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Initial set of gene ontology (GO) terms for the D v virgifera GCF_003013835.1 RefSeq protein models

Gene ontologies generated using GOanna with a standard pipeline (https://agbase-docs.readthedocs.io/en/latest/goanna/using_goanna_cmd.html ; default settings) with queries against the invertebrate subsection of the UniProt database. Alignments provided in html format. The initial set of gene ontology (GO) terms in the sliminput.txt files generated by GOanna were used as input for GOSlimViewer to parse and summarize molecular function (F), biological process (P) and cellular component (C) at level 2. Annotations were also converted to gene annotation format (.gaf) file using Goanna2ga.

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FieldValue
Tags
Gene ontology
GOanna
Diabrotica virgifera virgifera
NP304
Modified
2023-01-17
Release Date
2022-03-23
Frequency
Not Planned
Identifier
4404db07-dcae-40b2-bbd2-824beb9dcd32
Spatial / Geographical Coverage Area
POINT (-93.647443771624 42.030300694796)
POINT (-93.646267890963 42.030234250882)
Publisher
Ag Data Commons
Spatial / Geographical Coverage Location
Ames, Iowa, United States
Temporal Coverage
March 17, 2021
License
U.S. Public Domain
Contact Name
Coates, Brad
Contact Email
brad.coates@usda.gov
Public Access Level
Public
Program Code
005:040 - Department of Agriculture - National Research
Bureau Code
005:18 - Agricultural Research Service
Extended Metadata: 
FieldValue
Authors
Coates, Brad S. (ORCID)
Peer Reviewed
No
Intended Use
The gene ontologies provide putative functional information for the Diabrotica virgifera virgifera RefSeq GCF_003013835.1 gene models which may assist in biological interpretation of gene function in downstream experiments.
Use Limitations
GO annotations are descriptions of putative gene function(s) obtained from homologies to proteins from related species. These putative functions have not been validated and should be interpreted with caution.
Equipment or Software Used
GOanna
goanna/github
GOanna tutorial and walkthrough
Funding Sources
National Institute of Food and Agriculture
2010-04160
Agricultural Research Service
5030-22000-019-00D
Primary Article

Coates, B. S., Walden, K. K. O., Lata, D., Vellichirammal, N. N., Mitchell, R. F., Andersson, M. N., McKay, R., Lorenzen, M. D., Grubbs, N., Wang, Y.-H., Han, J., Xuan, J. L., Willadsen, P., Wang, H., French, B. W., Bansal, R., Sedky, S., Souza, D., Bunn, D., … Robertson, H. M. (2023). A draft Diabrotica virgifera virgifera genome: insights into control and host plant adaption by a major maize pest insect. BMC Genomics, 24(1). https://doi.org/10.1186/s12864-022-08990-y
Dataset DOI (digital object identifier)
10.15482/USDA.ADC/1524777
Related Content
Diabrotica virgifera virgifera GCF_003013835.1 RefSeq protein models
FieldValue
OSTI Identifier
ISO Topic(s)
biota
farming
State or Territory
Iowa
National Agricultural Library Thesaurus Term
genes
models
invertebrates
gene ontology
Diabrotica virgifera virgifera
proteins
rootworms
Ag Data Commons Keywords
  • Genomics & Genetics
  • Agroecosystems & Environment
  • Agroecosystems & Environment
  • Agricultural pests
Program
AgBioData

Suggested Citations:

(original article) Coates, B. S., Walden, K. K. O., Lata, D., Vellichirammal, N. N., Mitchell, R. F., Andersson, M. N., McKay, R., Lorenzen, M. D., Grubbs, N., Wang, Y.-H., Han, J., Xuan, J. L., Willadsen, P., Wang, H., French, B. W., Bansal, R., Sedky, S., Souza, D., Bunn, D., … Robertson, H. M. (2023). A draft Diabrotica virgifera virgifera genome: insights into control and host plant adaption by a major maize pest insect. BMC Genomics, 24(1). https://doi.org/10.1186/s12864-022-08990-y

(dataset) Coates, Brad S. (2022). Initial set of gene ontology (GO) terms for the D v virgifera GCF_003013835.1 RefSeq protein models. Ag Data Commons. https://doi.org/10.15482/USDA.ADC/1524777. Accessed 2023-09-27.