Paraburkholderia aspalathi (DSM 27239, LMG 27731, VG1C)

Name: Paraburkholderia aspalathi (DSM 27239, LMG 27731, VG1C)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 130231

Type strain

Strain Designation VG1C

Culture col. no. DSM 27239 LMG 27731 VG1C

NCBI tax ID(s) 1324617

Special Collections DSMZ

History <- N. Mavengere, Dept. Botany and Zoology, Stellenbosch Univ., South Africa

Links

Paraburkholderia aspalathi VG1C is a bacterium that was isolated from root nodules of Aspalathus abietina Thunb..

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 390418

LMG 27731,DSM 27239,DSM 27731

@ref 20215

Last LPSN update 2026-02-09 11:31:10

Domain Bacteria

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Burkholderiaceae

Genus Paraburkholderia

Species Paraburkholderia aspalathi

Full scientific name Paraburkholderia aspalathi (Mavengere et al. 2014) Sawana et al. 2017

Synonyms (1)

Burkholderia aspalathi

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	96.451

Colony morphology

@ref	Type of hemolysis	Incubation period
21542	gamma	2-3 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
21542	CASO AGAR (MERCK 105458) (DSMZ Medium 220)		Medium recipe at MediaDive	Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
21542	NUTRIENT AGAR (DSMZ Medium 1)		Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
21542	positive	growth	30
21542	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	98.1

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68369	17128 ChEBI	adipate	+	assimilation	from API 20NE
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
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
68369	4853 ChEBI	esculin	-	hydrolysis	from API 20NE
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
68369	24265 ChEBI	gluconate	+	assimilation	from API 20NE
68369	25115 ChEBI	malate	+	assimilation	from API 20NE
68369	17306 ChEBI	maltose	-	assimilation	from API 20NE
68369	59640 ChEBI	N-acetylglucosamine	+	assimilation	from API 20NE
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Metabolite production

@ref	Chebi-ID	Metabolite	Production
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
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68369	beta-glucosidase	-	3.2.1.21	from API 20NE
21542	catalase	+	1.11.1.6
68369	cytochrome oxidase	+	1.9.3.1	from API 20NE
21542	cytochrome-c oxidase	+	1.9.3.1
68369	gelatinase	-		from API 20NE
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
21542	-	-	-	-	-	-	-	+	+	+/-	+	+	+	-	+	+	+	+	+	+	not determinedn.d.
21542	-	-	-	-	-	-	-	+	+	+/-	+	+	+	-	+	+	+	+	+	+	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Root nodule

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
21542	root nodules of Aspalathus abietina Thunb.	Aspalathus abietina	Western Cape Province, Helderberg area, Vergelegen Wine Estate (34.05462° S 18.9367° E)	South Africa	ZAF	Africa	-34.0546	18.9366 -34.0546/18.9366

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
21542	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	IMG-taxon 2671180117 annotated assembly for Paraburkholderia aspalathi LMG 27731	scaffold	GCA_900116445	1324617.3	2671180117	1324617	58.89

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
21542	Burkholderia aspalathi strain VG1C 16S ribosomal RNA gene, partial sequence	KC817488	1409		1324617

GC content

@ref	GC-content (mol%)	Method
21542	60.1	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Paraburkholderia aspalathi LMG 27731
NCBI: GCA_900116445

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	87.70	no
125439	motility	BacteriaNetⓘ	yes	60.20	no
125439	gram_stain	BacteriaNetⓘ	negative	68.20	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Paraburkholderia aspalathi LMG 27731
NCBI: GCA_900116445.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	96.45	no
125438	anaerobic	anaerobicⓘ	no	95.88	no
125438	aerobic	aerobicⓘ	yes	87.00	no
125438	spore-forming	spore-formingⓘ	no	86.34	no
125438	thermophilic	thermophileⓘ	no	97.49	no
125438	flagellated	motile2+ⓘ	yes	83.61	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Molecular signatures and phylogenomic analysis of the genus Burkholderia: proposal for division of this genus into the emended genus Burkholderia containing pathogenic organisms and a new genus Paraburkholderia gen. nov. harboring environmental species.	Sawana A, Adeolu M, Gupta RS.	Front Genet	10.3389/fgene.2014.00429	2014
	Genome-based taxonomy of Burkholderia sensu lato: Distinguishing closely related species.	Bach E, Volpiano CG, Sant'Anna FH, Passaglia LMP.	Genet Mol Biol	10.1590/1678-4685-gmb-2023-0122	2023
	The Potato Yam Phyllosphere Ectosymbiont Paraburkholderia sp. Msb3 Is a Potent Growth Promotor in Tomato.	Herpell JB, Schindler F, Bejtovic M, Fragner L, Diallo B, Bellaire A, Kublik S, Foesel BU, Gschwendtner S, Kerou M, Schloter M, Weckwerth W.	Front Microbiol	10.3389/fmicb.2020.00581	2020
Phylogeny	Paraburkholderia madseniana sp. nov., a phenolic acid-degrading bacterium isolated from acidic forest soil.	Wilhelm RC, Murphy SJL, Feriancek NM, Karasz DC, DeRito CM, Newman JD, Buckley DH	Int J Syst Evol Microbiol	10.1099/ijsem.0.004029	2020
Phylogeny	Paraburkholderia caffeinilytica sp. nov., isolated from the soil of a tea plantation.	Gao Z, Yuan Y, Xu L, Liu R, Chen M, Zhang C	Int J Syst Evol Microbiol	10.1099/ijsem.0.001333	2016
Phylogeny	Burkholderia aspalathi sp. nov., isolated from root nodules of the South African legume Aspalathus abietina Thunb.	Mavengere NR, Ellis AG, Le Roux JJ	Int J Syst Evol Microbiol	10.1099/ijs.0.057067-0	2014
Phylogeny	Paraburkholderia solitsugae sp. nov. and Paraburkholderia elongata sp. nov., phenolic acid-degrading bacteria isolated from forest soil and emended description of Paraburkholderia madseniana.	Wilhelm RC, Cyle KT, Martinez CE, Karasz DC, Newman JD, Buckley DH	Int J Syst Evol Microbiol	10.1099/ijsem.0.004387	2020

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 )
#21542	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27239
#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 .
#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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Paraburkholderia aspalathi (DSM 27239, LMG 27731, VG1C)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20NE

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900116445

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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