Genome sequencing of Curculio caryae adult female principal pseudohaplotype
The pecan weevil, Curculio caryae (Horn), is an obligate feeder of pecan and native hickory throughout North America. Subsequently it is a significant agricultural pest in commercial pecan orchards. In this study, we present a reference quality genome using deep-coverage, ~50x PacBio HiFi genome sequence reads, and chromatic confirmation, Hi-C, scaffolding. The final genome assembly is approximately 2.1 Gb, which was confirmed with flow cytometry. The primary genome scaffolds have an N50 of 132 Mb and a BUSCO completeness of 99.1% [S:97.5%, D:1.6%]. Furthermore, we employed PacBio long-read RNA, Iso-seq, for de novo annotation, followed by InterProscan to identify approximately 16,000 protein coding genes. Repeat content is extensive, contributing to >75% of the total genome. This data set provides a valuable resource for use in comparative genomics and evolutionary studies for an economically impactful group of insect pests that currently lack genomic resources.
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https://www.ncbi.nlm.nih.gov/bioproject/?term=PRJNA813156
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Complete Metadata
| @type | dcat:Dataset |
|---|---|
| accessLevel | public |
| bureauCode |
[ "005:18" ] |
| contactPoint |
{ "fn": "Perkin, Lindsey, C.", "hasEmail": "mailto:lindsey.perkin@usda.gov" } |
| description | <p dir="ltr">The pecan weevil, <i>Curculio caryae </i>(Horn), is an obligate feeder of pecan and native hickory throughout North America. Subsequently it is a significant agricultural pest in commercial pecan orchards. In this study, we present a reference quality genome using deep-coverage, ~50x PacBio HiFi genome sequence reads, and chromatic confirmation, Hi-C, scaffolding. The final genome assembly is approximately 2.1 Gb, which was confirmed with flow cytometry. The primary genome scaffolds have an N50 of 132 Mb and a BUSCO completeness of 99.1% [S:97.5%, D:1.6%]. Furthermore, we employed PacBio long-read RNA, Iso-seq, for <i>de novo </i>annotation, followed by InterProscan to identify approximately 16,000 protein coding genes. Repeat content is extensive, contributing to >75% of the total genome. This data set provides a valuable resource for use in comparative genomics and evolutionary studies for an economically impactful group of insect pests that currently lack genomic resources.</p> |
| distribution |
[ { "@type": "dcat:Distribution", "title": "https://www.ncbi.nlm.nih.gov/bioproject/?term=PRJNA813156", "mediaType": "text/html", "downloadURL": "https://www.ncbi.nlm.nih.gov/bioproject/?term=PRJNA813156" } ] |
| identifier | 10779/USDA.ADC.29329910.v1 |
| keyword |
[ "Ag100Pest", "Curculio caryae", "HiFi genome assembly", "pecan weevil" ] |
| license | https://creativecommons.org/publicdomain/zero/1.0/ |
| modified | 2026-03-23 |
| programCode |
[ "005:040" ] |
| publisher |
{ "name": "Agricultural Research Service", "@type": "org:Organization" } |
| temporal | 2020-09-05/2023-12-31 |
| title | Genome sequencing of Curculio caryae adult female principal pseudohaplotype |
