Development of single nucleotide polymorphism (SNP) markers from the Asian Corn Borer, Ostrinia furnacalis (Guenee)

Issue Date

10-2017

Abstract

Ostrinia furnacalis (Guenee), commonly known as the Asian Corn Borer (ACB), is an insect that inhabits and feeds within the stems of corn plants. Their feeding habits are destructive to these host plants, preventing the plants from producing their grains and thus devastating corn crop yields. Infestations of ACB have been observed throughout the country. Here we discuss the collection of ACB from different locations in the Philippines, the subsequent extraction of RNA from these samples, and the construction of the insect’s transcriptome with the end goal of identifying single nucleotide polymorphism (SNP) markers which will allow detailed study of the population structures of ACB in different locations. RNA was extracted and processed from these insects, and the purified RNA was sequenced using Illumina technology. The sequences were assembled and annotated to a variety of databases including InterPro, Kyoto Encyclopedia of Genes and Genomes, and Cluster of Orthologous Groups. This assembled and annotated ACB transcriptome was successfully validated by gene mining and endpoint of PCR. Further bioinformatics analysis of the sequences yielded the identification of 2, 177, 173 potential SNP markers in the ACB transcriptome. A selection of these potential SNP markers will be targeted for validation with endpoint PCR and Taqman quantitative PCR. The transcripts and SNP data will be used in downstream assays to allow further deconstruction of the ACB’s genetic make-up and expression patterns, and from there to a better understanding of ACB.

Source or Periodical Title

The Philippine Entomologist

ISSN

0048-3753

Volume

31

Issue

2

Page

143

Document Type

Article

Frequency

semi-annually

Language

English

En – AGROVOC descriptors

OSTRINIA FURNACALIS; INSECTA; PESTS; PEST OF PLANTS; PEST INSECTS; RNA; SINGLE GENETIC POLYMORPHISM; PCR; GENOMES; GENETIC POLYMORPHISM

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