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Frankliniella occidentalis Official Gene Set OGSv1.0

The Frankliniella occidentalis genome was recently sequenced and annotated as part of the i5k pilot project by the Baylor College of Medicine. The Frankliniella occidentalis research community has manually reviewed and curated the computational gene predictions and generated an official gene set, OGSv1.0. The general procedure for generating this OGS is outlined here: https://github.com/NAL-i5K/I5KNAL_OGS/wiki. OGSv1.0 was generated by merging gene set FOCC-V0.5.3-Models generated by the Baylor College of Medicine, and community-curated models in the Apollo software, after QC of the Apollo output. After the merge, scaffolds that were likely bacterial contamination were identified by John H. Werren, and gene models overlapping with these contaminated regions were removed from the OGS.

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FieldValue
Tags
Frankliniella occidentalis
Western flower thrips
genome annotation
Modified
2022-05-26
Release Date
2019-07-02
Identifier
14aa49b2-cc1b-40b1-b1d1-24110263b11f
Spatial / Geographical Coverage Area
POLYGON ((-531.5625 -83.285928602911, -531.5625 84.673512566105, -165.9375 84.673512566105, -165.9375 -83.285928602911))
Publisher
Ag Data Commons
Temporal Coverage
January 1, 2018
License
Creative Commons Attribution Share-Alike
Contact Name
Rotenberg, Dorith
Contact Email
drotenb@ncsu.edu
Public Access Level
Public
Extended Metadata: 
FieldValue
Authors
Rotenberg, Dorith (ORCID)
Robertson, Hugh M. (ORCID)
Oliver, Jonathan E. (Scopus Author ID)
Benoit, Joshua B. (ORCID)
Snoeck, Simon (Scopus Author ID)
Baumann, Aaron A. (ORCID)
Mahmoud, Sulley Ben (ORCID)
Veenstra, Jan A. (ORCID)
Jacobs, Chris G.C. (ORCID)
Park, Yoonseong (Scopus Author ID)
Panfilio, Kristen A. (ORCID)
Widana Gamage, Shirani M.K. (Scopus Author ID)
Ahn, Seung-Joon (ORCID)
Vargas Jentzsch, Iris M. (ORCID)
Jennings, Emily C. (ORCID)
Szuter, Elise M. (Scopus Author ID)
Christiaens, Olivier (Scopus Author ID)
Scanlan, Jack (ORCID)
Taning, Clauvis Nji Tizi (Scopus Author ID)
Martynov, Alexander (ORCID)
Bejerman, Nicolás E. (Scopus Author ID)
Nair, Ajay (Scopus Author ID)
Jones, Jeffery W. (Scopus Author ID)
Friedrich, Markus (ORCID)
van der Zee, Maurijn (ORCID)
Dearden, Peter (ORCID)
Minakuchi, Chieka (ORCID)
Armisén, David (ORCID)
Schneweis, Derek J. (Scopus Author ID)
Melo, Fernando Lucas (ORCID)
Poelchau, Monica (ORCID)
Dermauw, Wannes (Scopus Author ID)
Hughes, Daniel S.T. (Scopus Author ID)
Richards, Stephen (ORCID)
Didion, Elise M. (ORCID)
Holmes, Christopher J. (ORCID)
Rosendale, Andrew J. (ORCID)
Rosselot, Andrew
Dolan, Amanda (Scopus Author ID)
Whitfield, Anna E. (ORCID)
Ullman, Diane E. (ORCID)
Dietzgen, Ralf G. (ORCID)
Smagghe, Guy (ORCID)
Van Leeuwen, Thomas (ORCID)
Warren, John H. (ORCID)
Peer Reviewed
No
Funding Sources
National Human Genome Research Institute
Related Articles

Rotenberg, D., Baumann, A. A., Ben-Mahmoud, S., Christiaens, O., Dermauw, W., Ioannidis, P., Jacobs, C. G., Vargas Jentzsch, I. M., Oliver, J. E., Poelchau, M. F., Rajarapu, S. P., Schneweis, D. J., Snoeck, S., Taning, C. N., Wei, D., Widana-Gamage, S. M. K., Hughes, D. S., Murali, S. C., Bailey, S., … Richards, S. (2020). Genome-enabled insights into the biology of thrips as crop pests. Cold Spring Harbor Laboratory. https://doi.org/10.1101/2020.02.12.941716

Han, J., & Rotenberg, D. (2021). Integration of transcriptomics and network analysis reveals co-expressed genes in Frankliniella occidentalis larval guts that respond to tomato spotted wilt virus infection. BMC Genomics, 22(1). https://doi.org/10.1186/s12864-021-08100-4
Dataset DOI (digital object identifier)
10.15482/USDA.ADC/1504029
Product Type
Dataset
Related Content
Frankliniella occidentalis genome assembly v1.0
Frankliniella occidentalis genome annotations v0.5.3
QC and OGS Generation Pipeline by i5K Workspace@NAL
HasVersion: Frankliniella occidentalis Official Gene Set OGSv1.1
FieldValue
OSTI Identifier
ISO Topic(s)
biota
National Agricultural Library Thesaurus Term
genomics
Frankliniella occidentalis
genes
prediction
bacterial contamination
Ag Data Commons Keywords
  • Genomics & Genetics
  • Genome
  • Genomics & Genetics
Program
Frankliniella occidentalis
Organism project
Insects 5K – i5K

Suggested Citation:

(dataset) Rotenberg, Dorith; Robertson, Hugh M.; Oliver, Jonathan E.; Benoit, Joshua B.; Snoeck, Simon; Baumann, Aaron A.; Mahmoud, Sulley Ben; Veenstra, Jan A.; Jacobs, Chris G.C.; Park, Yoonseong; Panfilio, Kristen A.; Widana Gamage, Shirani M.K.; Ahn, Seung-Joon; Vargas Jentzsch, Iris M.; Jennings, Emily C.; Szuter, Elise M.; Christiaens, Olivier; Scanlan, Jack; Taning, Clauvis Nji Tizi; Martynov, Alexander; Bejerman, Nicolás E.; Nair, Ajay; Jones, Jeffery W.; Friedrich, Markus; van der Zee, Maurijn; Dearden, Peter; Minakuchi, Chieka; Armisén, David; Schneweis, Derek J.; Melo, Fernando Lucas; Poelchau, Monica; Dermauw, Wannes; Hughes, Daniel S.T.; Richards, Stephen; Didion, Elise M.; Holmes, Christopher J.; Rosendale, Andrew J.; Rosselot, Andrew; Dolan, Amanda; Whitfield, Anna E.; Ullman, Diane E.; Dietzgen, Ralf G.; Smagghe, Guy; Van Leeuwen, Thomas; Warren, John H. (2019). Frankliniella occidentalis Official Gene Set OGSv1.0. Ag Data Commons. https://doi.org/10.15482/USDA.ADC/1504029. Accessed 2023-06-01.