Paraburkholderia phymatum (DSM 17167, CCUG 47179, CIP 108236)

Name: Paraburkholderia phymatum (DSM 17167, CCUG 47179, CIP 108236)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 1960

Type strain

Strain Designation 815

Culture col. no. DSM 17167 CCUG 47179 CIP 108236 LMG 21445 STM 815 1 more

NCBI tax ID(s) 148447

Special Collections DSMZ CCUG CIP

History <- CCUG <- P. Vandamme, Ghent <- C. Boivin, Montpellier CIP <- 2004, CCUG <- 2002, LMG <- C. Boivin, LSTM, Montpellier, France: strain 815

Links

Paraburkholderia phymatum 815 is an aerobe, Gram-negative, oval-shaped bacterium that was isolated from root nodule of Machaerium lunatum.

Gram-negative oval-shaped aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 94680

LMG 21445,CCUG 47179,DSM 17167,CIP 108236

@ref 20215

Last LPSN update 2026-02-09 11:18:13

Domain Bacteria

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Burkholderiaceae

Genus Paraburkholderia

Species Paraburkholderia phymatum

Full scientific name Paraburkholderia phymatum (Vandamme et al. 2003) Sawana et al. 2015

Synonyms (1)

Burkholderia phymatum

BacDive ID	Other strains from **Paraburkholderia phymatum** (1)	Type strain
100240	P. phymatum SF008543(FSU),

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
121817	negative	oval-shaped
125439	negative		94.6
125438	negative		97.5

Colony morphology

6802

Incubation period1-2 days

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
6802	R2A MEDIUM (DSMZ Medium 830)	Medium recipe at MediaDive	Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
6802	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
41976	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
121817	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
6802	positive	growth	28
41976	positive	growth	30
57560	positive	growth	30
121817	positive	growth	10-37
121817	negative	growth	5
121817	negative	growth	41

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
57560	aerobe
121817	obligate aerobe
125439	obligate aerobe	99.2

Spore formation

@ref	Spore formation	Confidence
125439		94

Halophily

@ref	Salt	Growth	Tested relation	Concentration
121817	NaCl	positive	growth	0-6 %
121817	NaCl		growth	8 %
121817	NaCl		growth	10 %

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
121817	4853 ChEBI	esculin	-	hydrolysis
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	30849 ChEBI	L-arabinose	+	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
121817	17632 ChEBI	nitrate	+	reduction
121817	17632 ChEBI	nitrate	-	respiration
68369	17632 ChEBI	nitrate	+	reduction	from API 20NE
121817	16301 ChEBI	nitrite	-	reduction
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
121817	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE
121817	35581 ChEBI	indole

Metabolite tests

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

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
121817	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	-	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
121817	amylase	-
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
121817	beta-galactosidase	+	3.2.1.23
68382	beta-glucosidase	-	3.2.1.21	from API zym
68369	beta-glucosidase	-	3.2.1.21	from API 20NE
68382	beta-glucuronidase	-	3.2.1.31	from API zym
121817	caseinase	+	3.4.21.50
6802	catalase	+	1.11.1.6
121817	catalase	+	1.11.1.6
6802	cytochrome-c oxidase	+	1.9.3.1
121817	DNase	-
121817	gelatinase	+/-
68369	gelatinase	-		from API 20NE
121817	lecithinase	+
68382	leucine arylamidase	+	3.4.11.1	from API zym
121817	lipase	+
121817	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
121817	ornithine decarboxylase	-	4.1.1.17
121817	oxidase	+
121817	protease	+
68382	trypsin	-	3.4.21.4	from API zym
121817	tryptophan deaminase	-
121817	tween esterase	+
121817	urease	+	3.5.1.5
68369	urease	-	3.5.1.5	from API 20NE

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
121817	-	+	+	+	+	+	+	+	-	-	+	+	-	+	-	-	-	-	-	-
6802	-	+	+/-	+/-	-	+	-	-	-	-	+	+	-	-	-	-	-	-	-	-

