Pandoraea pulmonicola (DSM 16583, CCM 4979, CCUG 38759)

Name: Pandoraea pulmonicola (DSM 16583, CCM 4979, CCUG 38759)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 2058

Type strain

Strain Designation FC 330, R-650

Culture col. no. DSM 16583 CCM 4979 CCUG 38759 CIP 106625 LMG 18106 2 more

NCBI tax ID(s) 93221

Special Collections DSMZ CCUG CIP Literature strains

History <- CCM <- CCUG <- P. Vandamme <- D. Speert CIP <- 2000, CCUG <- 1997, P. Vandamme, LMG, Ghent, Belgium: strain R-650 <- D.Speert

Links

Pandoraea pulmonicola FC 330 is an obligate aerobe, Gram-negative, motile bacterium that was isolated from sputum from cystic fibrosis patient.

Gram-negative motile obligate aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 10813

LMG 18106,ATCC BAA-62,CCUG 38759,NCTC 13159,CIP 106625,DSM 16583,CCM 4979

@ref 20215

Last LPSN update 2026-02-09 11:18:14

Domain Bacteria

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Burkholderiaceae

Genus Pandoraea

Species Pandoraea pulmonicola

Full scientific name Pandoraea pulmonicola Coenye et al. 2000

BacDive ID	Other strains from **Pandoraea pulmonicola** (2)	Type strain
149951	P. pulmonicola CCUG 38745, LMG 18108
149975	P. pulmonicola CCUG 38779, LMG 18107

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
23367	negative	1.5-4.0 µm	0.5-0.7 µm
122046	negative			rod-shaped
125438	negative				98.5

Pigmentation

@ref	Production	Name
122046		Pyocyanin

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
6516	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
42008	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
122046	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
6516	positive	growth	37
23367	positive	growth	30-37
23367	positive	maximum	42
42008	positive	growth	37
122046	positive	growth	25-41
122046	negative	growth	5
122046	negative	growth	10

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
122046	obligate aerobe
125439	aerobe	92.1

Spore formation

@ref	Spore formation	Confidence
23367
125438		90.649

Halophily

@ref	Salt	Growth	Tested relation	Concentration
23367	NaCl		growth	>3.0 %
122046	NaCl	positive	growth	0-4 %
122046	NaCl		growth	6 %
122046	NaCl		growth	8 %
122046	NaCl		growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
23367	17128 ChEBI	adipate	-	growth
23367	16947 ChEBI	citrate	+	growth
122046	16947 ChEBI	citrate	+	carbon source
23367	17634 ChEBI	D-glucose	+	growth
23367	27689 ChEBI	decanoate	+	growth
23367	4853 ChEBI	esculin	-	hydrolysis
122046	4853 ChEBI	esculin	-	hydrolysis
23367	24996 ChEBI	lactate	+	growth
23367	17306 ChEBI	maltose	-	growth
23367	17632 ChEBI	nitrate	-	reduction
122046	17632 ChEBI	nitrate	-	reduction
122046	17632 ChEBI	nitrate	-	respiration
23367	16301 ChEBI	nitrite	-	reduction
122046	16301 ChEBI	nitrite	-	reduction
23367	17992 ChEBI	sucrose	-	growth
23367	27897 ChEBI	tryptophan	-	energy source
23367	53426 ChEBI	tween 80	-	hydrolysis

Metabolite production

@ref	Chebi-ID	Metabolite	Production
23367	35581 ChEBI	indole
122046	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
23367	35581 ChEBI	indole	-

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
122046	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
23367	amylase	-
122046	amylase	-
23367	arginine dihydrolase	-	3.5.3.6
68382	beta-galactosidase	-	3.2.1.23	from API zym
122046	beta-galactosidase	-	3.2.1.23
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
122046	caseinase	-	3.4.21.50
122046	catalase	+	1.11.1.6
23367	cystine arylamidase	-	3.4.11.3
68382	cystine arylamidase	-	3.4.11.3	from API zym
23367	cytochrome oxidase	+	1.9.3.1
23367	DNase	-
23367	esterase (C 4)	-
68382	esterase (C 4)	+		from API zym
23367	esterase lipase (C 8)	-
68382	esterase lipase (C 8)	-		from API zym
122046	gelatinase	-
122046	lecithinase	-
68382	leucine arylamidase	-	3.4.11.1	from API zym
122046	lipase	-
68382	lipase (C 14)	-		from API zym
122046	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
122046	ornithine decarboxylase	-	4.1.1.17
122046	oxidase	+
23367	phosphoamidase	+	3.9.1.1
122046	protease	-
68382	trypsin	-	3.4.21.4	from API zym
23367	tryptophan deaminase	-	4.1.99.1
122046	tryptophan deaminase	-
122046	tween esterase	-
23367	urease	-	3.5.1.5
122046	urease	-	3.5.1.5
68382	valine arylamidase	-		from API zym

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
122046	-	+	+	-	-	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-

