Strain identifier
BacDive ID: 23998
Type strain:
Species: Rosenbergiella nectarea
Strain Designation: 8N4
Strain history: <- M. Halpern, Univ. Haifa, Oranim, Tivon, Israel; 8N4 <- S. Fridman, Univ. Haifa
NCBI tax ID(s): 988801 (species)
General
@ref: 21286
BacDive-ID: 23998
DSM-Number: 24150
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-negative, motile, rod-shaped
description: Rosenbergiella nectarea 8N4 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from flower nectar from healthy plants of Amygdalus communis .
NCBI tax id
- NCBI tax id: 988801
- Matching level: species
strain history
- @ref: 21286
- history: <- M. Halpern, Univ. Haifa, Oranim, Tivon, Israel; 8N4 <- S. Fridman, Univ. Haifa
doi: 10.13145/bacdive23998.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Enterobacterales
- family: Enterobacteriaceae
- genus: Rosenbergiella
- species: Rosenbergiella nectarea
- full scientific name: Rosenbergiella nectarea Halpern et al. 2013
@ref: 21286
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Enterobacteriales, not validated
family: Enterobacteriaceae
genus: Rosenbergiella
species: Rosenbergiella nectarea
full scientific name: Rosenbergiella nectarea Halpern et al. 2013
strain designation: 8N4
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
31104 | negative | 2.1 µm | 0.85 µm | rod-shaped | yes | |
69480 | yes | 92.82 | ||||
69480 | negative | 99.946 |
pigmentation
- @ref: 31104
- production: yes
multimedia
- @ref: 21286
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_24150.jpg
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
- @ref: 21286
- name: YPGA (DSMZ Medium 1015)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1015
- composition: Name: YPGA (DSMZ Medium 1015) Composition: Agar 15.0 g/l Glucose 7.0 g/l Bacto peptone 7.0 g/l Yeast extract 7.0 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
21286 | positive | growth | 28 | mesophilic |
31104 | positive | growth | 04-35 | |
31104 | positive | optimum | 29 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 31104
- oxygen tolerance: facultative anaerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.98 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
31104 | NaCl | positive | growth | 0-5 % |
31104 | NaCl | positive | optimum | 3 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
31104 | 22599 | arabinose | + | carbon source |
31104 | 17234 | glucose | + | carbon source |
31104 | 28053 | melibiose | + | carbon source |
31104 | 17992 | sucrose | + | carbon source |
enzymes
- @ref: 31104
- value: catalase
- activity: +
- ec: 1.11.1.6
Isolation, sampling and environmental information
isolation
- @ref: 21286
- sample type: flower nectar from healthy plants of Amygdalus communis (almond)
- host species: Amygdalus communis
- geographic location: Haifa
- country: Israel
- origin.country: ISR
- continent: Asia
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Plants | #Tree |
#Host Body-Site | #Plant | #Flower |
#Host Body Product | #Plant | #Nectar |
taxonmaps
- @ref: 69479
- File name: preview.99_19192.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_9796;97_11806;98_14508;99_19192&stattab=map
- Last taxonomy: Rosenbergiella
- 16S sequence: HQ284827
- Sequence Identity:
- Total samples: 29246
- soil counts: 2159
- aquatic counts: 2560
- animal counts: 22272
- plant counts: 2255
Safety information
risk assessment
- @ref: 21286
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 21286
- description: Rosenbergiella nectarea strain 8N4 16S ribosomal RNA gene, partial sequence
- accession: HQ284827
- length: 1500
- database: ena
- NCBI tax ID: 988801
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Rosenbergiella nectarea 8N4 | GCA_900111105 | scaffold | ncbi | 988801 |
66792 | Rosenbergiella nectarea 8N4 | 2651870171 | draft | img | 988801 |
GC content
@ref | GC-content | method |
---|---|---|
21286 | 46.8 | high performance liquid chromatography (HPLC) |
31104 | 46.8 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
glucose-ferment | yes | 83.509 | no |
motile | yes | 85.584 | yes |
flagellated | no | 60.258 | no |
gram-positive | no | 97.793 | yes |
anaerobic | no | 99.121 | yes |
aerobic | no | 75.747 | yes |
halophile | no | 68.307 | no |
spore-forming | no | 96.742 | no |
thermophile | no | 99.531 | yes |
glucose-util | yes | 86.431 | yes |
External links
@ref: 21286
culture collection no.: DSM 24150, LMG 26121
straininfo link
- @ref: 87973
- straininfo: 371152
literature
- topic: Phylogeny
- Pubmed-ID: 23832968
- title: Rosenbergiella nectarea gen. nov., sp. nov., in the family Enterobacteriaceae, isolated from floral nectar.
- authors: Halpern M, Fridman S, Atamna-Ismaeel N, Izhaki I
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.052217-0
- year: 2013
- mesh: Bacterial Typing Techniques, Base Composition, Citrus/microbiology, DNA, Bacterial/genetics, Enterobacteriaceae/*classification/genetics/isolation & purification, Fatty Acids/chemistry, Flowers/*microbiology, Genes, Bacterial, Israel, Molecular Sequence Data, *Phylogeny, *Plant Nectar, Prunus/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
- topic2: Genetics
Reference
@id | authors | title | doi/url | catalogue | ID_cross_reference | 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 | |||
21286 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-24150 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24150) | |||
31104 | 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 | 27433 | 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 | |||
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 | |||
87973 | 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-ID371152.1 |