Brucella intermedia (DSM 17986, CIP 105838, LMG 3301)

Name: Brucella intermedia (DSM 17986, CIP 105838, LMG 3301)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 1888

Type strain

Culture col. no. DSM 17986 CIP 105838 LMG 3301 NCTC 12171 CCUG 24694 1 more

NCBI tax ID(s) 641118 94625

Special Collections DSMZ CCUG CIP Literature strains

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Brucella intermedia DSM 17986 is a mesophilic, motile, rod-shaped prokaryote that was isolated from human blood.

motile rod-shaped mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 3682

LMG 3301,NCTC 12171,CCUG 24694,CIP 105838,IFO 15820,CCM 7179,NBRC 15820,BCRC 17247,CCRC 17247,DSM 17986,VTT E-991166

@ref 20215

Last LPSN update 2025-12-16 09:47:12

Domain Pseudomonadati

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Brucellaceae

Genus Brucella

Species Brucella intermedia

Full scientific name Brucella intermedia (Velasco et al. 1998) Hördt et al. 2020

Synonyms (1)

Ochrobactrum intermedium

Morphology

Cell morphology

@ref	Cell shape	Flagellum arrangement	Gram stain	Confidence
23338	rod-shaped	lophotrichous
125439			negative	99.2
125438			negative	99.5

Colony morphology

@ref	Colony size	Colony shape	Incubation period	Medium used
7318			1-2 days
23338	1 mm	circular	1 day	Nutrient agar

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
7318	COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)	Medium recipe at MediaDive	Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
7318	TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)	Medium recipe at MediaDive	Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
7318	TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)	Medium recipe at MediaDive	Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
23338	Nutrient agar (NA)
37230	MEDIUM 3 - Columbia agar		Columbia agar (39.000 g);distilled water (1000.000 ml)

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
7318	positive	growth	30	mesophilic
23338	positive	growth	37	mesophilic
23338	positive	growth	18-22	psychrophilic
37230	positive	growth	30	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	aerobe	97.4

Spore formation

@ref	Spore formation	Confidence
125439		98.8

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
23338	32373 ChEBI	4-coumarate	-	assimilation
23338		4-nitrophenyl beta-D-galactopyranoside hydrolysate	-	hydrolysis
23338	90259 ChEBI	4-nitrophenyl beta-D-glucopyranoside	+	hydrolysis
23338	90146 ChEBI	4-nitrophenyl beta-D-glucuronide	-	hydrolysis
23338	90148 ChEBI	4-nitrophenyl beta-D-xylopyranoside	-	hydrolysis
23338	27856 ChEBI	acetamide	-
23338	17128 ChEBI	adipate	-	assimilation
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
23338	22599 ChEBI	arabinose	-	assimilation
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
23338	3122 ChEBI	bis-4-nitrophenyl phosphate	-	hydrolysis
23338	3122 ChEBI	bis-4-nitrophenyl phosphate	+	hydrolysis
23338	16947 ChEBI	citrate	+	assimilation
68369	17634 ChEBI	D-glucose	+	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68369	16899 ChEBI	D-mannitol	+	assimilation	from API 20NE
68369	16024 ChEBI	D-mannose	+	assimilation	from API 20NE
68369	27689 ChEBI	decanoate	+	assimilation	from API 20NE
23338	4853 ChEBI	esculin	-	hydrolysis
68369	4853 ChEBI	esculin	-	hydrolysis	from API 20NE
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
23338	17234 ChEBI	glucose	-	assimilation
23338	17754 ChEBI	glycerol	+	assimilation
68369	30849 ChEBI	L-arabinose	+	assimilation	from API 20NE
23338		L-proline-4-nitroanilide	-	hydrolysis
23338	17716 ChEBI	lactose	-	assimilation
68369	25115 ChEBI	malate	+	assimilation	from API 20NE
23338	15792 ChEBI	malonate	-
23338	17306 ChEBI	maltose	-	assimilation
23338	17306 ChEBI	maltose	+	assimilation
68369	17306 ChEBI	maltose	+	assimilation	from API 20NE
23338	29864 ChEBI	mannitol	-	assimilation
23338	28053 ChEBI	melibiose	-	assimilation
23338	17268 ChEBI	myo-inositol	-	assimilation
68369	59640 ChEBI	N-acetylglucosamine	+	assimilation	from API 20NE
23338	17632 ChEBI	nitrate	+	reduction
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
23338		O-nitrophenyl-beta-D-galactopyranosid	-	hydrolysis
23338	55394 ChEBI	p-nitrophenylphosphocholine	-	hydrolysis
23338	18401 ChEBI	phenylacetate	-	assimilation
23338	16634 ChEBI	raffinose	-	assimilation
23338	26546 ChEBI	rhamnose	-	assimilation
23338	30911 ChEBI	sorbitol	-	assimilation
23338	17992 ChEBI	sucrose	-	assimilation
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Antibiotic resistance

