Name: Abditibacterium utsteinense R-68213
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 159652

Type strain:

Species: Abditibacterium utsteinense

Strain Designation: R-68213

Culture col. no.: DSM 105287, LMG 29911

Strain history: <- A. Willems, Lab. Microbiology, Ghent Univ., Belgium <- G. Tahon, Laboratory of Microbiology, Ghent University, Gent, Belgium

NCBI tax ID(s): 1960156 (species)

SI-ID 404846

DSM 105287

Special Collections

DSMZ

Section

When using BacDive for research please cite our paper

Abditibacterium utsteinense R-68213 is a psychrophilic bacterium that was isolated from Top surface sample consisting of weathered granite parent material, elevation 1382 m.

psychrophilic
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	*Abditibacteriota*
	Class	*Abditibacteriia*
	Order	*Abditibacteriales*
	Family	*Abditibacteriaceae*
	Genus	*Abditibacterium*
	Species	**Abditibacterium utsteinense**
	Full Scientific Name (LPSN)	Abditibacterium utsteinense Tahon et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #125439]	Gram stain	negative Confidence in %99.7

Multimedia content

[Ref.: #66502]

Caption:

DSM 105287 on medium 830 at 20 °C

[Ref.: #66502]

Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #66502]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #66502]

Culture medium growth

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Culture medium link

Medium recipe at MediaDive

[Ref.: #66502]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #66502]			growth	20 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #125439]

Oxygen tolerance

obligate aerobe Confidence in %99.6

[Ref.: #125439]

Ability of spore formation

no Confidence in %98

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

[Ref.: #66502]	Sample type/isolated from	Top surface sample consisting of weathered granite parent material, elevation 1382 m
[Ref.: #66502]	Geographic location (country and/or sea, region)	East Antarctica, Utsteinen, near Belgian Princess Elisabeth Station (71° 57' S, 23° 20' E)
[Ref.: #66502]	Country	Antarctica
[Ref.: #66502]	Country ISO 3 Code	ATA
[Ref.: #66502]	Continent	Australia and Oceania
[Ref.: #66502]	Geographic location	-71.9465°/23.3457°
* marker position based on {}

Isolation sources categories

#Climate	#Cold	#Alpine
#Environmental	#Terrestrial	#Geologic

What are isolation sources categories?

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.: #66502]	Abditibacterium utsteinense strain R-68213 16S ribosomal RNA gene, partial sequence	KY386500	1473	GenBank ENA	1960156 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Abditibacterium utsteinense LMG 29911	GCA_002973605	contig	GenBank ENA	1960156 tax ID	*
[Ref.: #66792]	Abditibacterium utsteinense strain LMG 29911	1960156.3	wgs	PATRIC	1960156 tax ID	*

[Ref.: #66502]

GC-content

54.27 mol%

sequence analysis

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: Abditibacterium utsteinense strain LMG 29911 PATRIC: 1960156.3
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	79.348	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	86.284	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	73.54	no
[Ref.: #125438]	aerobic	aerobicⓘ	yes	71.009	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	89.465	no
[Ref.: #125438]	motile2+	flagellatedⓘ	no	75.712	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Abditibacterium utsteinense LMG 29911 NCBI: GCA_002973605
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	98
[Ref.: #125439]	BacteriaNet	motilityⓘ	no	68.8
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	negative	99.7
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate aerobe	99.6

Availability in culture collections External links

[Ref.: #66502]

Culture collection no.

DSM 105287, LMG 29911

[Ref.: #112126]

SI-ID 404846

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Abditibacterium utsteinense sp. nov., the first cultivated member of candidate phylum FBP, isolated from ice-free Antarctic soil samples.	Tahon G, Tytgat B, Lebbe L, Carlier A, Willems A	Syst Appl Microbiol	10.1016/j.syapm.2018.01.009	2018	*

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 )

#66502

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 105287

#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) .

#112126

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-ID404846.1 )

#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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Abditibacterium utsteinense strain LMG 29911

Abditibacterium utsteinense LMG 29911

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