Strain identifier
BacDive ID: 134014
Type strain: 
Species: Kroppenstedtia guangzhouensis
Strain Designation: GD02, GD 02
Strain history: <- G Yang, China
NCBI tax ID(s): 1274356 (species)
version 9.3 (current version)
General
@ref: 31061
BacDive-ID: 134014
DSM-Number: 117317
keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, Gram-positive
description: Kroppenstedtia guangzhouensis GD02 is an aerobe, spore-forming, Gram-positive bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 1274356
- Matching level: species
strain history
- @ref: 67771
- history: <- G Yang, China
doi: 10.13145/bacdive134014.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Caryophanales
- family: Thermoactinomycetaceae
- genus: Kroppenstedtia
- species: Kroppenstedtia guangzhouensis
- full scientific name: Kroppenstedtia guangzhouensis Yang et al. 2013
@ref: 31061
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Caryophanales
family: Thermoactinomycetaceae
genus: Kroppenstedtia
species: Kroppenstedtia guangzhouensis
full scientific name: Kroppenstedtia guangzhouensis Yang et al. 2013
strain designation: GD02, GD 02
type strain: yes
Morphology
cell morphology
- @ref: 31061
- gram stain: positive
pigmentation
- @ref: 31061
- production: no
Culture and growth conditions
culture medium
- @ref: 125148
- name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)
- growth: yes
- link: https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium535.pdf
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 31061 | positive | growth | 30-60 |
| 31061 | positive | optimum | 50 |
| 67771 | positive | growth | 50 |
| 125148 | positive | growth | 50 |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 31061 | positive | growth | 5.5-9.5 | alkaliphile |
| 31061 | positive | optimum | 6.75 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 31061 | aerobe | |
| 67771 | aerobe | |
| 125439 | facultative anaerobe | 91.2 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 31061 | yes | |
| 125438 | yes | 90.465 |
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 31061 | NaCl | positive | growth | 0-3 % |
| 31061 | NaCl | positive | optimum | 1.25 % |
observation
- @ref: 31061
- observation: aggregates in chains
metabolite utilization
- @ref: 31061
- Chebi-ID: 4853
- metabolite: esculin
- utilization activity: +
- kind of utilization tested: hydrolysis
enzymes
- @ref: 31061
- value: gelatinase
- activity: +
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 31061 | soil | ||||
| 67771 | From soil | Guangdong | China | CHN | Asia |
| 125148 | soil | Guangdong | China | CHN | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
Safety information
risk assessment
- @ref: 125148
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 31061
- description: Kroppenstedtia guangzhouensis strain GD02 16S ribosomal RNA gene, partial sequence
- accession: KC311557
- length: 1473
- database: nuccore
- NCBI tax ID: 1274356
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Kroppenstedtia guangzhouensis CGMCC 1.12404 | GCA_014637345 | scaffold | ncbi | 1274356 |
| 66792 | Kroppenstedtia guangzhouensis strain CGMCC 1.12404 | 1274356.3 | wgs | patric | 1274356 |
| 66792 | Kroppenstedtia guangzhouensis CGMCC 1.12404 | 2784132153 | draft | img | 1274356 |
GC content
- @ref: 31061
- GC-content: 56.3
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | facultative anaerobe | 91.2 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | positive | 70.3 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 69.3 | |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | yes | 87 | |
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 76.632 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 90.464 | yes |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 81.742 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 90.465 | yes |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | yes | 50.244 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | no | 55.813 | no |
External links
@ref: 31061
culture collection no.: CGMCC 1.12404, KCTC 29149, DSM 117317
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 23728375 | Kroppenstedtia guangzhouensis sp. nov., a thermoactinomycete isolated from soil. | Yang G, Qin D, Wu C, Yuan Y, Zhou S, Cai Y | Int J Syst Evol Microbiol | 10.1099/ijs.0.051011-0 | 2013 | Bacillales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Molecular Sequence Data, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Temperature, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
| Phylogeny | 27671055 | Paludifilum halophilum gen. nov., sp. nov., a thermoactinomycete isolated from superficial sediment of a solar saltern. | Frikha-Dammak D, Fardeau ML, Cayol JL, Ben Fguira-Fourati L, Najeh S, Ollivier B, Maalej S | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001523 | 2016 | Bacillales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Salinity, Sequence Analysis, DNA, Tunisia, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
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 | |||
| 31061 | 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 | 27390 | 28776041 | |
| 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) | https://diaspora-project.de/progress.html#genomes | |||
| 67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||||
| 125148 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-117317 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 117317) | |||
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 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 | https://github.com/GenomeNet/deepG |