@ref	ChEBI	Metabolite	Is resistant
23338	37943	colistin

Metabolite production

@ref	Chebi-ID	Metabolite
23338	16136 ChEBI	hydrogen sulfide
23338	35581 ChEBI	indole
68369	35581 ChEBI	indole	from API 20NE

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68369	35581 ChEBI	indole	-	from API 20NE

Enzymes

@ref	Value	Activity	Ec
23338	arginine dihydrolase	-	3.5.3.6
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68369	beta-glucosidase	-	3.2.1.21	from API 20NE
23338	cytochrome oxidase	+	1.9.3.1
68369	cytochrome oxidase	+	1.9.3.1	from API 20NE
23338	gelatinase	-
68369	gelatinase	-		from API 20NE
23338	lysine decarboxylase	-	4.1.1.18
23338	ornithine decarboxylase	-	4.1.1.17
68369	urease	-	3.5.1.5	from API 20NE

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
7318	-	-	-	-	-	-	-	-	+	+	+	+	+	+	+/-	+	-	+	+	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Human	-
#Host Body Product	#Fluids	#Blood

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
7318	human blood	France	FRA	Europe
48013	Human blood	France	FRA	Europe

Taxonmaps

69479

Global distribution of 16S sequence AM114411 (>99% sequence identity) for Brucella from Microbeatlas

Aquatic Samples	171
Soil Samples	255
Animal Samples	403
Plant Samples	72
Total Samples	901

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7318	2	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	34576_H01 assembly for Brucella intermedia NCTC12171	contig	GCA_900454225	94625.13	8048561237	94625	77.49
66792	ASM18264v1 assembly for Brucella intermedia LMG 3301	scaffold	GCA_000182645	641118.3	645058765	641118	75.77
66792	O.intermedium_CIP_105838.fasta assembly for Brucella intermedia CIP 105838	contig	GCA_012103055	94625.26		94625	17.78

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Ochrobactrum intermedium 16S rRNA gene (partial), 23S rRNA gene (partial), tRNA-Ile gene, tRNA-Ala gene and ITS1, type strain LMG 3301, allele A	AJ867340	913	94625
20218	Ochrobactrum intermedium 16S rRNA gene (partial), 23S rRNA gene (partial), tRNA-Ile gene, tRNA-Ala gene and ITS1, type strain LMG 3301, allele B	AJ867341	915	94625
20218	Ochrobactrum intermedium 16S rRNA gene (partial), 23S rRNA gene (partial), tRNA-Ile gene, tRNA-Ala gene and ITS1, type strain LMG 3301, allele C	AJ867342	915	94625
20218	Ochrobactrum intermedium 16S rRNA gene (partial), 23S rRNA gene (partial), tRNA-Ile gene, tRNA-Ala gene and ITS1, type strain LMG 3301, allele D	AJ867343	936	94625
20218	Ochrobactrum intermedium 16S rRNA gene (partial), 23S rRNA gene (partial), tRNA-Ile gene, tRNA-Ala gene and ITS1, type strain LMG 3301, allele E	AJ867344	985	94625
20218	Ochrobactrum intermedium partial 16S rRNA gene, strain LMG 3301T	AM490623	1390	641118
23338	Ochrobactrum intermedium LMG 3301 16S ribosomal RNA gene, partial sequence	U70978	1454	641118
7318	Ochrobactrum intermedium gene for 16S rRNA, partial sequence, strain: NBRC 15820	AB680967	1410	94625
7318	Ochrobactrum intermedium partial 16S rRNA gene, type strain CCUG 24694T	AM114411	1390	94625

GC content

23338

GC-content (mol%)57.7-58.3

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Brucella intermedia LMG 3301
NCBI: GCA_000182645

