Name: Polynucleobacter brandtiae UB-Domo-W1
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 169978

Type strain:

Species: Polynucleobacter brandtiae

Strain Designation: UB-Domo-W1

Culture col. no.: DSM 103491, JCM 32562, CIP 111598

Strain history: <- M. Hahn; <- Ulrike Brandt (Koll), University of Innsbruck, Research Institute for Limnology, Austria; UB-Domo-W1

NCBI tax ID(s): 1938816 (species)

SI-ID 401335

DSM 103491

Special Collections

Section

When using BacDive for research please cite our paper

Polynucleobacter brandtiae UB-Domo-W1 is a bacterium that was isolated from Lake Domo.

16S sequence
Bacteria
genome sequence

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

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Betaproteobacteria*
	Order	*Burkholderiales*
	Family	*Burkholderiaceae*
	Genus	*Polynucleobacter*
	Species	**Polynucleobacter brandtiae**
	Full Scientific Name (LPSN)	Polynucleobacter brandtiae Hahn et al. 2022

Information on morphological and physiological properties Morphology

[Ref.: #125438]	Gram stain	negative Confidence in %95.833
[Ref.: #125439]	Gram stain	negative Confidence in %98.2

Multimedia content

[Ref.: #124484]

Caption:

cells of DSM 103491 on medium 830 at 15 °C

[Ref.: #124484]

Intellectual property rights:

Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH

Information on physiology and metabolism Physiology and metabolism

[Ref.: #125439]

Oxygen tolerance

obligate aerobe Confidence in %98.9

[Ref.: #125439]	Ability of spore formation	no Confidence in %98.7
[Ref.: #125438]	Ability of spore formation	no Confidence in %94.79

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

[Ref.: #124484]	Sample type/isolated from	Lake Domo
[Ref.: #124484]	Geographic location (country and/or sea, region)	Byers Peninsula, Livingston Island
[Ref.: #124484]	Country	Antarctica
[Ref.: #124484]	Country ISO 3 Code	ATA
[Ref.: #124484]	Continent	Australia and Oceania
[Ref.: #124484]	Geographic location	62.6500°/60.9800°
* marker position based on {}

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.: #20215]	Polynucleobacter brandtiae strain UB-Domo-W1 16S ribosomal RNA gene, partial sequence	MK926443	1537	GenBank ENA	1938816 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Polynucleobacter brandtiae UB-Domo-W1	GCA_002797575	contig	GenBank ENA	1938816 tax ID	*

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

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Polynucleobacter brandtiae UB-Domo-W1 NCBI: GCA_002797575.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	95.833	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	92.849	no
[Ref.: #125438]	aerobic	aerobicⓘ	yes	85.25	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	94.79	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	96.113	no
[Ref.: #125438]	motile2+	flagellatedⓘ	no	77.814	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Polynucleobacter brandtiae UB-Domo-W1 NCBI: GCA_002797575
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	98.7
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	63.7
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	negative	98.2
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate aerobe	98.9

Availability in culture collections External links

[Ref.: #20215]

Culture collection no.

DSM 103491, JCM 32562, CIP 111598

[Ref.: #115927]

SI-ID 401335

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 )

#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) .

#115927

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-ID401335.1 )

#124484

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 103491

#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 .

* These data were automatically processed and therefore are not curated

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