Polynucleobacter wuianus (DSM 24008, CIP 111100, QLW-P1FAT50C-4)

Name: Polynucleobacter wuianus (DSM 24008, CIP 111100, QLW-P1FAT50C-4)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 133074

Type strain

Strain Designation QLW-P1FAT50C-4

Culture col. no. DSM 24008 CIP 111100 QLW-P1FAT50C-4

NCBI tax ID(s) 1743168

Special Collections DSMZ CIP Literature strains

Links

Polynucleobacter wuianus QLW-P1FAT50C-4 is an aerobe, chemoorganotroph, mesophilic prokaryote that forms circular colonies and was isolated from shallow acidic freshwater pond.

rod-shaped colony-forming aerobe chemoorganotroph mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 405368

DSM 24008,CIP 111100

@ref 20215

Last LPSN update 2025-12-16 10:01:40

Domain Pseudomonadati

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Burkholderiaceae

Genus Polynucleobacter

Species Polynucleobacter wuianus

Full scientific name Polynucleobacter wuianus Hahn et al. 2017

Morphology

Cell morphology

@ref	Cell length	Cell width	Cell shape	Gram stain	Confidence
25203	0.6-1.7 µm	0.3-0.6 µm	rod-shaped
125438				negative	95.833
125439				negative	99.8
123963			rod-shaped	negative

Colony morphology

@ref	Colony color	Colony shape	Medium used
25203	non-pigmented	circular	nutrient broth soyotone yeast extract (NSY) medium

Multimedia

@ref:	24862
multimedia content:	DSM_24008.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_24008.jpg
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
25203	nutrient broth soyotone yeast extract (NSY) medium
24862	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
24862	NSY-MEDIUM FOR POLYNUCLEOBACTER (DSMZ Medium 1167)	Medium recipe at MediaDive	Name: NSY-MEDIUM FOR POLYNUCLEOBACTER (DSMZ Medium 1167) Composition: Soy peptone 1.0 g/l Nutrient broth 1.0 g/l Yeast extract 1.0 g/l MgSO4 x 7 H2O 0.075 g/l Ca(NO3)2 x 4 H2O 0.043 g/l NaHCO3 0.016 g/l KCl 0.005 g/l K2HPO4 x 3 H2O 0.0037 g/l Na2-EDTA 5e-05 g/l H3BO3 3e-05 g/l CoCl2 x 6 H2O 2e-05 g/l FeSO4 x 7 H2O 2e-05 g/l ZnSO4 x 7 H2O 1e-05 g/l MnCl2 x 4 H2O 3e-06 g/l Na2MoO4 x 2 H2O 3e-06 g/l NiCl2 x 6 H2O 2e-06 g/l CuCl2 x 2 H2O 1e-06 g/l Tap water Distilled water
123963	CIP Medium 566	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
24862	positive	growth	22	psychrophilic
25203		maximum	34	mesophilic
25203	positive	growth	5.0-34.0

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
25203	aerobe
125439	obligate aerobe	99

Nutrition type

25203

Typechemoorganotroph

Spore formation

@ref	Spore formation	Confidence
125438		95.832
125439		99.8

Halophily

@ref	Salt	Growth	Tested relation	Concentration
25203	NaCl	positive	growth	0.0-0.5 %(w/v)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
25203	39150 ChEBI	4-oxopentanoate	+	assimilation
25203	30089 ChEBI	acetate	+	assimilation
25203	35391 ChEBI	aspartate	+	assimilation
25203	17750 ChEBI	betaine	-	assimilation
25203	73706 ChEBI	bromosuccinate	+	assimilation
25203	16947 ChEBI	citrate	-	assimilation
25203	15824 ChEBI	D-fructose	+	assimilation
25203	12936 ChEBI	D-galactose	-	assimilation
25203	18024 ChEBI	D-galacturonic acid	+	assimilation
25203	17634 ChEBI	D-glucose	-	assimilation
25203	62318 ChEBI	D-lyxose	-	assimilation
25203	16024 ChEBI	D-mannose	-	assimilation
25203	17924 ChEBI	D-sorbitol	-	assimilation
25203	29806 ChEBI	fumarate	+	assimilation
25203	29805 ChEBI	glycolate	-	assimilation
25203	36655 ChEBI	glyoxylate	+	assimilation
25203	16977 ChEBI	L-alanine	+	assimilation
25203	17196 ChEBI	L-asparagine	+	assimilation
25203	17561 ChEBI	L-cysteine	+	assimilation
25203	18287 ChEBI	L-fucose	-	assimilation
25203	29985 ChEBI	L-glutamate	+	assimilation
25203	15971 ChEBI	L-histidine	+	assimilation
25203	15603 ChEBI	L-leucine	-	assimilation
25203	17115 ChEBI	L-serine	-	assimilation
25203	25115 ChEBI	malate	+	assimilation
25203	15792 ChEBI	malonate	+	assimilation
25203	30623 ChEBI	oxalate	-	assimilation
25203	16452 ChEBI	oxaloacetate	+	assimilation
25203	17272 ChEBI	propionate	+	assimilation
25203	15361 ChEBI	pyruvate	+	assimilation
25203	30031 ChEBI	succinate	+	assimilation

