Strain identifier
BacDive ID: 133981
Type strain: 
Species: Siminovitchia composti
Strain Designation: SgZ-9
Strain history: <- Korean Agricultural Culture Collection, Jeollabuk-do, Republic of Korea; KACC 16872
NCBI tax ID(s): 1245523 (species)
version 9.2 (current version)
General
@ref: 42662
BacDive-ID: 133981
DSM-Number: 105452
keywords: 16S sequence, Bacteria, facultative anaerobe, spore-forming, thermophilic, Gram-positive, rod-shaped
description: Siminovitchia composti SgZ-9 is a facultative anaerobe, spore-forming, thermophilic bacterium that was isolated from compost.
NCBI tax id
- NCBI tax id: 1245523
- Matching level: species
strain history
- @ref: 42662
- history: <- Korean Agricultural Culture Collection, Jeollabuk-do, Republic of Korea; KACC 16872
doi: 10.13145/bacdive133981.20241212.9.2
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Caryophanales
- family: Bacillaceae
- genus: Siminovitchia
- species: Siminovitchia composti
- full scientific name: Siminovitchia composti (Yang et al. 2013) Gupta et al. 2020
synonyms
- @ref: 20215
- synonym: Bacillus composti
@ref: 42662
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Caryophanales
family: Bacillaceae
genus: Siminovitchia
species: Siminovitchia composti
full scientific name: Siminovitchia composti (Yang et al. 2013) Gupta et al. 2020
strain designation: SgZ-9
type strain: yes
Morphology
cell morphology
- @ref: 30991
- gram stain: positive
- cell length: 2.5 µm
- cell width: 0.65 µm
- cell shape: rod-shaped
- motility: no
pigmentation
- @ref: 30991
- production: yes
Culture and growth conditions
culture medium
- @ref: 42662
- name: NUTRIENT AGAR (DSMZ Medium 1)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1
- composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 42662 | positive | growth | 50 |
| 30991 | positive | growth | 30-60 |
| 30991 | positive | optimum | 50 |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 30991 | positive | growth | 6.0-8.0 |
| 30991 | positive | optimum | 7.25 |
Physiology and metabolism
oxygen tolerance
- @ref: 30991
- oxygen tolerance: facultative anaerobe
spore formation
- @ref: 30991
- spore formation: yes
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 30991 | NaCl | positive | growth | 0-5 % |
| 30991 | NaCl | positive | optimum | 0.75 % |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 30991 | 16193 | 3-hydroxybenzoate | + | carbon source |
| 30991 | 17879 | 4-hydroxybenzoate | + | carbon source |
| 30991 | 28087 | glycogen | + | carbon source |
| 30991 | 27570 | histidine | + | carbon source |
| 30991 | 17240 | itaconate | + | carbon source |
| 30991 | 15792 | malonate | + | carbon source |
| 30991 | 17306 | maltose | + | carbon source |
| 30991 | 26271 | proline | + | carbon source |
| 30991 | 17814 | salicin | + | carbon source |
| 30991 | 17822 | serine | + | carbon source |
| 30991 | 4853 | esculin | + | hydrolysis |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 30991 | catalase | + | 1.11.1.6 |
| 30991 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 30991 | compost | ||||
| 42662 | compost | Dongguan | China | CHN | Asia |
isolation source categories
- Cat1: #Engineered
- Cat2: #Biodegradation
- Cat3: #Composting
taxonmaps
- @ref: 69479
- File name: preview.99_26429.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_3737;97_4595;98_19846;99_26429&stattab=map
- Last taxonomy: Bacillus composti subclade
- 16S sequence: JX274437
- Sequence Identity:
- Total samples: 86
- soil counts: 44
- aquatic counts: 23
- animal counts: 12
- plant counts: 7
Safety information
risk assessment
- @ref: 42662
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 30991
- description: Bacillus composti strain SgZ-9 16S ribosomal RNA gene, partial sequence
- accession: JX274437
- length: 1472
- database: nuccore
- NCBI tax ID: 1245523
GC content
- @ref: 30991
- GC-content: 45.3
External links
@ref: 42662
culture collection no.: CCTCC AB 2012109, KACC 16872, DSM 105452
straininfo link
- @ref: 91654
- straininfo: 397214
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 23396719 | Bacillus composti sp. nov. and Bacillus thermophilus sp. nov., two thermophilic, Fe(III)-reducing bacteria isolated from compost. | Yang G, Chen M, Yu Z, Lu Q, Zhou S | Int J Syst Evol Microbiol | 10.1099/ijs.0.049106-0 | 2013 | Bacillus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Ferric Compounds/*metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/analysis | Genetics |
| Phylogeny | 30028280 | Pueribacillus theae gen. nov., sp. nov., isolated from Pu'er tea. | Wang D, Xiang Y, Jiang C, Zhang J, Hua Z, Niu L, Luo L | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002913 | 2018 | Bacillaceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, *Food Microbiology, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Tea/*microbiology, Vitamin K 2/chemistry | Biotechnology |
Reference
| @id | authors | title | doi/url | ID_cross_reference | pubmed | catalogue |
|---|---|---|---|---|---|---|
| 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 | 10.1099/ijsem.0.004332 | |||
| 30991 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 27321 | 28776041 | |
| 42662 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-105452 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 105452) | |||
| 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 | https://microbeatlas.org/ | |||
| 91654 | 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 | 10.60712/SI-ID397214.1 |