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
122046	not determinedn.d.	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	+	-	-	+	+	+	+	+	-	+	+	+	-	-	+	-	+	+	+	+	-	+	+	+	+	+	-	-	-	+	-	+	+	-	+	+	+	-	+	-	-	-	-	-	+	+	+	+	+	+	+	-	+	+	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Infection	#Disease	#Cystic fibrosis
#Infection	#Patient	-
#Host Body Product	#Fluids	#Sputum

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
6516	sputum from cystic fibrosis patient	Canada	CAN	North America
54444	Human sputum,cystic fibrosis	Canada	CAN	North America
122046	Human, Sputum	Canada	CAN	North America

Taxonmaps

69479

Global distribution of 16S sequence AY268173 (>99% sequence identity) for Pandoraea from Microbeatlas

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

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6516	2	Risk group (German classification) According to TRBA 466
122046	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	Pandoraea pulmonicola DSM 16583	complete		93221.4		93221	98.6
66792	ASM81510v2 assembly for Pandoraea pulmonicola DSM 16583	complete	GCA_000815105	93221.13	2982728385	93221	96.71

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Pandoraea pulmonicola strain CCUG 38759 16S ribosomal RNA gene, partial sequence	AY268173	1461		93221
23367	Pandoraea pulmonicola 16S ribosomal RNA gene, partial sequence	AF139175	1485		93221

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pandoraea pulmonicola DSM 16583
PATRIC: 93221.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	87.30	no
125439	motility	BacteriaNetⓘ	yes	70.10	no
125439	gram_stain	BacteriaNetⓘ	negative	88.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	92.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pandoraea pulmonicola DSM 16583
NCBI: GCA_000815105.2

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.50	no
125438	anaerobic	anaerobicⓘ	no	98.20	yes
125438	aerobic	aerobicⓘ	yes	84.92	yes
125438	spore-forming	spore-formingⓘ	no	90.65	no
125438	thermophilic	thermophileⓘ	no	97.48	yes
125438	flagellated	motile2+ⓘ	yes	84.02	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	The Small RNA NcS25 Regulates Biological Amine-Transporting Outer Membrane Porin BCAL3473 in Burkholderia cenocepacia.	Sass AM, Coenye T.	mSphere	10.1128/msphere.00083-23	2023
	Epidemic spread of Pandoraea pulmonicola in a cystic fibrosis center.	Degand N, Lotte R, Deconde Le Butor C, Segonds C, Thouverez M, Ferroni A, Vallier C, Mely L, Carrere J.	BMC Infect Dis	10.1186/s12879-015-1327-8	2015
Phylogeny	Matrix-assisted laser desorption ionization-time of flight mass spectrometry for identification of nonfermenting gram-negative bacilli isolated from cystic fibrosis patients.	Degand N, Carbonnelle E, Dauphin B, Beretti JL, Le Bourgeois M, Sermet-Gaudelus I, Segonds C, Berche P, Nassif X, Ferroni A.	J Clin Microbiol	10.1128/jcm.00569-08	2008
	Burkholderia thailandensis E125 harbors a temperate bacteriophage specific for Burkholderia mallei.	Woods DE, Jeddeloh JA, Fritz DL, DeShazer D.	J Bacteriol	10.1128/jb.184.14.4003-4017.2002	2002
Phylogeny	Genomic diversity of Burkholderia pseudomallei clinical isolates: subtractive hybridization reveals a Burkholderia mallei-specific prophage in B. pseudomallei 1026b.	DeShazer D.	J Bacteriol	10.1128/jb.186.12.3938-3950.2004	2004
Phylogeny	Description of Pandoraea gen. nov. with Pandoraea apista sp. nov., Pandoraea pulmonicola sp. nov., Pandoraea pnomenusa sp. nov., Pandoraea sputorum sp. nov. and Pandoraea norimbergensis comb. nov.	Coenye T, Falsen E, Hoste B, Ohlen M, Goris J, Govan JR, Gillis M, Vandamme P	Int J Syst Evol Microbiol	10.1099/00207713-50-2-887	2000

References

#6516	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16583
#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 )
#23367	T Coenye, E Falsen, B Hoste, M Ohlén, J Goris, J R Govan, M Gillis, P Vandamme: Description of Pandoraea gen. nov. with Pandoraea apista sp. nov., Pandoraea pulmonicola sp. nov., Pandoraea pnomenusa sp. nov., Pandoraea sputorum sp. nov. and Pandoraea norimbergensis comb. nov.. IJSEM 50: 887 - 899 2000 ( DOI 10.1099/00207713-50-2-887 , PubMed 10758901 )
#42008	; Curators of the CIP;
#54444	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 38759
#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) .
#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 .
#122046	Collection of Institut Pasteur ; Curators of the CIP; CIP 106625
#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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Pandoraea pulmonicola (DSM 16583, CCM 4979, CCUG 38759)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API zym

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000815105

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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