Name: Paraburkholderia terrae KMY02
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 1968

Type strain:

Species: Paraburkholderia terrae

Strain Designation: KMY02, KMY 02

Culture col. no.: DSM 17804, KCTC 12388, NBRC 100964, CCUG 54786, CIP 109196

Strain history: CIP <- 2006, KCTC <- ST Lee, KAIST

NCBI tax ID(s): 1218084 (strain), 311230 (species)

SI-ID 232861

KCTC 12388, LMG 23368, NBRC 100964, DSM 17804, CIP 109196, CCUG 54786

Other strains from Paraburkholderia terrae

P. terrae BS001, DSM 106270

Section

Paraburkholderia terrae KMY02 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from soil.

Gram-negative
motile
rod-shaped
aerobe
mesophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Betaproteobacteria*
	Order	*Burkholderiales*
	Family	*Burkholderiaceae*
	Genus	*Paraburkholderia*
	Species	**Paraburkholderia terrae**
	Full Scientific Name (LPSN)	Paraburkholderia terrae (Yang et al. 2006) Sawana et al. 2015

Synonym

Burkholderia terrae

Information on morphological and physiological properties Morphology

[Ref.: #31652]	Gram stain	negative
[Ref.: #123462]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.973

[Ref.: #31652]	Cell length	1.6-2 µm

[Ref.: #31652]	Cell width	0.6-0.8 µm

[Ref.: #31652]	Cell shape	rod-shaped
[Ref.: #123462]	Cell shape	rod-shaped

[Ref.: #31652]	Motility	yes
[Ref.: #123462]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %92.816

[Ref.: #7195]

Incubation period

1-2 days

[Ref.: #31652]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7195]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #7195]

Culture medium growth

[Ref.: #7195]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7195]

Culture medium composition

expand / minimize

[Ref.: #41986]

Culture medium

MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromati

[Ref.: #41986]

Culture medium growth

[Ref.: #41986]

Culture medium composition

expand / minimize

[Ref.: #123462]

Culture medium

CIP Medium 566

[Ref.: #123462]

Culture medium growth

[Ref.: #123462]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #7195]	growth	28 °C
[Ref.: #31652]	growth	25-30 °C
[Ref.: #31652]	optimum	25-30 °C
[Ref.: #41986]	growth	25 °C
[Ref.: #60331]	growth	30 °C

[Ref.: #7195]	Temperature range	mesophilic
[Ref.: #31652]	Temperature range	mesophilic
[Ref.: #41986]	Temperature range	mesophilic
[Ref.: #60331]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31652]			optimum	7
[Ref.: #31652]			growth	7

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31652]	Oxygen tolerance	aerobe
[Ref.: #60331]	Oxygen tolerance	aerobe
[Ref.: #123462]	Oxygen tolerance	obligate aerobe

[Ref.: #31652]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.983

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31652]		NaCl		growth	0-3	%
[Ref.: #31652]		NaCl		optimum	0-1.5	%

[Ref.: #31652]

Observation

aggregates in chains

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31652]	2-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #31652]	3-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #31652]	5-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #31652]	arabinose ChEBI	+	carbon source
[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.: #31652]	decanoate ChEBI	+	carbon source
[Ref.: #68369]	decanoate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #31652]	fucose ChEBI	+	carbon source
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #31652]	gluconate ChEBI	+	carbon source
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #31652]	glucose ChEBI	+	carbon source
[Ref.: #31652]	histidine ChEBI	+	carbon source
[Ref.: #68369]	L-arabinose ChEBI	+	assimilation	* from API 20NE
[Ref.: #31652]	lactate ChEBI	+	carbon source
[Ref.: #31652]	malate ChEBI	+	carbon source
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #31652]	mannitol ChEBI	+	carbon source
[Ref.: #31652]	mannose ChEBI	+	carbon source
[Ref.: #31652]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #68369]	N-acetylglucosamine ChEBI	+	assimilation	* from API 20NE
[Ref.: #123462]	nitrate ChEBI	-	reduction
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #123462]	nitrite ChEBI	-	reduction
[Ref.: #31652]	phenylacetate ChEBI	+	carbon source
[Ref.: #31652]	proline ChEBI	+	carbon source
[Ref.: #31652]	rhamnose ChEBI	+	carbon source
[Ref.: #31652]	ribose ChEBI	+	carbon source
[Ref.: #31652]	serine ChEBI	+	carbon source
[Ref.: #31652]	sorbitol ChEBI	+	carbon source
[Ref.: #31652]	suberic acid ChEBI	+	carbon source
[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.: #123462]		indole ChEBI	no
[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.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #123462]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	+	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	+	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	-	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68382]	beta-galactosidase	+	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym
[Ref.: #68369]	beta-glucosidase	-	3.2.1.21	* from API 20NE
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #7195]	catalase	+	1.11.1.6
[Ref.: #31652]	catalase	+	1.11.1.6
[Ref.: #123462]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #31652]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #7195]	cytochrome-c oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	+		* from API zym
[Ref.: #123462]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #123462]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #123462]	oxidase	+
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #31652]	urease	+	3.5.1.5
[Ref.: #123462]	urease	-	3.5.1.5
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