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
6802	+	-	-	-	-	-	-	+	+	+	+	+	+	-	+	+	-	+	+	+	-
6802	+	-	-	-	-	-	-	+	+	+	+	+	+	-	+	+	-	+	+/-	+	+
6802	+	-	-	-	-	-	-	+	+	+	+	+	+	-	+	+	-	+	+	+	+
6802	+	-	-	-	-	-	-	+	+	+	+	+	+	-	+	+	-	+	+	+	-

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
121817	not determinedn.d.	+	+	+	-	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	+	+	-	+	+	-	+	+	+	-	-	+	+	+	-	-	+	+	-	-	-	-	-	+	+	-	-	-	+	+	+	+	+	+	+	+	+	-	-	+	+	+	+	+	+	-	+	+	-	+	-	+	-	+	-	+	+	+	-	+	+	-	-	-	-	-	+	-	+	+	+	+	+	+	-	-	+	+	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Shrub (Scrub)
#Host Body-Site	#Plant	#Root nodule

Isolation

@ref	Sample type	Host species	Country	Country ISO 3 Code	Continent	Geographic location
6802	root nodule of Machaerium lunatum	Machaerium lunatum	French Guiana	FRA	Middle and South America
57560	Root nodule of Machaerium lunatum		French Guiana	FRA	Middle and South America
121817	Plant, Root nodule of Machaerium lunatum		France	FRA	Europe	Guyana

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6802	1	Risk group (German classification) According to TRBA 466
121817	1	Risk group (French 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	Paraburkholderia phymatum LMG 21445 assembly for Paraburkholderia phymatum STM815 LMG 21445	scaffold	GCA_902833665	391038.42	8111916876	391038	65.64

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6802	Burkholderia sp. STM815 partial 16S rRNA gene, strain STM815	AJ302312	1435		391038
124043	Burkholderia phymatum STM815 strain LMG 21445 16S ribosomal RNA gene, partial sequence.	HQ849095	1124		391038

GC content

6802

GC-content (mol%)62.1

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Paraburkholderia phymatum STM815 LMG 21445
NCBI: GCA_902833665

