Cite this strain

Shouchella clausii (DSM 21911, NCCB 100267, SC-N012)

Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 1314

Type strain

Strain Designation SC-N012

Culture col. no. DSM 21911 NCCB 100267 SC-N012

NCBI tax ID(s) 866786

Special Collections DSMZ

Links

Name and taxonomic classification

Shouchella clausii SC-N012 is a spore-forming, mesophilic bacterium that was isolated from soil from the rhizosphere of sugar cane Saccharum officinarum L..

spore-forming mesophilic genome sequence 16S sequence Bacteria

Culture Collection Numbers

DSM 21911 NCCB 100267 SC-N012

Last LPSN update 2024-12-09 10:43:17

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Bacillaceae

Genus Shouchella

Species Shouchella clausii

Full scientific name Shouchella clausii (Nielsen et al. 1995) Joshi et al. 2022

Synonyms (5)

Bacillus clausii
Alkalihalobacillus rhizosphaerae
Bacillus rhizosphaerae
Shouchella rhizosphaerae
Alkalihalobacillus clausii

BacDive ID	Other strains from **Shouchella clausii** (9)	Type strain
1127	S. clausii PN 23, C 360, DSM 8716, ATCC 700160, CIP ... (type strain)
1124	S. clausii PN 43, 221, DSM 2512, ATCC 21522, FERM P-316, ...
1125	S. clausii PN 46, Y-76, DSM 2515, ATCC 21537, FERM P-569, ...
1126	S. clausii M-29, DSM 2525, ATCC 31084, FERM P-2296
1128	S. clausii PN 24, C 372, DSM 9783, NCIMB 10317
1129	S. clausii PN 35, C 374, DSM 9784, NCIMB 10319
1130	S. clausii PN 76, Br-F, DSM 9785
1131	S. clausii K2-6, DSM 30907
138413	S. clausii CIP 51.33

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
16030	CASO AGAR (MERCK 105458) (DSMZ Medium 220)		Medium recipe at MediaDive	Name: CASO AGAR (Merck 105458) (DSMZ Medium 220; with strain-specific modifications) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l MnSO4 0.01 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
16030	positive	growth	28	mesophilic

Physiology and metabolism

Spore formation

@ref	Spore formation	Confidence
125438		93.736

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	microaerophile	94.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Rhizosphere

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
16030	soil from the rhizosphere of sugar cane Saccharum officinarum L.	Saccharum officinarum	Coimbatore	India	IND	Asia

Taxonmaps

69479

Global distribution of 16S sequence FJ233848 (>99% sequence identity) for Alkalihalobacillus clausii from Microbeatlas

Aquatic Samples	1580
Soil Samples	6394
Animal Samples	5862
Plant Samples	2485
Total Samples	16321

Safety information

Risk assessment

@ref	Biosafety level	Biosafety level comment
16030	1	Risk group (German classification) According to TRBA 466

Sequence information

GC content

@ref	GC-content (mol%)	Method
16030	43.0	high performance liquid chromatography (HPLC)

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
16030	Bacillus rhizosphaerae strain SC-N012 16S ribosomal RNA gene, partial sequence	FJ233848	1433		866786

Genome sequences

@ref	Description	Accession	Assembly level	Database	NCBI tax ID
66792	Shouchella rhizosphaerae SC-N012,DSM 21911,NCCB 100267	GCA_900142675	scaffold		866786
66792	Bacillus rhizosphaerae strain SC-N012,DSM 21911,NCCB 100267	866786.3	wgs	PATRIC	866786

Genome-based predictions

Predictions

Predictions from Diaspora project based on:
Shouchella rhizosphaerae SC-N012,DSM 21911,NCCB 100267
NCBI: GCA_900142675

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	54.40	no
125439	motility	BacteriaNetⓘ	yes	58.20	no
125439	gram_stain	BacteriaNetⓘ	variable	78.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	microaerophile	94.10	no

Predictions from Diaspora project based on:
Alkalihalobacillus rhizosphaerae SC-N012,DSM 21911,NCCB 100267
NCBI: GCA_900142675.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	79.94	no
125438	anaerobic	anaerobicⓘ	no	93.04	no
125438	aerobic	aerobicⓘ	yes	79.39	no
125438	spore-forming	spore-formingⓘ	yes	93.74	no
125438	thermophilic	thermophileⓘ	no	89.77	no
125438	flagellated	motile2+ⓘ	yes	81.22	no

External links

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Genome-based reclassification of Bacillus plakortidis Borchert et al. 2007 and Bacillus lehensis Ghosh et al. 2007 as a later heterotypic synonym of Bacillus oshimensis Yumoto et al. 2005; Bacillus rhizosphaerae Madhaiyan et al. 2011 as a later heterotypic synonym of Bacillus clausii Nielsen et al. 1995.	Liu GH, Narsing Rao MP, Dong ZY, Wang JP, Che JM, Chen QQ, Sengonca C, Liu B, Li WJ	Antonie Van Leeuwenhoek	10.1007/s10482-019-01299-z	2019
Phylogeny	Bacillus rhizosphaerae sp. nov., an novel diazotrophic bacterium isolated from sugarcane rhizosphere soil.	Madhaiyan M, Poonguzhali S, Lee JS, Lee KC, Hari K	Antonie Van Leeuwenhoek	10.1007/s10482-011-9600-3	2011

Culture collection no.

Culture collection no.
DSM 21911
NCCB 100267
SC-N012

References

#16030	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21911
#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 .
#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 .

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