Strain identifier
BacDive ID: 1312
Type strain: 
Species: Shouchella xiaoxiensis
Strain history: <- S.-K. Tang and Y.-G. Chen, YIM <- Y.-G. Chen and H.-D. Xiao, YIM
NCBI tax ID(s): 766895 (species)
version 9.3 (current version)
General
@ref: 16060
BacDive-ID: 1312
DSM-Number: 21943
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic
description: Shouchella xiaoxiensis DSM 21943 is a spore-forming, mesophilic bacterium that was isolated from forest soil.
NCBI tax id
- NCBI tax id: 766895
- Matching level: species
strain history
- @ref: 16060
- history: <- S.-K. Tang and Y.-G. Chen, YIM <- Y.-G. Chen and H.-D. Xiao, YIM
doi: 10.13145/bacdive1312.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Caryophanales
- family: Bacillaceae
- genus: Shouchella
- species: Shouchella xiaoxiensis
- full scientific name: Shouchella xiaoxiensis (Chen et al. 2011) Joshi et al. 2022
synonyms
@ref synonym 20215 Bacillus xiaoxiensis 20215 Alkalihalobacillus xiaoxiensis
@ref: 16060
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Caryophanales
family: Bacillaceae
genus: Shouchella
species: Shouchella xiaoxiensis
full scientific name: Shouchella xiaoxiensis (Chen et al. 2011) Joshi et al. 2022
type strain: yes
Culture and growth conditions
culture medium
- @ref: 16060
- name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
- growth: yes
- link: https://mediadive.dsmz.de/medium/514
- composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
culture temp
- @ref: 16060
- growth: positive
- type: growth
- temperature: 28
Physiology and metabolism
oxygen tolerance
- @ref: 125439
- oxygen tolerance: obligate aerobe
- confidence: 98.4
spore formation
- @ref: 125438
- spore formation: yes
- confidence: 94.39
Isolation, sampling and environmental information
isolation
- @ref: 16060
- sample type: forest soil
- geographic location: Hunan Province, Xiaoxi National Natural Reserve
- country: China
- origin.country: CHN
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Forest |
| #Environmental | #Terrestrial | #Soil |
taxonmaps
- @ref: 69479
- File name: preview.99_1984.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_1100;97_1288;98_1552;99_1984&stattab=map
- Last taxonomy: Alkalihalobacillus
- 16S sequence: HM054474
- Sequence Identity:
- Total samples: 768
- soil counts: 196
- aquatic counts: 120
- animal counts: 384
- plant counts: 68
Safety information
risk assessment
- @ref: 16060
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16060
- description: Bacillus xiaoxiensis strain JSM 081004 16S ribosomal RNA gene, partial sequence
- accession: HM054474
- length: 1467
- database: nuccore
- NCBI tax ID: 766895
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Shouchella xiaoxiensis DSM 21943 | GCA_016907895 | contig | ncbi | 766895 |
| 66792 | Alkalihalobacillus xiaoxiensis strain DSM 21943 | 766895.3 | wgs | patric | 766895 |
| 66792 | Alkalihalobacillus xiaoxiensis DSM 21943 | 2898005585 | draft | img | 766895 |
GC content
- @ref: 16060
- GC-content: 40.1
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 81.586 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 96.988 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 81.299 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 94.39 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 93.12 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 81.439 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | yes | 87.3 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 87.2 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | variable | 76 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 98.4 |
External links
@ref: 16060
culture collection no.: DSM 21943, CCTCC AA 208057, JSM 081004
straininfo link
- @ref: 70963
- straininfo: 399507
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 20870888 | Bacillus xiaoxiensis sp. nov., a slightly halophilic bacterium isolated from non-saline forest soil. | Chen YG, Zhang YQ, Chen QH, Klenk HP, He JW, Tang SK, Cui XL, Li WJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.026286-0 | 2010 | Bacillus/*classification/genetics/*isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/*metabolism, *Soil Microbiology, Trees | Genetics |
| Phylogeny | 25008165 | Bacillus shacheensis sp. nov., a moderately halophilic bacterium isolated from a saline-alkali soil. | Lei Z, Qiu P, Ye R, Tian J, Liu Y, Wang L, Tang SK, Li WJ, Tian Y | J Gen Appl Microbiol | DN/JST.JSTAGE/jgam/60.101 | 2014 | Bacillus/*classification/genetics/*isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, Cluster Analysis, Cytosol/chemistry, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Hydrogen-Ion Concentration, Molecular Sequence Data, Peptidoglycan/analysis, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, Soil Microbiology, Temperature, Vitamin K 2/analysis | Genetics |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 16060 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21943) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21943 | |
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |
| 70963 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID399507.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | 10.1101/2024.08.12.607695 | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | |
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | https://github.com/GenomeNet/deepG | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 |