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Manual annotations of Rhyzopertha dominica genome assembly RdoDt3_Drdd8_decomES

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posted on 2024-02-16, 22:16 authored by Brenda OppertBrenda Oppert, David Schlipalius, Erin Scully, Raman Bansal, Gail Ragan, Jeffrey Fabrick, Jacqueline Maille, Konstantin Chaply, Kenlee Friesen, Marce Lorenzen, Renata Dias, Suyog Kuwar, Morgan Olmstead, Monica Poelchau

This dataset contains manual annotations from Rhyzopertha dominica community curators, based on genome assembly RdoDt3_Drdd8_decomES.fasta.gz. These annotations are direct exports from Apollo 2.6 (https://doi.org/10.5281/zenodo.5015109), hosted by the i5k Workspace@NAL (https://i5k.nal.usda.gov/). Manual annotations are temporary and will be reviewed by the i5k Workspace@NAL and submitted to NCBI's GenBank database after review.


Resources in this dataset:

  • Resource Title: Manual annotations of Rhyzopertha dominica genome assembly RdoDt3_Drdd8_decomES.

    File Name: Rhyzopertha-dominica-manual-annotations-presubmission.tar.gz

    Resource Description: The files contained within this directory are manual annotations from the Rhyzopertha dominica genome assembly RdoDt3_Drdd8_decomES.fasta.gz. These annotations are direct exports from Apollo 2.6, hosted by the i5k Workspace@NAL. Manual annotations are temporary and will be reviewed by the i5k Workspace@NAL and submitted to NCBI's GenBank database after review.

    • Annotations.cdna.fasta.gz: cDNA sequences of the manual annotations
    • Annotations.cds.fasta.gz: coding (CDS) sequences of the manual annotations
    • Annotations.gff3.gz: manual annotations in the GFF3 format.
    • Annotations.peptide.fasta.gz: polypeptide sequences of the manual annotations.
    • RdoDt3_Drdd8_decomES.fasta.gz: The genome assembly that the manual annotations are based on.

Funding

National Institute of General Medical Sciences: R01GM58634

National Human Genome Research Institute

Narodowe Centrum Nauki: 2017/25/B/NZ2/01880

Narodowe Centrum Nauki: 2019/35/D/NZ2/03411

Oklahoma Agricultural Experiment Station: OKLO2450

History

Data contact name

Oppert, Brenda

Data contact email

bso@ksu.edu

Publisher

Ag Data Commons

Intended use

The data supports the annotations from the publication: Oppert, B.; Muszewska, A.; Steczkiewicz, K.; Šatović-Vukšić, E.; Plohl, M.; Fabrick, J.A.; Vinokurov, K.S.; Koloniuk, I.; Johnston, J.S.; Smith, T.P.L.; Guedes, R.N.C.; Terra, W.R.; Ferreira, C.; Dias, R.O.; Chaply, K.A.; Elpidina, E.N.; Tereshchenkova, V.F.; Mitchell, R.F.; Jenson, A.J.; McKay, R.; Shan, T.; Cao, X.; Miao, Z.; Xiong, C.; Jiang, H.; Morrison, W.R., III; Koren, S.; Schlipalius, D.; Lorenzen, M.D.; Bansal, R.; Wang, Y.-H.; Perkin, L.; Poelchau, M.; Friesen, K.; Olmstead, M.L.; Scully, E.; Campbell, J.F. The Genome of Rhyzopertha dominica (Fab.) (Coleoptera: Bostrichidae): Adaptation for Success. Genes 2022, 13, 446. https://doi.org/10.3390/genes13030446

Use limitations

The annotations in this dataset were the result of an automated annotation by Dovetail Genomics with manual annotation from coauthors of the publication. The data will be submitted to NCBI and will be considered in their automated annotation pipeline.

Temporal Extent Start Date

2022-03-04

Theme

  • Not specified

Geographic Coverage

{"type":"FeatureCollection","features":[{"geometry":{"type":"Point","coordinates":[-96.6297555,39.190887]},"type":"Feature","properties":{}}]}

ISO Topic Category

  • biota

Ag Data Commons Group

  • Insects - i5K

National Agricultural Library Thesaurus terms

data collection; Rhyzopertha dominica; genome assembly; exports; genetic databases; insect pests; storage insects; Insects and Entomology; Biological Sciences

OMB Bureau Code

  • 005:18 - Agricultural Research Service

OMB Program Code

  • 005:040 - National Research

Primary article PubAg Handle

Pending citation

  • No

Public Access Level

  • Public

Preferred dataset citation

Oppert, Brenda; Schlipalius, David; Scully, Erin; Bansal, Raman; Ragan, Gail; Fabrick, Jeffrey; Maille, Jacqueline; Chaply, Konstantin; Friesen, Kenlee; Lorenzen, Marce; Dias, Renata; Kuwar, Suyog; Olmstead, Morgan; Poelchau, Monica (2022). Manual annotations of Rhyzopertha dominica genome assembly RdoDt3_Drdd8_decomES. Ag Data Commons. https://doi.org/10.15482/USDA.ADC/1524749

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