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	94.00	no
125439	motility	BacteriaNetⓘ	yes	70.60	no
125439	gram_stain	BacteriaNetⓘ	negative	94.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Paraburkholderia phymatum STM815 LMG 21445
NCBI: GCA_902833665.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.50	no
125438	anaerobic	anaerobicⓘ	no	94.11	no
125438	aerobic	aerobicⓘ	yes	87.97	yes
125438	spore-forming	spore-formingⓘ	no	88.98	no
125438	thermophilic	thermophileⓘ	no	98.49	no
125438	flagellated	motile2+ⓘ	yes	86.44	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Purification and Characterization of Nit _phym , a Robust Thermostable Nitrilase From Paraburkholderia phymatum.	Bessonnet T, Mariage A, Petit JL, Pellouin V, Debard A, Zaparucha A, Vergne-Vaxelaire C, de Berardinis V.	Front Bioeng Biotechnol	10.3389/fbioe.2021.686362	2021
Genetics	Crystal structure of chorismate mutase from Burkholderia phymatum.	Asojo OA, Subramanian S, Abendroth J, Exley I, Lorimer DD, Edwards TE, Myler PJ.	Acta Crystallogr F Struct Biol Commun	10.1107/s2053230x18002868	2018
	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
	Genomic Assemblies of Members of Burkholderia and Related Genera as a Resource for Natural Product Discovery.	Mullins AJ, Jones C, Bull MJ, Webster G, Parkhill J, Connor TR, Murray JAH, Challis GL, Mahenthiralingam E.	Microbiol Resour Announc	10.1128/mra.00485-20	2020
	The Siderophore Phymabactin Facilitates the Growth of the Legume Symbiont Paraburkholderia phymatum in Aluminium-Rich Martian Soil.	Golaz D, Burgi L, Egli M, Bigler L, Pessi G.	Life (Basel)	10.3390/life15071044	2025
	Tn-seq profiling reveals that NodS of the beta-rhizobium Paraburkholderia phymatum is detrimental for nodulating soybean.	Belles-Sancho P, Golaz D, Paszti S, Vitale A, Liu Y, Bailly A, Eberl L, James EK, Pessi G.	Commun Biol	10.1038/s42003-024-07385-x	2024
	A rhamnose-rich O-antigen of Paraburkholderia phymatum MP20 is required for symbiosis with Mimosa pudica.	Welmillage SU, James EK, Tak N, Shedge S, Huang L, Muszynski A, Azadi P, Gyaneshwar P.	J Bacteriol	10.1128/jb.00422-24	2025
Pathogenicity	Identification of novel broad host-range promoter sequences functional in diverse Pseudomonadota by a promoter-trap approach.	Roldan DM, Amarelle V.	Braz J Microbiol	10.1007/s42770-024-01512-w	2024
Phylogeny	Inoculation of Mimosa Pudica with Paraburkholderia phymatum Results in Changes to the Rhizoplane Microbial Community Structure.	Welmillage SU, Zhang Q, Sreevidya VS, Sadowsky MJ, Gyaneshwar P.	Microbes Environ	10.1264/jsme2.me20153	2021
	Structural basis of the complementary activity of two ketosynthases in aryl polyene biosynthesis.	Lee WC, Choi S, Jang A, Yeon J, Hwang E, Kim Y.	Sci Rep	10.1038/s41598-021-95890-y	2021
	The Exopolysaccharide Cepacian Plays a Role in the Establishment of the Paraburkholderia phymatum - Phaseolus vulgaris Symbiosis.	Liu Y, Bellich B, Hug S, Eberl L, Cescutti P, Pessi G.	Front Microbiol	10.3389/fmicb.2020.01600	2020
	Discovery of a novel filamentous prophage in the genome of the Mimosa pudica microsymbiont Cupriavidus taiwanensis STM 6018.	Klonowska A, Ardley J, Moulin L, Zandberg J, Patrel D, Gollagher M, Marinova D, Reddy TBK, Varghese N, Huntemann M, Woyke T, Seshadri R, Ivanova N, Kyrpides N, Reeve W.	Front Microbiol	10.3389/fmicb.2023.1082107	2023
	Wild wisdom meets cultivation: comparative rhizomicrobiome analysis unveils the key role of Paraburkholderia in growth promotion and disease suppression in Coptis chinensis.	Cao X, Yuan Q, Hu C, Zhang H, Sun X, Yan B, Ma X, Zhang L, Huang L, Li S, Zhang Z.	Microbiome	10.1186/s40168-025-02136-4	2025
