Strain identifier

BacDive ID: 23998

Type strain: Yes

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)

For citation purpose refer to the digital object identifier (doi) of the current version.
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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

@refgram staincell lengthcell widthcell shapemotilityconfidence
31104negative2.1 µm0.85 µmrod-shapedyes
69480yes92.82
69480negative99.946

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

@refgrowthtypetemperaturerange
21286positivegrowth28mesophilic
31104positivegrowth04-35
31104positiveoptimum29mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 31104
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.98

halophily

@refsaltgrowthtested relationconcentration
31104NaClpositivegrowth0-5 %
31104NaClpositiveoptimum3 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3110422599arabinose+carbon source
3110417234glucose+carbon source
3110428053melibiose+carbon source
3110417992sucrose+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

Cat1Cat2Cat3
#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

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Rosenbergiella nectarea 8N4GCA_900111105scaffoldncbi988801
66792Rosenbergiella nectarea 8N42651870171draftimg988801

GC content

@refGC-contentmethod
2128646.8high performance liquid chromatography (HPLC)
3110446.8

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
glucose-fermentyes83.509no
motileyes85.584yes
flagellatedno60.258no
gram-positiveno97.793yes
anaerobicno99.121yes
aerobicno75.747yes
halophileno68.307no
spore-formingno96.742no
thermophileno99.531yes
glucose-utilyes86.431yes

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

@idauthorstitledoi/urlcatalogueID_cross_referencepubmed
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
21286Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-24150Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24150)
31104Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172743328776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69479João 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 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions 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
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
87973Reimer, 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 identifiers10.60712/SI-ID371152.1