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Amyelois transitella
Summary
| Type |
organism
|
|---|---|
| Genus |
Amyelois
|
| Species |
transitella
|
| Common Name |
Navel orangeworm moth
|
| Description | |
| Organism Image |
|
| Image Credit |
USDA-ARS; public domain
|
Assembly Stats
| Contig N50 |
NA
|
|---|---|
| GC Content |
35.93
|
| Scaffold N50 |
1586980
|
Other Information
| Community Contact |
i5k Workspace@NAL
|
|---|---|
| Links |
Analyses
| Name | Program |
|---|---|
| Amyelois transitella genome assembly ASM118610v1 (GCF_001186105.1) | SOAPdenovo |
| Amyelois transitella NCBI Annotation Release 100 | NCBI Eukaryotic Genome Annotation Pipeline |
| Functional annotation of NCBI Amyelois transitella Annotation Release 100 | AgBase functional annotation pipeline |
| NCBI Amyelois transitella Annotation Release GCF_032362555.1-RS_2023_11 | NCBI Eukaryotic Genome Annotation Pipeline |
| Functional annotation of NCBI Amyelois transitella Annotation Release GCF_032362555.1-RS_2023_11 | AgBase functional annotation pipeline |
| Amyelois transitella genome assembly ilAmyTran1.1 (GCF_032362555.1) | HiFiASM |
The navel orangeworm (Amyelois transitella) (NOW) is a pyralid moth native to the southwestern USA and Mexico that has become a major pest of various nuts and fruits primarily in California, such as almonds, pistachios, figs, and pomegranates. The damage is caused by the larvae, which also facilitate introduction of fungi into nuts and fruit. The adults are relatively small at about 1 cm long with a similar wingspan. The genome was sequenced by the laboratory of Hugh Robertson at the University of Illinois at Urbana-Champaign using a single female for deep sequencing of a 180bp fragment shotgun library for contig generation, followed by scaffolding using mate pairs from 1, 5, 10, and 20kb mate-pair libraries generated from multiple individuals. The assembly was performed with SOAPdenovo v2.04 on 07/01/13. The resultant assembly consists of 7,301 scaffolds totaling 406Mb with a scaffold N50 of 1.587Mb. Annotation was performed using GNOMON by NCBI, with assistance from a gut transcriptome from May Berenbaum’s laboratory, and resulted in 18,472 REFSEQ proteins, and 23,242 total possible proteins from GNOMON (including strictly ab initio gene models).
Genome update. Previously, the i5k Workspace@NAL hosted Amyelois transitella genome assembly ASM118610v1 (GCF_001186105.1), Amyelois transitella NCBI Annotation Release 100, and Functional annotation of NCBI Amyelois transitella Annotation Release 100. The assembly and annotations have updated to the most recent assembly, Amyelois transitella genome assembly ilAmyTran1.1 (GCF_032362555.1) (https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_032362555.1/), NCBI Amyelois transitella Annotation Release GCF_032362555.1-RS_2023_11 (https://www.ncbi.nlm.nih.gov/genome/annotation_euk/Amyelois_transitella/GCF_032362555.1-RS_2023_11/), and Functional annotation of NCBI Amyelois transitella Annotation Release GCF_032362555.1-RS_2023_11 (https://i5k.nal.usda.gov/data/Arthropoda/amytra-%28Amyelois_transitella%29/ilAmyTran1.1/2.Official%20or%20Primary%20Gene%20Set/).This genome update is part of the Ag100Pest project (http://i5k.github.io/ag100pest).