	Legume-rhizobia symbiosis: Translatome analysis.	Sainz MM, Sotelo-Silveira M, Filippi CV, Zardo S.	Genet Mol Biol	10.1590/1678-4685-gmb-2023-0284	2024
	Mutations in Two Paraburkholderia phymatum Type VI Secretion Systems Cause Reduced Fitness in Interbacterial Competition.	de Campos SB, Lardi M, Gandolfi A, Eberl L, Pessi G.	Front Microbiol	10.3389/fmicb.2017.02473	2017
	The Type VI Secretion System of Sinorhizobium fredii USDA257 Is Required for Successful Nodulation With Glycine max cv Pekin.	Reyes-Perez PJ, Jimenez-Guerrero I, Sanchez-Reina A, Civantos C, Castro NM, Ollero FJ, Gandullo J, Bernal P, Perez-Montano F.	Microb Biotechnol	10.1111/1751-7915.70112	2025
	Exopolysaccharide is required for motility, stress tolerance, and plant colonization by the endophytic bacterium Paraburkholderia phytofirmans PsJN.	Fu B, Yan Q.	Front Microbiol	10.3389/fmicb.2023.1218653	2023
	Diversity and Geographic Distribution of Microsymbionts Associated With Invasive Mimosa Species in Southern China.	Liu X, You S, Liu H, Yuan B, Wang H, James EK, Wang F, Cao W, Liu ZK.	Front Microbiol	10.3389/fmicb.2020.563389	2020
	Transcriptome Analysis of Paraburkholderia phymatum under Nitrogen Starvation and during Symbiosis with Phaseolus Vulgaris.	Lardi M, Liu Y, Purtschert G, Bolzan de Campos S, Pessi G.	Genes (Basel)	10.3390/genes8120389	2017
Genetics	Paraburkholderia sabiae Uses One Type VI Secretion System (T6SS-1) as a Powerful Weapon against Notorious Plant Pathogens.	Hug S, Heiniger B, Bolli K, Paszti S, Eberl L, Ahrens CH, Pessi G.	Microbiol Spectr	10.1128/spectrum.01622-23	2023
	The T6SS-Dependent Effector Re78 of Rhizobium etli Mim1 Benefits Bacterial Competition.	De Sousa BFS, Domingo-Serrano L, Salinero-Lanzarote A, Palacios JM, Rey L.	Biology (Basel)	10.3390/biology12050678	2023
	The structure of lipopolysaccharide transport protein B (LptB) from Burkholderia pseudomallei.	Pankov G, Dawson A, Hunter WN.	Acta Crystallogr F Struct Biol Commun	10.1107/s2053230x19001778	2019
Transcriptome	Bacteroid Development, Transcriptome, and Symbiotic Nitrogen-Fixing Comparison of Bradyrhizobium arachidis in Nodules of Peanut (Arachis hypogaea) and Medicinal Legume Sophora flavescens.	Chen WF, Meng XF, Jiao YS, Tian CF, Sui XH, Jiao J, Wang ET, Ma SJ.	Microbiol Spectr	10.1128/spectrum.01079-22	2023
	Response of Plant-Associated Microbiome to Plant Root Colonization by Exogenous Bacterial Endophyte in Perennial Crops.	Yurgel SN, Ajeethan N, Smertenko A.	Front Microbiol	10.3389/fmicb.2022.863946	2022
	Transcriptional organization and regulation of the Pseudomonas putida K1 type VI secretion system gene cluster.	Bernal P, Civantos C, Pacheco-Sanchez D, Quesada JM, Filloux A, Llamas MA.	Microbiology (Reading)	10.1099/mic.0.001295	2023
	Prevalence of an Insect-Associated Genomic Region in Environmentally Acquired Burkholderiaceae Symbionts.	Stillson PT, Baltrus DA, Ravenscraft A.	Appl Environ Microbiol	10.1128/aem.02502-21	2022
	Application of qPCR assays based on haloacids transporter gene dehp2 for discrimination of Burkholderia and Paraburkholderia.	Su X, Shi Y, Li R, Lu ZN, Zou X, Wu JX, Han ZG.	BMC Microbiol	10.1186/s12866-019-1411-0	2019
	Responses of Low-Cost Input Combinations on the Microbial Structure of the Maize Rhizosphere for Greenhouse Gas Mitigation and Plant Biomass Production.	Yoshiura CA, Venturini AM, Braga LPP, da Franca AG, de Lyra MDCCP, Tsai SM, Rodrigues JLM.	Front Plant Sci	10.3389/fpls.2021.683658	2021
Enzymology	Genetic Diversity and Characterization of Symbiotic Bacteria Isolated from Endemic Phaseolus Cultivars Located in Contrasting Agroecosystems in Venezuela.	Ramirez MDA, Espana M, Sekimoto H, Okazaki S, Yokoyama T, Ohkama-Ohtsu N.	Microbes Environ	10.1264/jsme2.me20157	2021
