Strain identifier
BacDive ID: 7229
Type strain:
Species: Hansschlegelia zhihuaiae
Strain Designation: S 113
Strain history: <- Y. Zhou, Nanjing Agric. Univ., China; S 113 <- Y. Zhou, X. Huang et al.
NCBI tax ID(s): 405005 (species)
General
@ref: 7815
BacDive-ID: 7229
DSM-Number: 18984
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, coccus-shaped
description: Hansschlegelia zhihuaiae S 113 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from polluted farmland soil.
NCBI tax id
- NCBI tax id: 405005
- Matching level: species
strain history
- @ref: 7815
- history: <- Y. Zhou, Nanjing Agric. Univ., China; S 113 <- Y. Zhou, X. Huang et al.
doi: 10.13145/bacdive7229.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Methylocystaceae
- genus: Hansschlegelia
- species: Hansschlegelia zhihuaiae
- full scientific name: Hansschlegelia zhihuaiae Wen et al. 2011
@ref: 7815
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Methylocystaceae
genus: Hansschlegelia
species: Hansschlegelia zhihuaiae
full scientific name: Hansschlegelia zhihuaiae Wen et al. 2011
strain designation: S 113
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
29807 | negative | 1.15 µm | 0.75 µm | coccus-shaped | yes | |
69480 | negative | 99.999 |
Culture and growth conditions
culture medium
- @ref: 7815
- name: FLB MEDIUM (DSMZ Medium 1333)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1333
- composition: Name: FLB MEDIUM (DSMZ Medium 1333) Composition: Agar 15.0 g/l Tryptone 5.0 g/l Yeast extract 3.0 g/l CaCl2 x 6 H2O 0.09 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
7815 | positive | growth | 28 | mesophilic |
29807 | positive | growth | 25-30 | mesophilic |
29807 | positive | optimum | 27.5 | mesophilic |
culture pH
@ref | ability | type | pH |
---|---|---|---|
29807 | positive | growth | 6.5-7.5 |
29807 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 29807
- oxygen tolerance: aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
29807 | no | |
69481 | no | 100 |
69480 | no | 99.997 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
29807 | NaCl | positive | growth | <0.5 % |
29807 | NaCl | positive | optimum | 0.25 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
29807 | 15963 | ribitol | + | carbon source |
29807 | 22599 | arabinose | + | carbon source |
29807 | 5417 | glucosamine | + | carbon source |
29807 | 15361 | pyruvate | + | carbon source |
29807 | 17992 | sucrose | + | carbon source |
29807 | 17632 | nitrate | + | reduction |
enzymes
@ref | value | activity | ec |
---|---|---|---|
29807 | cytochrome oxidase | + | 1.9.3.1 |
29807 | urease | + | 3.5.1.5 |
Isolation, sampling and environmental information
isolation
- @ref: 7815
- sample type: polluted farmland soil
- geographic location: Jiangsu Province
- country: China
- origin.country: CHN
- continent: Asia
isolation source categories
Cat1 | Cat2 |
---|---|
#Engineered | #Agriculture |
#Engineered | #Contamination |
taxonmaps
- @ref: 69479
- File name: preview.99_157042.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_1101;97_1289;98_5709;99_157042&stattab=map
- Last taxonomy: Hansschlegelia zhihuaiae
- 16S sequence: DQ916067
- Sequence Identity:
- Total samples: 34
- soil counts: 5
- aquatic counts: 2
- animal counts: 26
- plant counts: 1
Safety information
risk assessment
- @ref: 7815
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 7815
- description: Hansschlegelia zhihuaiae strain S 113 16S ribosomal RNA gene, partial sequence
- accession: DQ916067
- length: 1444
- database: ena
- NCBI tax ID: 405005
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Hansschlegelia zhihuaiae S 113 | GCA_004103825 | scaffold | ncbi | 405005 |
66792 | Hansschlegelia zhihuaiae S 113 | 2889485916 | draft | img | 405005 |
GC content
@ref | GC-content | method |
---|---|---|
7815 | 65.7 | high performance liquid chromatography (HPLC) |
29807 | 65.7 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 82.497 | yes |
flagellated | no | 79.113 | no |
gram-positive | no | 97.692 | no |
anaerobic | no | 97.826 | yes |
aerobic | yes | 91.016 | yes |
halophile | no | 92.453 | no |
spore-forming | no | 93.882 | no |
glucose-util | yes | 86.429 | no |
thermophile | no | 95.467 | no |
glucose-ferment | no | 91.998 | no |
External links
@ref: 7815
culture collection no.: DSM 18984, CCTCC AB 206143, KCTC 12880
straininfo link
- @ref: 76681
- straininfo: 402678
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 20543155 | Hansschlegelia zhihuaiae sp. nov., isolated from a polluted farmland soil. | Wen Y, Huang X, Zhou Y, Hong Q, Li S | Int J Syst Evol Microbiol | 10.1099/ijs.0.021543-0 | 2010 | China, DNA, Bacterial/genetics, Fatty Acids/metabolism, Methylocystaceae/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Soil Pollutants/metabolism | Metabolism |
Phylogeny | 23625265 | Hansschlegelia beijingensis sp. nov., an aerobic, pink-pigmented, facultatively methylotrophic bacterium isolated from watermelon rhizosphere soil. | Zou XL, Li XA, Wang XM, Chen Q, Gao M, Qiu TL, Sun JG, Gao JL | Int J Syst Evol Microbiol | 10.1099/ijs.0.052308-0 | 2013 | Bacterial Typing Techniques, Base Composition, China, Citrullus/*microbiology, DNA, Bacterial/genetics, Fatty Acids/analysis, Methylocystaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/analysis | Genetics |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
---|---|---|---|---|---|---|---|
7815 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18984) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18984 | ||||
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 | ||||
29807 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 26184 | 28776041 | ||
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) | ||||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
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 | ||||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | ||||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | ||||
76681 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID402678.1 | StrainInfo: A central database for resolving microbial strain identifiers |