Name: Alkalibacterium subtropicum 024-2
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 2247

Type strain:

Species: Alkalibacterium subtropicum

Strain Designation: 024-2

Culture col. no.: DSM 23664, NBRC 107172

Strain history: <- M. Ishikawa and K. Yamasato, Tokyo University of Agriculture, Dept. of Applied Bio-Science; 024-2

NCBI tax ID(s): 753702 (species)

SI-ID 402338

DSM 23664

Special Collections

DSMZ

Other strains from Alkalibacterium subtropicum

Section

When using BacDive for research please cite our paper

Alkalibacterium subtropicum 024-2 is a mesophilic bacterium that was isolated from decaying marine alga, Galaxaura sp..

mesophilic
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	*Bacillota*
	Class	*Bacilli*
	Order	*Lactobacillales*
	Family	*Carnobacteriaceae*
	Genus	*Alkalibacterium*
	Species	**Alkalibacterium subtropicum**
	Full Scientific Name (LPSN)	Alkalibacterium subtropicum Ishikawa et al. 2011

Information on culture and growth conditions Culture and growth conditions

[Ref.: #17332]

Culture medium

BOGORIELLA MEDIUM (DSMZ Medium 785)

[Ref.: #17332]

Culture medium growth

[Ref.: #17332]

Culture medium link

Medium recipe at MediaDive

[Ref.: #17332]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #17332]			growth	30 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #17332]	Murein short key	A21.04
[Ref.: #17332]	Murein types	A4ß L-Orn-D-Asp

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

[Ref.: #17332]	Sample type/isolated from	decaying marine alga, Galaxaura sp.
[Ref.: #17332]	Host species	Galaxaura
[Ref.: #17332]	Geographic location (country and/or sea, region)	Okinawa Prefecture, Ouijima Islet, foreshore site
[Ref.: #17332]	Country	Japan
[Ref.: #17332]	Country ISO 3 Code	JPN
[Ref.: #17332]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Host	#Algae	#Red algae
#Host	#Plants	#Decomposing plant

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB555562 (>99% sequence identity) for Alkalibacterium from Microbeatlas

Aquatic Samples	167
Soil Samples	21
Animal Samples	226
Plant Samples	2
Total Samples	416

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

[Ref.: #17332]

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.: #17332]	Alkalibacterium subtropicum gene for 16S rRNA, partial sequence, strain: O24-2	AB555562	1507	GenBank ENA	753702 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Alkalibacterium subtropicum DSM 23664	GCA_900112455	scaffold	GenBank ENA	753702 tax ID	*
[Ref.: #66792]	Alkalibacterium subtropicum strain DSM 23664	753702.4	wgs	PATRIC	753702 tax ID	*
[Ref.: #66792]	Alkalibacterium subtropicum DSM 23664	2616644818	draft	JGI IMG/M	753702 tax ID	*

[Ref.: #17332]

GC-content

43.7 mol%

high performance liquid chromatography (HPLC)

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: Alkalibacterium subtropicum DSM 23664 NCBI: GCA_900112455.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	83.472	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	81.384	no
[Ref.: #125438]	aerobic	aerobicⓘ	no	75.162	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	67.776	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	94.257	no
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	63.857	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Alkalibacterium subtropicum DSM 23664 NCBI: GCA_900112455
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	yes	56.8
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	63.8
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	variable	87.2
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	facultative anaerobe	75.3

Availability in culture collections External links

[Ref.: #17332]

Culture collection no.

DSM 23664, NBRC 107172

[Ref.: #71806]

SI-ID 402338

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Alkalibacterium subtropicum sp. nov., a slightly halophilic and alkaliphilic marine lactic acid bacterium isolated from decaying marine algae.	Ishikawa M, Nakajima K, Ishizaki S, Kodama K, Okamoto-Kainuma A, Koizumi Y, Yamamoto Y, Yamasato K	Int J Syst Evol Microbiol	10.1099/ijs.0.027953-0	2011	*

References

#17332

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 23664

#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) .

#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 .

#71806

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-ID402338.1 )

#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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Alkalibacterium subtropicum DSM 23664

Alkalibacterium subtropicum DSM 23664

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