Name: Pandoraea pnomenusa DSM 100868
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 158043

Type strain:

Species: Pandoraea pnomenusa

Culture col. no.: DSM 100868, RB 38

Strain history: <- R. Ee, Univ. of Malaya, Kuala Lumpur, Malaysia; RB38

NCBI tax ID(s): 93220 (species)

SI-ID 405334

DSM 100868

Special Collections

DSMZ

Other strains from Pandoraea pnomenusa

Section

Pandoraea pnomenusa DSM 100868 is a bacterium that was isolated from Soil sample of former municipal landfill site in Ayer Hitam.

16S sequence
Bacteria

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	*Pandoraea*
	Species	**Pandoraea pnomenusa**
	Full Scientific Name (LPSN)	Pandoraea pnomenusa Coenye et al. 2000

Information on culture and growth conditions Culture and growth conditions

[Ref.: #64617]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #64617]

Culture medium growth

[Ref.: #64617]

Culture medium link

Medium recipe at MediaDive

[Ref.: #64617]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #64617]			growth	30 °C

Information on physiology and metabolism Physiology and metabolism

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* 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.: #68369]	decanoate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE
[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.: #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.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68369]	beta-glucosidase	-	3.2.1.21	* from API 20NE
[Ref.: #68369]	cytochrome oxidase	-	1.9.3.1	* from API 20NE
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE

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.: #64617]	24781	+	-	-	-	-	-	-	-	+/-	-	-	-	-	-	+	+	+/-	+	+	+	-
[Ref.: #64617]	24255	+	-	-	-	-	-	-	-	+/-	-	-	-	-	-	+	+	+/-	+	+	+	not determinedn.d.

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

[Ref.: #64617]	Sample type/isolated from	Soil sample of former municipal landfill site in Ayer Hitam
[Ref.: #64617]	Geographic location (country and/or sea, region)	Puchong
[Ref.: #64617]	Country	Malaysia
[Ref.: #64617]	Country ISO 3 Code	MYS
[Ref.: #64617]	Continent	Asia
[Ref.: #64617]	Geographic location	3.0034°/101.6590°
* marker position based on {}

Isolation sources categories

#Engineered	#Waste	#Landfill
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KJ507404 (>99% sequence identity) for Pandoraea from Microbeatlas

Aquatic Samples	4192
Soil Samples	6943
Animal Samples	3605
Plant Samples	5843
Total Samples	20583

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

[Ref.: #64617]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #64617]	Pandoraea pnomenusa strain RB38 16S ribosomal RNA gene, partial sequence	KJ507404	1395	GenBank ENA	93220 tax ID

Availability in culture collections External links

[Ref.: #64617]

Culture collection no.

DSM 100868, RB 38

[Ref.: #110887]

SI-ID 405334

Literature:

Topic	Title	Authors	Journal	DOI	Year
Genetics	Complete genome of Pandoraea pnomenusa RB-38, an oxalotrophic bacterium isolated from municipal solid waste landfill site.	Lim YL, Ee R, Yong D, Tee KK, Yin WF, Chan KG	J Biotechnol	10.1016/j.jbiotec.2015.09.018	2015	*
Genetics	Complete genome sequencing of Pandoraea pnomenusa RB38 and Molecular Characterization of Its N-acyl homoserine lactone synthase gene ppnI.	Lim YL, Ee R, How KY, Lee SK, Yong D, Tee KK, Yin WF, Chan KG	PeerJ	10.7717/peerj.1225	2015	*
Metabolism	Quorum sensing activity in Pandoraea pnomenusa RB38.	Ee R, Lim YL, Kin LX, Yin WF, Chan KG	Sensors (Basel)	10.3390/s140610177	2014	*

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 )

#64617

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 100868

#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 .

#110887

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-ID405334.1 )

* These data were automatically processed and therefore are not curated

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