Name: Parageobacillus caldoxylosilyticus S1812
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 1440

Type strain:

Species: Parageobacillus caldoxylosilyticus

Strain Designation: S1812

Culture col. no.: DSM 12041, ATCC 700356, NBRC 107762

Strain history: <- S. Ahmad, La Trobe Univ.; S1812

NCBI tax ID(s): 1220594 (strain), 81408 (species)

SI-ID 43889

ATCC 700356, DSM 12041, LMG23034, KACC 11366

Special Collections

Other strains from Parageobacillus caldoxylosilyticus

Section

When using BacDive for research please cite our paper

Parageobacillus caldoxylosilyticus S1812 is a spore-forming, thermophilic, Gram-positive bacterium that was isolated from soil.

Gram-positive
motile
rod-shaped
spore-forming
thermophilic
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	*Caryophanales*
	Family	*Bacillaceae*
	Genus	*Parageobacillus*
	Species	**Parageobacillus caldoxylosilyticus**
	Full Scientific Name (LPSN)	Parageobacillus caldoxylosilyticus (Ahmad et al. 2000) Aliyu et al. 2019

	Synonym	"Parageobacillus* caldoxylosilyticus"*
	Synonym	Saccharococcus caldoxylosilyticus
	Synonym	Geobacillus caldoxylosilyticus

Information on morphological and physiological properties Morphology

[Ref.: #23038]	Gram stain	positive

[Ref.: #23038]	Cell length	4.0-6.0 µm

[Ref.: #23038]	Cell width	0.5-1.0 µm

[Ref.: #23038]	Cell shape	rod-shaped

[Ref.: #23038]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #4585]

Culture medium

CASO AGAR (MERCK 105458) (DSMZ Medium 220)

[Ref.: #4585]

Culture medium growth

[Ref.: #4585]

Culture medium link

Medium recipe at MediaDive

[Ref.: #4585]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #4585]	growth	55 °C
[Ref.: #23038]	maximum	70.0 °C
[Ref.: #23038]	minimum	42.0 °C
[Ref.: #23038]	optimum	50.0-65.0 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #23038]	Spore description	oval,terminal,in swollen sporangium
[Ref.: #23038]	Type of spore	spore
[Ref.: #23038]	Ability of spore formation	yes
[Ref.: #125438]	Ability of spore formation	yes Confidence in %91.528

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #23038]	arabinose ChEBI	+	builds acid from
[Ref.: #23038]	casein	+	hydrolysis
[Ref.: #23038]	cellobiose ChEBI	+	builds acid from
[Ref.: #23038]	fructose ChEBI	+	builds acid from
[Ref.: #23038]	galactose ChEBI	+	builds acid from
[Ref.: #23038]	glucose ChEBI	+	builds acid from
[Ref.: #23038]	lactose ChEBI	+	builds acid from
[Ref.: #23038]	maltose ChEBI	+	builds acid from
[Ref.: #23038]	nitrate ChEBI	+	reduction
[Ref.: #23038]	ribose ChEBI	+	builds acid from
[Ref.: #23038]	starch ChEBI	+	hydrolysis
[Ref.: #23038]	sucrose ChEBI	+	builds acid from
[Ref.: #23038]	trehalose ChEBI	+	builds acid from
[Ref.: #23038]	xylose ChEBI	+	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #23038]		acetoin ChEBI	no
[Ref.: #23038]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #23038]		acetoin ChEBI	-

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #23038]		catalase	+	1.11.1.6
[Ref.: #23038]		urease	-	3.5.1.5

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

[Ref.: #4585]	Sample type/isolated from	soil
[Ref.: #4585]	Geographic location (country and/or sea, region)	Melbourne
[Ref.: #4585]	Country	Australia
[Ref.: #4585]	Country ISO 3 Code	AUS
[Ref.: #4585]	Continent	Australia and Oceania
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence FN428687 (>99% sequence identity) for Bacillaceae from Microbeatlas

Aquatic Samples	359
Soil Samples	579
Animal Samples	635
Plant Samples	535
Total Samples	2108

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

[Ref.: #4585]

