Strain identifier
BacDive ID: 130330
Type strain: 
Species: Chryseobacterium oleae
Strain Designation: CT348
Strain history: <- M. Montero-Calasanz, IFAPA Centro Las Torres-Tomejil, Consejeria de Agricultura y Pesca, Alcalá del Rio (Sevilla), Spain; CT348
NCBI tax ID(s): 491207 (species)
version 8.1 (current version)
General
@ref: 21875
BacDive-ID: 130330
DSM-Number: 25575
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic
description: Chryseobacterium oleae CT348 is an aerobe, mesophilic bacterium that was isolated from rhizosphere of organic olive grove .
NCBI tax id
- NCBI tax id: 491207
- Matching level: species
strain history
- @ref: 21875
- history: <- M. Montero-Calasanz, IFAPA Centro Las Torres-Tomejil, Consejeria de Agricultura y Pesca, Alcalá del Rio (Sevilla), Spain; CT348
doi: 10.13145/bacdive130330.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Weeksellaceae
- genus: Chryseobacterium
- species: Chryseobacterium oleae
- full scientific name: Chryseobacterium oleae Montero-Calasanz et al. 2014
@ref: 21875
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Weeksellaceae
genus: Chryseobacterium
species: Chryseobacterium oleae
full scientific name: Chryseobacterium oleae Montero-Calasanz et al. 2014
strain designation: CT348
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | no | 91.434 | |
| 69480 | 99.99 | negative |
colony morphology
- @ref: 62933
- incubation period: 1 day
multimedia
| @ref | multimedia content | caption | intellectual property rights |
|---|---|---|---|
| 66793 | EM_DSM_25575_1.jpg | electron microscopic image | © HZI/Manfred Rohde |
| 66793 | EM_DSM_25575_2.jpg | electron microscopic image | © HZI/Manfred Rohde |
| 66793 | EM_DSM_25575_3.jpg | electron microscopic image | © HZI/Manfred Rohde |
| 66793 | EM_DSM_25575_4.jpg | electron microscopic image | © HZI/Manfred Rohde |
| 66793 | EM_DSM_25575_5.jpg | electron microscopic image | © HZI/Manfred Rohde |
| 66793 | EM_DSM_25575_6.jpg | electron microscopic image | © HZI/Manfred Rohde |
Culture and growth conditions
culture medium
- @ref: 21875
- 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 | range |
|---|---|---|---|---|
| 21875 | positive | growth | 28 | mesophilic |
| 62933 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 62933
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.997 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | host species | geographic location | country | origin.country | continent | latitude | longitude | sampling date |
|---|---|---|---|---|---|---|---|---|---|
| 21875 | rhizosphere of organic olive grove (Olea europaea L. cv. arbequina) | Olea europaea | Seville, Mairena del Aljarafe (37°20'18.97'' N, 6°5'8.61'' W) | Spain | ESP | Europe | 37.3386 | -6.0857 | |
| 62933 | Rhizosphere of organic olive grove | Mairena del Aljarafe (Seville) | Spain | ESP | Europe | 2006-04-01 |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Agriculture | #Grove (Orchard) |
| #Host | #Plants | #Tree |
| #Host Body-Site | #Plant | #Rhizosphere |
taxonmaps
- @ref: 69479
- File name: preview.99_4325.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_76;96_753;97_1740;98_3254;99_4325&stattab=map
- Last taxonomy: Chryseobacterium oleae subclade
- 16S sequence: EU336939
- Sequence Identity:
- Total samples: 143
- soil counts: 47
- aquatic counts: 12
- animal counts: 75
- plant counts: 9
Safety information
risk assessment
- @ref: 21875
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 21875
- description: Chryseobacterium oleae strain CT348 16S ribosomal RNA gene, partial sequence
- accession: EU336939
- length: 1480
- database: ena
- NCBI tax ID: 491207
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Chryseobacterium oleae DSM 25575 | GCA_900115055 | contig | ncbi | 491207 |
| 66792 | Chryseobacterium oleae strain DSM 25575 | 491207.4 | wgs | patric | 491207 |
| 66792 | Chryseobacterium oleae DSM 25575 | 2684622910 | draft | img | 491207 |
GC content
- @ref: 21875
- GC-content: 38.2
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | no | 97.781 | no |
| anaerobic | no | 99.517 | no |
| halophile | no | 93.314 | no |
| spore-forming | no | 93.299 | no |
| glucose-util | yes | 85.914 | no |
| aerobic | yes | 93.684 | no |
| thermophile | no | 99.899 | yes |
| motile | no | 89.848 | no |
| flagellated | no | 95.027 | no |
| glucose-ferment | no | 92.052 | no |
External links
@ref: 21875
culture collection no.: DSM 25575, CCUG 63020
straininfo link
- @ref: 88863
- straininfo: 407231
literature
- topic: Phylogeny
- Pubmed-ID: 24867808
- title: Chryseobacterium oleae sp. nov., an efficient plant growth promoting bacterium in the rooting induction of olive tree (Olea europaea L.) cuttings and emended descriptions of the genus Chryseobacterium, C. daecheongense, C. gambrini, C. gleum, C. joostei, C. jejuense, C. luteum, C. shigense, C. taiwanense, C. ureilyticum and C. vrystaatense.
- authors: Montero-Calasanz Mdel C, Goker M, Rohde M, Sproer C, Schumann P, Busse HJ, Schmid M, Klenk HP, Tindall BJ, Camacho M
- journal: Syst Appl Microbiol
- DOI: 10.1016/j.syapm.2014.04.004
- year: 2014
- mesh: Bacterial Typing Techniques, Base Composition, Chryseobacterium/*classification/genetics/*isolation & purification, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hydrogen-Ion Concentration, Molecular Sequence Data, Nucleic Acid Hybridization, Olea/*microbiology, Phospholipids/analysis, Phylogeny, Pigments, Biological/analysis, Plant Development, Plant Growth Regulators/metabolism, Plant Roots/growth & development, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, Spain, Spermidine/analysis, Temperature, Vitamin K 2/analysis
- topic2: Genetics
Reference
| @id | authors | title | doi/url | catalogue | journal | pubmed |
|---|---|---|---|---|---|---|
| 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 | |||
| 21875 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-25575 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25575) | |||
| 62933 | Curators of the CCUG | https://www.ccug.se/strain?id=63020 | Culture Collection University of Gothenburg (CCUG) (CCUG 63020) | |||
| 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 | |||
| 66793 | Mukherjee et al. | GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life | 10.1038/nbt.3886 | 35: 676-683 2017 | 28604660 | |
| 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 | |||
| 88863 | 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-ID407231.1 |