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.80	no
125439	motility	BacteriaNetⓘ	yes	62.20	no
125439	gram_stain	BacteriaNetⓘ	negative	99.20	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	97.40	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Brucella intermedia LMG 3301 LMG 3301
NCBI: GCA_000182645.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.50	no
125438	anaerobic	anaerobicⓘ	no	96.19	no
125438	aerobic	aerobicⓘ	yes	85.96	no
125438	spore-forming	spore-formingⓘ	no	89.27	no
125438	thermophilic	thermophileⓘ	no	98.99	yes
125438	flagellated	motile2+ⓘ	yes	62.02	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Analysis of 1,000+ Type-Strain Genomes Substantially Improves Taxonomic Classification of Alphaproteobacteria.	Hordt A, Lopez MG, Meier-Kolthoff JP, Schleuning M, Weinhold LM, Tindall BJ, Gronow S, Kyrpides NC, Woyke T, Goker M.	Front Microbiol	10.3389/fmicb.2020.00468	2020
	aac(6')-Iaq, a novel aminoglycoside acetyltransferase gene identified from an animal isolate Brucella intermedia DW0551.	Lin N, Xu W, Huang D, Liu C, Lu J, Zhu M, Bao Q, Pan W.	Front Cell Infect Microbiol	10.3389/fcimb.2025.1551240	2025
	Antibiotic resistance patterns of environmental bacteria from sewage water in Vellore, India: isolation, virulence analysis, and characterization	Barnwal S, Saleh A.	Front Microbiol		2025
	Crown Gall Induced by a Natural Isolate of Brucella (Ochrobactrum) pseudogrignonense Containing a Tumor-Inducing Plasmid.	Hooykaas MJG, Hooykaas PJJ.	Microorganisms	10.3390/microorganisms13010102	2025
Genetics	Functional Enrichment and Sequence-Based Discovery Identify Promiscuous and Efficient Poly Lactic Acid Degrading Enzymes.	Stojanovski G, Bawn M, Locks A, Ambrose-Dempster E, Ward JM, Jeffries JWE, Hailes HC.	Environ Sci Technol	10.1021/acs.est.4c07279	2025
	Unveiling six novel bacterial strains for fipronil and thiobencarb biodegradation: efficacy, metabolic pathways, and bioaugmentation potential in paddy soil.	Faridy N, Torabi E, Pourbabaee AA, Osdaghi E, Talebi K.	Front Microbiol	10.3389/fmicb.2024.1462912	2024
	Deciphering the genetic and functional diversity of cultivable bacteria from chasmophytic pigweed (Chenopodium album) from Tsomoriri, Ladakh, India.	Das S, Verma S, Choudhary P, Singh R, Saxena AK.	3 Biotech	10.1007/s13205-022-03278-0	2022
Pathogenicity	Prevalence, Host Range, and Comparative Genomic Analysis of Temperate Ochrobactrum Phages.	Jackel C, Hertwig S, Scholz HC, Nockler K, Reetz J, Hammerl JA	Front Microbiol	10.3389/fmicb.2017.01207	2017
Phylogeny	Isolation and characterization of a crude oil degrading bacteria from formation water: comparative genomic analysis of environmental Ochrobactrum intermedium isolate versus clinical strains.	Chai LJ, Jiang XW, Zhang F, Zheng BW, Shu FC, Wang ZL, Cui QF, Dong HP, Zhang ZZ, Hou DJ, She YH	J Zhejiang Univ Sci B	10.1631/jzus.B1500029	2015
Biotechnology	Acquired genetic mechanisms of a multiresistant bacterium isolated from a treatment plant receiving wastewater from antibiotic production.	Johnning A, Moore ER, Svensson-Stadler L, Shouche YS, Larsson DG, Kristiansson E	Appl Environ Microbiol	10.1128/AEM.02141-13	2013
	Draft genome of Ochrobactrum intermedium strain M86 isolated from non-ulcer dyspeptic individual from India.	Kulkarni G, Dhotre D, Dharne M, Shetty S, Chowdhury S, Misra V, Misra S, Patole M, Shouche Y	Gut Pathog	10.1186/1757-4749-5-7	2013
Phylogeny	Isolation of urease-positive Ochrobactrum intermedium in the stomach of a non-ulcer dyspeptic patient from north India.	Dharne MS, Misra SP, Misra V, Dwivedi M, Patole MS, Shouche YS	J Microbiol Immunol Infect		2008
Phylogeny	Comparative sequence analysis of the internal transcribed spacer 1 of Ochrobactrum species.	Lebuhn M, Bathe S, Achouak W, Hartmann A, Heulin T, Schloter M	Syst Appl Microbiol	10.1016/j.syapm.2005.11.003	2005
Phylogeny	Ochrobactrum pecoris sp. nov., isolated from farm animals.	Kampfer P, Huber B, Busse HJ, Scholz HC, Tomaso H, Hotzel H, Melzer F	Int J Syst Evol Microbiol	10.1099/ijs.0.027631-0	2010
Phylogeny	Ochrobactrum ciceri sp. nov., isolated from nodules of Cicer arietinum.	Imran A, Hafeez FY, Fruhling A, Schumann P, Malik KA, Stackebrandt E	Int J Syst Evol Microbiol	10.1099/ijs.0.013987-0	2009
Phylogeny	Evaluation of the relatedness of Brucella spp. and Ochrobactrum anthropi and description of Ochrobactrum intermedium sp. nov., a new species with a closer relationship to Brucella spp.	Velasco J, Romero C, Lopez-Goni I, Leiva J, Diaz R, Moriyon I	Int J Syst Bacteriol	10.1099/00207713-48-3-759	1998

References

#7318	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17986
#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 )
#23338	Julián Velasco, Conchi Romero, Ignacio López-Goni, José Leiva, Ramón Díaz, Ignacio Moriyón: Evaluation of the relatedness of Brucella spp. and Ochrobactrum anthropi and description of Ochrobactrum intermedium sp. nov., a new species with a closer relationship to Brucella spp.. IJSEM 48: 759 - 768 1998 ( DOI 10.1099/00207713-48-3-759 , PubMed 9734029 )
#37230	; Curators of the CIP;
#48013	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 24694
#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 .
#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 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Brucella intermedia (DSM 17986, CIP 105838, LMG 3301)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

API 20NE

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900454225

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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