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:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #4585]	Bacillus caldoxylolyticus 16S ribosomal RNA gene, partial sequence	AF067651	1516	GenBank ENA	81408 tax ID
[Ref.: #4585]	Geobacillus caldoxylosilyticus partial 16S rRNA gene, strain R-35639	FN428687	1509	GenBank ENA	81408 tax ID
[Ref.: #20218]	Geobacillus caldoxylosilyticus strain DSM 12041 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Ala gene, complete sequence	EU157941	126	GenBank ENA	81408 tax ID	*
[Ref.: #124043]	Geobacillus caldoxylosilyticus gene for 16S rRNA, partial sequence, strain: NBRC 107762.	AB682661	1482	GenBank ENA	81408 tax ID	*
[Ref.: #20218]	Geobacillus caldoxylosilyticus isolate Gc3 16S ribosomal RNA gene, partial sequence; 16S-23S internal transcribed spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence	EU723624	558	GenBank ENA	81408 tax ID	*
[Ref.: #20218]	Geobacillus caldoxylosilyticus isolate Gc5 16S ribosomal RNA gene, partial sequence; 16S-23S internal transcribed spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence	EU723625	526	GenBank ENA	81408 tax ID	*
[Ref.: #20218]	Geobacillus caldoxylosilyticus isolate Gc6 16S ribosomal RNA gene, partial sequence; 16S-23S internal transcribed spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence	EU723626	401	GenBank ENA	81408 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Parageobacillus caldoxylosilyticus DSM 12041	GCA_014196025	scaffold	GenBank ENA	81408 tax ID	*
[Ref.: #66792]	Parageobacillus caldoxylosilyticus NBRC 107762	GCA_000632715	contig	GenBank ENA	1220594 tax ID	*
[Ref.: #66792]	Geobacillus caldoxylosilyticus NBRC 107762	1220594.3	wgs	PATRIC	1220594 tax ID	*
[Ref.: #66792]	Parageobacillus caldoxylosilyticus strain DSM 12041	81408.17	wgs	PATRIC	81408 tax ID	*
[Ref.: #66792]	Geobacillus caldoxylosilyticus DSM 12041	2829795795	draft	JGI IMG/M	81408 tax ID	*
[Ref.: #66792]	Parageobacillus caldoxylosilyticus NBRC 107762	2576861490	draft	JGI IMG/M	1220594 tax ID	*

[Ref.: #4585]	GC-content	44 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #23038]	GC-content	44.0-50.2 mol%

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: Geobacillus caldoxylosilyticus NBRC 107762 PATRIC: 1220594.3
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	77.402	yes
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	88.208	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	yes	91.528	no
[Ref.: #125438]	aerobic	aerobicⓘ	yes	65.576	no
[Ref.: #125438]	thermophile	thermophilicⓘ	yes	64.972	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	78.748	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Parageobacillus caldoxylosilyticus DSM 12041 NCBI: GCA_014196025
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	microaerophile	78.2
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	variable	81.7
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	78.3
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	yes	80.3

Availability in culture collections External links

[Ref.: #4585]

Culture collection no.

DSM 12041, ATCC 700356, NBRC 107762

[Ref.: #71090]

SI-ID 43889

Literature:

Topic	Title	Authors	Journal	DOI	Year
Genetics	Complete Genome Sequences of Four Parageobacillus Strains Isolated from Soil in Japan.	Miyazaki K, Hosoya K	Microbiol Resour Announc	10.1128/mra.00204-22	2022	*
Phylogeny	Classification of isolates from locations in Austria and Yellowstone National Park as Geobacillus tepidamans sp. nov.	Schaffer C, Franck WL, Scheberl A, Kosma P, McDermott TR, Messner P	Int J Syst Evol Microbiol	10.1099/ijs.0.63227-0	2004	*
Phylogeny	Saccharococcus caldoxylosilyticus sp. nov., an obligately thermophilic, xylose-utilizing, endospore-forming bacterium.	Ahmad S, Scopes RK, Rees GN, Patel BK	Int J Syst Evol Microbiol	10.1099/00207713-50-2-517	2000	*

References

#4585

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 12041

#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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#23038

M. G. Fortina,D. Mora,P. Schumann,C. Parini,P. L. Manachini,E. Stackebrandt: Reclassification of Saccharococcus caldoxylosilyticus as Geobacillus caldoxylosilyticus (Ahmad et al. 2000) comb. nov.. IJSEM 51: 2063 - 2071 2001 ( DOI 10.1099/00207713-51-6-2063 , PubMed 11760948 )

#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 .

#71090

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-ID43889.1 )

#124043

Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .

#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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Geobacillus caldoxylosilyticus NBRC 107762

Parageobacillus caldoxylosilyticus DSM 12041

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