Genetics	Diversity and prevalence of type VI secretion system effectors in clinical Pseudomonas aeruginosa isolates.	Robinson LA, Collins ACZ, Murphy RA, Davies JC, Allsopp LP.	Front Microbiol	10.3389/fmicb.2022.1042505	2022
Genetics	Delineation of a Subgroup of the Genus Paraburkholderia, Including P. terrae DSM 17804T, P. hospita DSM 17164T, and Four Soil-Isolated Fungiphiles, Reveals Remarkable Genomic and Ecological Features-Proposal for the Definition of a P. hospita Species Cluster.	Pratama AA, Jimenez DJ, Chen Q, Bunk B, Sproer C, Overmann J, van Elsas JD.	Genome Biol Evol	10.1093/gbe/evaa031	2020
	Differential Expression of Paraburkholderia phymatum Type VI Secretion Systems (T6SS) Suggests a Role of T6SS-b in Early Symbiotic Interaction.	Hug S, Liu Y, Heiniger B, Bailly A, Ahrens CH, Eberl L, Pessi G	Front Plant Sci	10.3389/fpls.2021.699590	2021
	Metabolomics and Dual RNA-Sequencing on Root Nodules Revealed New Cellular Functions Controlled by Paraburkholderia phymatum NifA.	Belles-Sancho P, Lardi M, Liu Y, Eberl L, Zamboni N, Bailly A, Pessi G	Metabolites	10.3390/metabo11070455	2021
Metabolism	Paraburkholderia phymatum Homocitrate Synthase NifV Plays a Key Role for Nitrogenase Activity during Symbiosis with Papilionoids and in Free-Living Growth Conditions.	Belles-Sancho P, Lardi M, Liu Y, Hug S, Pinto-Carbo MA, Zamboni N, Pessi G	Cells	10.3390/cells10040952	2021
Metabolism	Linkage of the Nit1C gene cluster to bacterial cyanide assimilation as a nitrogen source.	Jones LB, Ghosh P, Lee JH, Chou CN, Kunz DA	Microbiology (Reading)	10.1099/mic.0.000668	2018
Metabolism	Metabolomics and Transcriptomics Identify Multiple Downstream Targets of Paraburkholderia phymatum sigma(54) During Symbiosis with Phaseolus vulgaris.	Lardi M, Liu Y, Giudice G, Ahrens CH, Zamboni N, Pessi G	Int J Mol Sci	10.3390/ijms19041049	2018
Metabolism	Transcriptomic profiling of Burkholderia phymatum STM815, Cupriavidus taiwanensis LMG19424 and Rhizobium mesoamericanum STM3625 in response to Mimosa pudica root exudates illuminates the molecular basis of their nodulation competitiveness and symbiotic evolutionary history.	Klonowska A, Melkonian R, Miche L, Tisseyre P, Moulin L	BMC Genomics	10.1186/s12864-018-4487-2	2018
Metabolism	Burkholderia genome mining for nonribosomal peptide synthetases reveals a great potential for novel siderophores and lipopeptides synthesis.	Esmaeel Q, Pupin M, Kieu NP, Chataigne G, Bechet M, Deravel J, Krier F, Hofte M, Jacques P, Leclere V	Microbiologyopen	10.1002/mbo3.347	2016
Genetics	Complete Genome sequence of Burkholderia phymatum STM815(T), a broad host range and efficient nitrogen-fixing symbiont of Mimosa species.	Moulin L, Klonowska A, Caroline B, Booth K, Vriezen JA, Melkonian R, James EK, Young JP, Bena G, Hauser L, Land M, Kyrpides N, Bruce D, Chain P, Copeland A, Pitluck S, Woyke T, Lizotte-Waniewski M, Bristow J, Riley M	Stand Genomic Sci	10.4056/sigs.4861021	2014
Genetics	Regulon studies and in planta role of the BraI/R quorum-sensing system in the plant-beneficial Burkholderia cluster.	Coutinho BG, Mitter B, Talbi C, Sessitsch A, Bedmar EJ, Halliday N, James EK, Camara M, Venturi V	Appl Environ Microbiol	10.1128/AEM.00635-13	2013
Metabolism	Enhanced degradation of haloacid by heterologous expression in related Burkholderia species.	Su X, Deng L, Kong KF, Tsang JS	Biotechnol Bioeng	10.1002/bit.24917	2013
Metabolism	Biosynthesis of branched-chain amino acids is essential for effective symbioses between betarhizobia and Mimosa pudica.	Chen WM, Prell J, James EK, Sheu DS, Sheu SY	Microbiology (Reading)	10.1099/mic.0.058370-0	2012
