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Amyelois transitella

Overview

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).
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Image Credit: USDA-ARS; public domain

Assembly Information

Analysis Name
Amyelois transitella genome assembly ASM118610v1 (GCF_001186105.1)
Software
SOAPdenovo (2.04)
Source
PRJNA254820
Date performed
2013-11-27
Materials & Methods
Geographical location of specimen collection: lab strain
Tissues included: whole individual adults
Sex: pooled
Strain: SPIRL-1966 maintained at USDA San Joaquin Valley Agricultural Research Center since 1966

Assembly Metrics

Contig N50
NA
Scaffold N50
1586980
GC Content
35.93

Data Files

NameLast modifiedSize
folder-parentParent Directory
folderCurrent Genome Assembly2015-11-25 18:35
folderGCF_001186105.12015-11-25 18:35