Paraburkholderia bryophila (DSM 23487, CCUG 52993, LMG 23644)

Name: Paraburkholderia bryophila (DSM 23487, CCUG 52993, LMG 23644)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 1980

Type strain

Strain Designation 1S18

Culture col. no. DSM 23487 CCUG 52993 LMG 23644 1S18

NCBI tax ID(s) 420952

Special Collections DSMZ CCUG Literature strains

History DSMZ <- CCUG <- G. Berg; 1S18

Links

Paraburkholderia bryophila 1S18 is an aerobe, Gram-negative bacterium that was isolated from Sphagnum rubellum.

Gram-negative aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 132821

LMG 23644,CCUG 52993,DSM 23487

@ref 20215

Last LPSN update 2026-05-29 08:25:23

Domain Bacteria

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Burkholderiaceae

Genus Paraburkholderia

Species Paraburkholderia bryophila

Full scientific name Paraburkholderia bryophila (Vandamme et al. 2007) Sawana et al. 2015

Synonyms (1)

Burkholderia bryophila

BacDive ID	Other strains from **Paraburkholderia bryophila** (12)	Type strain
154295	P. bryophila CCUG 52994, LMG 23645
154296	P. bryophila CCUG 52995
154297	P. bryophila CCUG 52996, LMG 23646
154298	P. bryophila CCUG 52997, LMG 23647
154299	P. bryophila CCUG 52998, LMG 22946
154300	P. bryophila CCUG 52999
154301	P. bryophila CCUG 53000, LMG 23648
154302	P. bryophila CCUG 53001
154303	P. bryophila CCUG 53002
154304	P. bryophila CCUG 53004
154305	P. bryophila CCUG 53005
154553	P. bryophila CCUG 54390, LMG 23649

Morphology

Cell morphology

@ref	Gram stain	Motility	Confidence
32217	negative
125438	negative		96.482

Colony morphology

@ref	Type of hemolysis	Hemolysis ability	Incubation period
17227	gamma	0
59766			2 days

Pigmentation

32217

Productionno

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
17227	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

Culture temp

@ref	Growth	Type	Temperature (°C)
17227	positive	growth	30
32217	positive	optimum	28
59766	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
59766	aerobe
125439	obligate aerobe	97.788

Spore formation

@ref	Spore formation	Confidence
32217
125439		90.982

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
32217	17128 ChEBI	adipate	+	carbon source
68369	17128 ChEBI	adipate	+	assimilation	from API 20NE
32217	22599 ChEBI	arabinose	+	carbon source
32217	29016 ChEBI	arginine	+	carbon source
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
32217	16947 ChEBI	citrate	+	carbon source
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
32217	27689 ChEBI	decanoate	+	carbon source
68369	27689 ChEBI	decanoate	+	assimilation	from API 20NE
32217	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
32217	17234 ChEBI	glucose	+	carbon source
68369	30849 ChEBI	L-arabinose	+	assimilation	from API 20NE
32217	24996 ChEBI	lactate	+	carbon source
32217	25115 ChEBI	malate	+	carbon source
68369	25115 ChEBI	malate	+	assimilation	from API 20NE
68369	17306 ChEBI	maltose	-	assimilation	from API 20NE
32217	29864 ChEBI	mannitol	+	carbon source
32217	37684 ChEBI	mannose	+	carbon source
32217	506227 ChEBI	N-acetylglucosamine	+	carbon source
68369	59640 ChEBI	N-acetylglucosamine	+	assimilation	from API 20NE
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
32217	18401 ChEBI	phenylacetate	+	carbon source
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
32217	53426 ChEBI	tween 80	+	carbon source
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
32217	acid phosphatase	+	3.1.3.2
32217	alkaline phosphatase	+	3.1.3.1
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68369	beta-glucosidase	-	3.2.1.21	from API 20NE
17227	catalase	+	1.11.1.6
32217	catalase	+	1.11.1.6
32217	cytochrome oxidase	+	1.9.3.1
68369	cytochrome oxidase	+	1.9.3.1	from API 20NE
17227	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
17227	-	-	-	-	-	-	-	+	+	+	+	+	+	-	+	+	+	+	+	+	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Peat moss

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent	Sampling date
17227	Sphagnum rubellum	Sphagnum rubellum	Graal-Müritz, Ribnitzer Großes Moor	Germany	DEU	Europe
59766	Mosses/lichens (Sphagnum rubellum)			Germany	DEU	Europe	2001-11-01

Taxonmaps

69479

Global distribution of 16S sequence AM489501 (>99% sequence identity) for Paraburkholderia from Microbeatlas

Aquatic Samples	357
Soil Samples	661
Animal Samples	885
Plant Samples	260
Total Samples	2163

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
17227	1	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	ASM326903v1 assembly for Paraburkholderia bryophila LMG 23644	scaffold	GCA_003269035	420952.3	2708743156	420952	60.75

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Burkholderia bryophila strain LMG 23644 16S ribosomal RNA gene, partial sequence	HQ849075	1124		420952
17227	Burkholderia bryophila 16S rRNA, strain LMG 23644T	AM489501	1484		420952

GC content

32217

GC-content (mol%)62.5

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM326903v1 assembly for Paraburkholderia bryophila LMG 23644
BV-BRC: 420952.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.79	no
125439	gram_stain	BacteriaNetⓘ	negative	49.21	no
125439	motility	BacteriaNetⓘ	yes	48.63	no
125439	spore_formation	BacteriaNetⓘ	no	90.98	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Paraburkholderia bryophila LMG 23644
NCBI: GCA_003269035.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	96.48	yes
125438	anaerobic	anaerobicⓘ	no	96.91	no
125438	aerobic	aerobicⓘ	yes	89.32	no
125438	spore-forming	spore-formingⓘ	no	87.20	yes
125438	thermophilic	thermophileⓘ	no	98.50	yes
125438	flagellated	motile2+ⓘ	yes	86.45	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
	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	Burkholderia zhejiangensis sp. nov., a methyl-parathion-degrading bacterium isolated from a wastewater-treatment system.	Lu P, Zheng LQ, Sun JJ, Liu HM, Li SP, Hong Q, Li WJ	Int J Syst Evol Microbiol	10.1099/ijs.0.035428-0	2011
Phylogeny	Burkholderia bryophila sp. nov. and Burkholderia megapolitana sp. nov., moss-associated species with antifungal and plant-growth-promoting properties.	Vandamme P, Opelt K, Knochel N, Berg C, Schonmann S, De Brandt E, Eberl L, Falsen E, Berg G	Int J Syst Evol Microbiol	10.1099/ijs.0.65142-0	2007

References

#17227	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 23487
#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 )
#28459	IJSEM 2228 2007 ( DOI 10.1099/ijs.0.65142-0 , PubMed 17911288 )
#32217	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #28459
#59766	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 52993
#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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Paraburkholderia bryophila (DSM 23487, CCUG 52993, LMG 23644)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Metabolite utilization

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_003269035

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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