Metabolism	Effect of phosphoglycerate mutase and fructose 1,6-bisphosphatase deficiency on symbiotic Burkholderia phymatum.	Chen WM, Prell J, James EK, Sheu DS, Sheu SY	Microbiology (Reading)	10.1099/mic.0.055095-0	2012
Metabolism	Nodulation and nitrogen fixation by Mimosa spp. in the Cerrado and Caatinga biomes of Brazil.	Dos Reis FB Jr, Simon MF, Gross E, Boddey RM, Elliott GN, Neto NE, de Fatima Loureiro M, de Queiroz LP, Scotti MR, Chen WM, Noren A, Rubio MC, de Faria SM, Bontemps C, Goi SR, Young JPW, Sprent JI, James EK	New Phytol	10.1111/j.1469-8137.2010.03267.x	2010
Phylogeny	Burkholderia phymatum is a highly effective nitrogen-fixing symbiont of Mimosa spp. and fixes nitrogen ex planta.	Elliott GN, Chen WM, Chou JH, Wang HC, Sheu SY, Perin L, Reis VM, Moulin L, Simon MF, Bontemps C, Sutherland JM, Bessi R, de Faria SM, Trinick MJ, Prescott AR, Sprent JI, James EK	New Phytol	10.1111/j.1469-8137.2006.01894.x	2007
Phylogeny	Proof that Burkholderia strains form effective symbioses with legumes: a study of novel Mimosa-nodulating strains from South America.	Chen WM, de Faria SM, Straliotto R, Pitard RM, Simoes-Araujo JL, Chou JH, Chou YJ, Barrios E, Prescott AR, Elliott GN, Sprent JI, Young JP, James EK	Appl Environ Microbiol	10.1128/AEM.71.11.7461-7471.2005	2005
	A novel function of the key nitrogen-fixation activator NifA in beta-rhizobia: Repression of bacterial auxin synthesis during symbiosis.	Belles-Sancho P, Liu Y, Heiniger B, von Salis E, Eberl L, Ahrens CH, Zamboni N, Bailly A, Pessi G	Front Plant Sci	10.3389/fpls.2022.991548	2022
	Endosymbiotic adaptations in three new bacterial species associated with Dictyostelium discoideum: Paraburkholderia agricolaris sp. nov., Paraburkholderia hayleyella sp. nov., and Paraburkholderia bonniea sp. nov.	Brock DA, Noh S, Hubert ANM, Haselkorn TS, DiSalvo S, Suess MK, Bradley AS, Tavakoli-Nezhad M, Geist KS, Queller DC, Strassmann JE.	PeerJ	10.7717/peerj.9151	2020
Phylogeny	Burkholderia diazotrophica sp. nov., isolated from root nodules of Mimosa spp.	Sheu SY, Chou JH, Bontemps C, Elliott GN, Gross E, Dos Reis Junior FB, Melkonian R, Moulin L, James EK, Sprent JI, Young JPW, Chen WM	Int J Syst Evol Microbiol	10.1099/ijs.0.039859-0	2012
Phylogeny	Mixotrophic metabolism in Burkholderia kururiensis subsp. thiooxydans subsp. nov., a facultative chemolithoautotrophic thiosulfate oxidizing bacterium isolated from rhizosphere soil and proposal for classification of the type strain of Burkholderia kururiensis as Burkholderia kururiensis subsp. kururiensis subsp. nov.	Anandham R, Indira Gandhi P, Kwon SW, Sa TM, Kim YK, Jee HJ	Arch Microbiol	10.1007/s00203-009-0517-4	2009
Phylogeny	Burkholderia terrae sp. nov., isolated from a forest soil.	Yang HC, Im WT, Kim KK, An DS, Lee ST	Int J Syst Evol Microbiol	10.1099/ijs.0.63968-0	2006
Phylogeny	Burkholderia tuberum sp. nov. and Burkholderia phymatum sp. nov., nodulate the roots of tropical legumes.	Vandamme P, Goris J, Chen WM, de Vos P, Willems A	Syst Appl Microbiol	10.1078/07232020260517634	2002

References

#6802	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17167
#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 )
#41976	; Curators of the CIP;
#57560	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 47179
#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 .
#68382	Automatically annotated from API zym .
#121817	Collection of Institut Pasteur ; Curators of the CIP; CIP 108236
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 )

Rate our new design

Content

About us

Paraburkholderia phymatum (DSM 17167, CCUG 47179, CIP 108236)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

API zym

API 20NE

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_902833665

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media