Strain identifier
BacDive ID: 131510
Type strain: 
Species: Flavobacterium endophyticum
Strain Designation: 522
Strain history: <- J. L. Gao, Beijing Academy of Agriculture and Forestry Science, China; 522
NCBI tax ID(s): 1540163 (species)
version 8.1 (current version)
General
@ref: 22737
BacDive-ID: 131510
DSM-Number: 29537
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Flavobacterium endophyticum 522 is a mesophilic, Gram-negative bacterium that was isolated from surface-sterilized root tissue of maize.
NCBI tax id
- NCBI tax id: 1540163
- Matching level: species
strain history
- @ref: 22737
- history: <- J. L. Gao, Beijing Academy of Agriculture and Forestry Science, China; 522
doi: 10.13145/bacdive131510.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Flavobacteriaceae
- genus: Flavobacterium
- species: Flavobacterium endophyticum
- full scientific name: Flavobacterium endophyticum Gao et al. 2015
@ref: 22737
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Flavobacteriaceae
genus: Flavobacterium
species: Flavobacterium endophyticum
full scientific name: Flavobacterium endophyticum Gao et al. 2015
strain designation: 522
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.992
Culture and growth conditions
culture medium
- @ref: 22737
- name: PYG MEDIUM (B) (DSMZ Medium 1139)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1139
- composition: Name: PYG MEDIUM (B) (DSMZ Medium 1139) Composition: Glucose 10.0 g/l Yeast extract 10.0 g/l Polypeptone 5.0 g/l Tryptone 5.0 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.016 g/l CaCl2 0.008 g/l Distilled water
culture temp
- @ref: 22737
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.99 |
Isolation, sampling and environmental information
isolation
- @ref: 22737
- sample type: surface-sterilized root tissue of maize
- geographic location: Beijing, Fangshan District
- country: China
- origin.country: CHN
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Host Body-Site | #Plant | #Root (Rhizome) |
| #Host Body-Site | #Plant | #Sterilized plant part |
taxonmaps
- @ref: 69479
- File name: preview.99_80851.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_66;96_33925;97_43030;98_56248;99_80851&stattab=map
- Last taxonomy: Flavobacterium endophyticum
- 16S sequence: KJ873109
- Sequence Identity:
- Total samples: 262
- soil counts: 122
- aquatic counts: 21
- animal counts: 104
- plant counts: 15
Safety information
risk assessment
- @ref: 22737
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 22737
- description: Flavobacterium endophyticum strain 522 16S ribosomal RNA gene, partial sequence
- accession: KJ873109
- length: 1402
- database: ena
- NCBI tax ID: 1540163
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Flavobacterium endophyticum DSM 29537 | GCA_003634455 | scaffold | ncbi | 1540163 |
| 66792 | Flavobacterium endophyticum strain DSM 29537 | 1540163.3 | wgs | patric | 1540163 |
| 66792 | Flavobacterium endophyticum DSM 29537 | 2731639186 | draft | img | 1540163 |
GC content
- @ref: 22737
- GC-content: 37.7
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | no | 88.516 | no |
| flagellated | no | 96.16 | no |
| gram-positive | no | 98.669 | no |
| anaerobic | no | 99.603 | no |
| aerobic | yes | 92.063 | no |
| halophile | no | 94.806 | no |
| spore-forming | no | 94.557 | no |
| glucose-util | yes | 79.211 | no |
| thermophile | no | 99.299 | yes |
| glucose-ferment | no | 93.488 | no |
External links
@ref: 22737
culture collection no.: DSM 29537, ACCC 19708
straininfo link
- @ref: 89925
- straininfo: 405744
literature
- topic: Phylogeny
- Pubmed-ID: 28875916
- title: Flavobacterium endophyticum sp. nov., a nifH gene-harbouring endophytic bacterium isolated from maize root.
- authors: Gao JL, Lv FY, Wang XM, Yuan M, Li JW, Wu QY, Sun JG
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.000513
- year: 2015
Reference
| @id | authors | title | doi/url | 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 | |
| 22737 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-29537 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29537) | |
| 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 | |
| 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/ | |
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |
| 89925 | 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-ID405744.1 |