Tuberibacillus calidus 607 | Type strain | DSM 17572, JCM 13397, CIP 109487 | BacDiveID:14406

Strain identifier

BacDive ID: 14406

Type strain:

Species: Tuberibacillus calidus

Strain Designation: 607

Culture col. no.: DSM 17572, JCM 13397, CIP 109487

Strain history: A. Nakamura 607.

NCBI tax ID(s): 1123405 (strain), 340097 (species)

SI-ID 297358

DSM 17572, JCM 13397, CIP 109487

Special Collections

Section

Tuberibacillus calidus 607 is a spore-forming bacterium that was isolated from compost pile.

spore-forming
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacillota*
	Class	*Bacilli*
	Order	*Caryophanales*
	Family	*Sporolactobacillaceae*
	Genus	*Tuberibacillus*
	Species	**Tuberibacillus calidus**
	Full Scientific Name (LPSN)	Tuberibacillus calidus Hatayama et al. 2006

Information on morphological and physiological properties Morphology

Multimedia content

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Information on culture and growth conditions Culture and growth conditions

Culture medium

CYC-MEDIUM (modified following Cross and Attwell,1973) (DSMZ Medium 550)

Culture medium growth

Culture medium link

Medium recipe at MediaDive

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #7060]			growth	50 °C
[Ref.: #67770]			growth	50 °C

Information on physiology and metabolism Physiology and metabolism

Ability of spore formation

yes Confidence in %97

Observation

quinones: MK-7

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

[Ref.: #7060]	Sample type/isolated from	compost pile
[Ref.: #7060]	Geographic location (country and/or sea, region)	Okinawa Prefecture
[Ref.: #7060]	Country	Japan
[Ref.: #7060]	Country ISO 3 Code	JPN
[Ref.: #7060]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Compost pile undergoing a hyperthermal composting process in Okinawa
[Ref.: #67770]	Country	Japan
[Ref.: #67770]	Country ISO 3 Code	JPN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered

#Biodegradation

#Composting

What are isolation sources categories?

Global distribution of 16S sequence AB231786 (>99% sequence identity) for Tuberibacillus calidus subclade from Microbeatlas

Aquatic Samples	687
Soil Samples	3821
Animal Samples	1306
Plant Samples	1036
Total Samples	6850

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

Biosafety level

1

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.: #7060]	Tuberibacillus calidus genes for 16S rRNA, ITS1, 23S rRNA, partial and complete sequence, strain: 607	AB231789	351	GenBank ENA	340097 tax ID
[Ref.: #67770]	Tuberibacillus calidus genes for 16S rRNA, partial sequence, strain: 607	AB231786	1486	GenBank ENA	340097 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Tuberibacillus calidus DSM 17572	GCA_000430685	scaffold	GenBank ENA	1123405 tax ID
[Ref.: #66792]	Tuberibacillus calidus DSM 17572	1123405.3	wgs	PATRIC	1123405 tax ID	*
[Ref.: #66792]	Tuberibacillus calidus DSM 17572	2524614856	draft	JGI IMG/M	1123405 tax ID	*

[Ref.: #7060]	GC-content	46-47.3 mol%
[Ref.: #67770]	GC-content	46 mol%	high performance liquid chromatography (HPLC)

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Tuberibacillus calidus DSM 17572 DSM 17572 NCBI: GCA_000430685.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	97	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Tuberibacillus calidus DSM 17572 PATRIC: 1123405.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	77.118	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	93.551	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	83.728	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	74.456	no
[Ref.: #69480]	thermophilic	thermophileⓘ	yes	51.658	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	76.387	no

Availability in culture collections External links

Culture collection no.

DSM 17572, JCM 13397, CIP 109487

SI-ID 297358

*

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Terrilactibacillus laevilacticus gen. nov., sp. nov., isolated from soil.	Prasirtsak B, Thongchul N, Tolieng V, Tanasupawat S	Int J Syst Evol Microbiol	10.1099/ijsem.0.000954	2016	*
Phylogeny	Tuberibacillus calidus gen. nov., sp. nov., isolated from a compost pile and reclassification of Bacillus naganoensis Tomimura et al. 1990 as Pullulanibacillus naganoensis gen. nov., comb. nov. and Bacillus laevolacticus Andersch et al. 1994 as Sporolactobacillus laevolacticus comb. nov.	Hatayama K, Shoun H, Ueda Y, Nakamura A	Int J Syst Evol Microbiol	10.1099/ijs.0.64303-0	2006	*

References

#7060

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17572

#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) .

#66793

Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#83550

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-ID297358.1 )

* These data were automatically processed and therefore are not curated

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