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.: #7195]	23793	-	-	-	-	-	-	-	+	+	+	+	+	+	-	+	+	+/-	+	+/-	+	+

API® zym:

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

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #123462]	11712	-	+	+	+	+	+	-	-	-	+	+	+	+	+	-	-	+	-	-	-

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

[Ref.: #7195]	Sample type/isolated from	soil
[Ref.: #7195]	Geographic location (country and/or sea, region)	Daejeon city
[Ref.: #7195]	Country	Republic of Korea
[Ref.: #7195]	Country ISO 3 Code	KOR
[Ref.: #7195]	Continent	Asia

[Ref.: #60331]	Sample type/isolated from	Soil
[Ref.: #60331]	Country	Republic of Korea
[Ref.: #60331]	Country ISO 3 Code	KOR
[Ref.: #60331]	Continent	Asia

[Ref.: #123462]	Sample type/isolated from	Environment, Forest soil
[Ref.: #123462]	Geographic location (country and/or sea, region)	Daejeon
[Ref.: #123462]	Country	Republic of Korea
[Ref.: #123462]	Country ISO 3 Code	KOR
[Ref.: #123462]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB681300 (>99% sequence identity) for Paraburkholderia from Microbeatlas

Aquatic Samples	205
Soil Samples	2594
Animal Samples	165
Plant Samples	435
Total Samples	3399

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

[Ref.: #7195]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #123462]	Biosafety level	1	Risk group (French classification)

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.: #7195]	Burkholderia terrae gene for 16S rRNA, partial sequence, strain: KMY02	AB201285	1470	ENA	311230 tax ID
[Ref.: #20218]	Burkholderia terrae gene for 16S rRNA, partial sequence, strain: NBRC 100964	AB681300	1456	ENA	311230 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Paraburkholderia terrae DSM 17804	GCA_002902925	complete	GenBank	311230 tax ID	*
[Ref.: #66792]	Paraburkholderia terrae NBRC 100964	GCA_000739835	contig	GenBank	1218084 tax ID	*
[Ref.: #66792]	Burkholderia terrae NBRC 100964	1218084.3	wgs	PATRIC	1218084 tax ID	*
[Ref.: #66792]	Paraburkholderia terrae strain DSM 17804	311230.14	complete	PATRIC	311230 tax ID	*
[Ref.: #66792]	Paraburkholderia terrae NBRC 100964	2600255059	draft	JGI IMG/M	1218084 tax ID	*
[Ref.: #66792]	Paraburkholderia terrae DSM 17804	2811994987	complete	JGI IMG/M	311230 tax ID	*

[Ref.: #31652]

GC-content

62 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Paraburkholderia terrae DSM 17804 NCBI: GCA_002902925.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Paraburkholderia terrae DSM 17804 NCBI: GCA_002902925.1
[Ref.: #69480]	flagellated	no	81.967	no
[Ref.: #69480]	gram-positive	no	98.054	yes
[Ref.: #69480]	anaerobic	no	98.804	no
[Ref.: #69480]	aerobic	yes	92.559	yes
[Ref.: #69480]	halophile	no	91.975	no
[Ref.: #69480]	spore-forming	no	93.496	no
[Ref.: #69480]	thermophile	no	99.56	no
[Ref.: #69480]	glucose-util	yes	90.142	yes
[Ref.: #69480]	motile	yes	87.809	yes
[Ref.: #69480]	glucose-ferment	no	89.829	yes

Availability in culture collections External links

[Ref.: #7195]

Culture collection no.

DSM 17804, KCTC 12388, NBRC 100964, CCUG 54786, CIP 109196

[Ref.: #71613]

SI-ID 232861

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	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	*
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	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	*
	The Response of Paraburkholderia terrae Strains to Two Soil Fungi and the Potential Role of Oxalate.	Haq IU, Zwahlen RD, Yang P, van Elsas JD	Front Microbiol	10.3389/fmicb.2018.00989	2018	*

References

#7195

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17804

#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 )

#31652

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 #27934 (see below)

#41986 ; Curators of the CIP;
#60331 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 54786

#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 .

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#71613

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-ID232861.1 )

#123462 Collection of Institut Pasteur ; Curators of the CIP; CIP 109196

#27934

IJSEM 453 2006 ( DOI 10.1099/ijs.0.63968-0 , PubMed 16449457 )

* These data were automatically processed and therefore are not curated

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Paraburkholderia terrae DSM 17804

Paraburkholderia terrae DSM 17804

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