Name: Brucella endophytica DSM 29930
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 140163

Type strain:

Species: Brucella endophytica

Culture col. no.: DSM 29930, CGMCC 1.15082, KCTC 42485, EGI 60010

Strain history: <- W. Li, Yunnan Institute of Microbiology, Kunming, China; EGI60010 <- Y.-Q. Li, Kunming Medical University Haiyuan College, China <- L. Li, Key Laboratory of Biogeography and Bioresource in Arid Land, Xinjiang Institute of Ecology and Geography, Ürümqi, China

NCBI tax ID(s): 1963359 (species)

SI-ID 400424

DSM 29930

Special Collections

DSMZ
KCTC

Section

When using BacDive for research please cite our paper

Brucella endophytica DSM 29930 is a mesophilic bacterium that was isolated from surface-sterilized healthy root of Glycyrrhiza uralensis .

mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Brucellaceae*
	Genus	*Brucella*
	Species	**Brucella endophytica**
	Full Scientific Name (LPSN)	Brucella endophytica (Li et al. 2016) Hördt et al. 2020

Synonym

Ochrobactrum endophyticum

Information on morphological and physiological properties Morphology

[Ref.: #125438]	Gram stain	negative Confidence in %99
[Ref.: #125439]	Gram stain	negative Confidence in %98

Information on culture and growth conditions Culture and growth conditions

[Ref.: #42770]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #42770]

Culture medium growth

[Ref.: #42770]

Culture medium link

Medium recipe at MediaDive

[Ref.: #42770]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #42770]			growth	30 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #125439]

Oxygen tolerance

aerobe Confidence in %91.2

[Ref.: #125439]

Ability of spore formation

no Confidence in %94.6

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	L-arabinose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	N-acetylglucosamine ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68369]	beta-glucosidase	+	3.2.1.21	* from API 20NE
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE

API® 20NE:

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

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #42770]	26877	+	-	-	-	-	+	-	+/-	+	+	+	+	+	+	+	-	-	+	+	-	not determinedn.d.

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

[Ref.: #42770]	Sample type/isolated from	surface-sterilized healthy root of Glycyrrhiza uralensis
[Ref.: #42770]	Host species	Glycyrrhiza uralensis
[Ref.: #42770]	Geographic location (country and/or sea, region)	Yili County (83.84° E, 43.39° N)
[Ref.: #42770]	Country	China
[Ref.: #42770]	Country ISO 3 Code	CHN
[Ref.: #42770]	Continent	Asia
[Ref.: #42770]	Geographic location	43.3900°/83.8400°
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Root (Rhizome)
#Host Body-Site	#Plant	#Sterilized plant part

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KP721485 (>99% sequence identity) for Phyllobacteriaceae from Microbeatlas

Aquatic Samples	55
Soil Samples	352
Animal Samples	449
Plant Samples	47
Total Samples	903

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

[Ref.: #42770]

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.: #42770]	Brucella endophytica strain EGI 60010 16S ribosomal RNA gene, partial sequence	KP721485	1500	GenBank ENA	1963359 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Brucella endophytica CGMCC 1.15082	GCA_014640615	scaffold	GenBank ENA	1963359 tax ID	*
[Ref.: #66792]	Ochrobactrum endophyticum strain CGMCC 1.15082	1963359.3	wgs	PATRIC	1963359 tax ID	*

[Ref.: #42770]

GC-content

60.4 mol%

high performance liquid chromatography (HPLC)

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

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Brucella endophytica CGMCC 1.15082 NCBI: GCA_014640615.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	99	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	92.371	no
[Ref.: #125438]	aerobic	aerobicⓘ	yes	83.835	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	86.847	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	97.338	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	51.729	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Brucella endophytica CGMCC 1.15082 NCBI: GCA_014640615
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	94.6
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	55.6
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	negative	98
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	aerobe	91.2

Availability in culture collections External links

[Ref.: #42770]

Culture collection no.

DSM 29930, CGMCC 1.15082, KCTC 42485, EGI 60010

[Ref.: #96540]

SI-ID 400424

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Ochrobactrum endophyticum sp. nov., isolated from roots of Glycyrrhiza uralensis.	Li L, Li YQ, Jiang Z, Gao R, Nimaichand S, Duan YQ, Egamberdieva D, Chen W, Li WJ	Arch Microbiol	10.1007/s00203-015-1170-8	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 )

#42770

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29930

#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) .

#68369

Automatically annotated from API 20NE .

#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 .

#96540

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-ID400424.1 )

#125438

Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )

#125439

Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .

* These data were automatically processed and therefore are not curated

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Brucella endophytica CGMCC 1.15082

Brucella endophytica CGMCC 1.15082

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