
[Ref.: #66792]	Bradyrhizobium yuanmingense CCBAU 10071	2617270741	draft	JGI IMG/M	108015 tax ID	*

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Bradyrhizobium yuanmingense CCBAU 10071 NCBI: GCA_900094575.1
[Ref.: #69480]	motile	yes	80.137	no
[Ref.: #69480]	flagellated	no	77.18	no
[Ref.: #69480]	gram-positive	no	98.235	no
[Ref.: #69480]	anaerobic	no	98.264	no
[Ref.: #69480]	aerobic	yes	92.822	no
[Ref.: #69480]	halophile	no	96.139	no
[Ref.: #69480]	spore-forming	no	93.013	no
[Ref.: #69480]	glucose-ferment	no	90.438	no
[Ref.: #69480]	thermophile	no	99.258	yes
[Ref.: #69480]	glucose-util	yes	90.492	no

Availability in culture collections External links

[Ref.: #33193]

Culture collection no.

CIP 108027, CFNEB 101, CCBAU 10071

[Ref.: #92160]

SI-ID 100569

Literature:

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

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Bradyrhizobium agreste sp. nov., Bradyrhizobium glycinis sp. nov. and Bradyrhizobium diversitatis sp. nov., isolated from a biodiversity hotspot of the genus Glycine in Western Australia.	Klepa MS, Ferraz Helene LC, O'Hara G, Hungria M	Int J Syst Evol Microbiol	10.1099/ijsem.0.004742	2021	*
Phylogeny	Bradyrhizobium guangdongense sp. nov. and Bradyrhizobium guangxiense sp. nov., isolated from effective nodules of peanut.	Li YH, Wang R, Zhang XX, Young JPW, Wang ET, Sui XH, Chen WX	Int J Syst Evol Microbiol	10.1099/ijsem.0.000629	2015	*
Phylogeny	Bradyrhizobium daqingense sp. nov., isolated from soybean nodules.	Wang JY, Wang R, Zhang YM, Liu HC, Chen WF, Wang ET, Sui XH, Chen WX	Int J Syst Evol Microbiol	10.1099/ijs.0.034280-0	2012	*
Phylogeny	Characterization of rhizobia that nodulate legume species of the genus Lespedeza and description of Bradyrhizobium yuanmingense sp. nov.	Yao ZY, Kan FL, Wang ET, Wei GH, Chen WX	Int J Syst Evol Microbiol	10.1099/00207713-52-6-2219	2002	*
Genetics	Genome sequence of Bradyrhizobium yuanmingense strain P10 130, a highly efficient nitrogen-fixing bacterium that could be used for Desmodium incanum inoculation.	Toniutti MA, Albicoro FJ, Castellani LG, Lopez Garcia SL, Fornasero LV, Zuber NE, Vera LM, Vacca C, Cafiero JH, Winkler A, Kalinowski J, Lagares A, Torres Tejerizo GA, Del Papa MF	Gene	10.1016/j.gene.2020.145267	2020	*
Genetics	Draft genome sequences of Bradyrhizobium shewense sp. nov. ERR11(T) and Bradyrhizobium yuanmingense CCBAU 10071(T).	Aserse AA, Woyke T, Kyrpides NC, Whitman WB, Lindstrom K	Stand Genomic Sci	10.1186/s40793-017-0283-x	2017	*
Phylogeny	Bradyrhizobium vignae sp. nov., a nitrogen-fixing symbiont isolated from effective nodules of Vigna and Arachis.	Gronemeyer JL, Hurek T, Bunger W, Reinhold-Hurek B	Int J Syst Evol Microbiol	10.1099/ijsem.0.000674	2015	*
Phylogeny	Bradyrhizobium subterraneum sp. nov., a symbiotic nitrogen-fixing bacterium from root nodules of groundnuts.	Gronemeyer JL, Chimwamurombe P, Reinhold-Hurek B	Int J Syst Evol Microbiol	10.1099/ijsem.0.000403	2015	*

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 )

#33193 Collection of Institut Pasteur ; Curators of the CIP; CIP 108027

#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) .

#68382

Automatically annotated from API zym .

#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) .

#92160

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-ID100569.1 )

* These data were automatically processed and therefore are not curated

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Bradyrhizobium yuanmingense CCBAU 10071

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