Enzymes

@ref	Value	Activity	Ec
25203	catalase	+	1.11.1.6
25203	cytochrome oxidase	+	1.9.3.1

Fatty acid profile

Metadata FA analysis

@ref

25203

Fatty acid	Percentage	ECL
C16:1ω7c	40.8
C18:1ω7c	20.4
C16:0	18.6
C16:1 iso I / C14:0 3OH	7.1
11-Methyl C18:1ω7c	4.6
C12:0	3.3
C16:0 2OH	1.5
C19:1ω6c / Unknown	1.2	19
C18:0	0.5
C16:1ω5c	0.4
C14:0	0.3
C12:0 2OH	0.3
C15:0	0.2

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Freshwater
#Environmental	#Aquatic	#Pond (small)
#Condition	#Acidic	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude	Sampling date	Enrichment culture	Isolation procedure	Isolation date
24862	shallow acidic freshwater pond	Alps, Pond-1 (47° 44' 23.37'' N 13° 18' 6.03'' E) 1300 meters above sea level	Austria	AUT	Europe	47.7398	13.3017 47.7398/13.3017
25203	acidic Pond-1 (small, shallow (max depth <1 m) natural freshwater pond)							October 2003	nutrient broth soyotone yeast extract (NSY) medium	filtration-acclimatization method
123963	Environment, Acidic freshwater pond		Austria	AUT	Europe						2003-10-01

Taxonmaps

69479

Global distribution of 16S sequence AJ879778 (>99% sequence identity) for Polynucleobacter from Microbeatlas

Aquatic Samples	34169
Soil Samples	1815
Animal Samples	6310
Plant Samples	555
Total Samples	42849

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
24862	1	Risk group (German classification)
123963	1	Risk group (French classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM165972v1 assembly for Polynucleobacter wuianus QLW-P1FAT50C-4	chromosome	GCA_001659725	1743168.3	2687453598	1743168	82.51

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
24862	Polynucleobacter necessarius subsp. asymbioticus partial 16S rRNA gene and ITS1, strain QLW-P1FAT50C-4	AJ879778	2003		1743168

GC content

@ref	GC-content (mol%)	Method
25203	44.9	genome sequence analysis
24862	44.9	sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Polynucleobacter wuianus QLW-P1FAT50C-4
IMG: 2687453598

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.80	no
125439	motility	BacteriaNetⓘ	yes	85.60	no
125439	gram_stain	BacteriaNetⓘ	negative	99.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.00	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Polynucleobacter sp. QLW-P1FAT50C-4
PATRIC: 1743168.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	95.83	no
125438	anaerobic	anaerobicⓘ	no	91.83	yes
125438	spore-forming	spore-formingⓘ	no	95.83	no
125438	aerobic	aerobicⓘ	yes	86.76	yes
125438	thermophilic	thermophileⓘ	no	95.41	yes
125438	flagellated	motile2+ⓘ	no	81.33	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Polynucleobacter wuianus sp. nov., a free-living freshwater bacterium affiliated with the cryptic species complex PnecC.	Hahn MW, Huymann LR, Koll U, Schmidt J, Lang E, Hoetzinger M	Int J Syst Evol Microbiol	10.1099/ijsem.0.001637	2017

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 )
#24862	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 24008
#25203	M. W. H. Hahn, L. R.,Koll, U.,Schmidt, J.,Lang, E.,Hoetzinger, M.: Polynucleobacter wuianus sp. nov., a free-living freshwater bacterium affiliated with the cryptic species complex PnecC. IJSEM 67: 379 - 385 2017 ( DOI 10.1099/ijsem.0.001637 , PubMed 27902302 )
#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) .
#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 .
#123963	Collection of Institut Pasteur ; Curators of the CIP; CIP 111100
#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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Polynucleobacter wuianus (DSM 24008, CIP 111100, QLW-P1FAT50C-4)

Name and taxonomic classification