Sequencing of Tuta absoluta genome to develop SNP genotyping assays for species identification

Christine A. Tabuloc, Kyle M. Lewald, William R. Conner, Yoosook Lee, Ernest K. Lee, Alexander B. Cain, Kristine E. Godfrey, Judit Arnó, Nuria Agustí, Clerison R. Perini, Jerson C. Guedes, Frank G. Zalom, Joanna C. Chiu

Research output: Contribution to journalArticle

2 Citations (Scopus)

Abstract

Tuta absoluta is one of the most devastating pests of fresh market and processing tomatoes. Native to South America, its detection was confined to that continent until 2006 when it was identified in Spain. It has now spread to almost every continent, threatening countries whose economies rely heavily on tomatoes. This insect causes damage to all developmental stages of its host plant, leading to crop losses as high as 80–100%. Although T. absoluta has yet to be found in the USA and China, which makes up a large portion of the tomato production in the world, computer models project a high likelihood of invasion. To halt the continued spread of T. absoluta and limit economic loss associated with tomato supply chain, it is necessary to develop accurate and efficient methods to identify T. absoluta and strengthen surveillance programs. Current identification of T. absoluta relies on examination of morphology and assessment of host plant damage, which are difficult to differentiate from that of native tomato pests. To address this need, we sequenced the genomes of T. absoluta and two closely related Gelechiidae, Keiferia lycopersicella and Phthorimaea operculella, and developed a bioinformatic pipeline to design a panel of 21-SNP markers for species identification. The accuracy of the SNP panel was validated in a multiplex format using the iPLEX chemistry of Agena MassARRAY system. Finally, the new T. absoluta genomic resources we generated can be leveraged to study T. absoluta biology and develop species-specific management strategies.

Original languageEnglish (US)
JournalJournal of Pest Science
DOIs
StatePublished - Jan 1 2019

Fingerprint

Tuta absoluta
genotyping
genome
assays
tomatoes
Keiferia lycopersicella
host plants
pests
Phthorimaea operculella
Gelechiidae
fresh market
crop losses
species identification
plant damage
supply chain
computer simulation
bioinformatics
chemistry
Spain
developmental stages

Keywords

  • Gelechiidae
  • Invasive pest
  • Single-nucleotide polymorphism
  • South American tomato pinworm
  • Tomato borer
  • Tomato leaf miner

ASJC Scopus subject areas

  • Agronomy and Crop Science

Cite this

Sequencing of Tuta absoluta genome to develop SNP genotyping assays for species identification. / Tabuloc, Christine A.; Lewald, Kyle M.; Conner, William R.; Lee, Yoosook; Lee, Ernest K.; Cain, Alexander B.; Godfrey, Kristine E.; Arnó, Judit; Agustí, Nuria; Perini, Clerison R.; Guedes, Jerson C.; Zalom, Frank G.; Chiu, Joanna C.

In: Journal of Pest Science, 01.01.2019.

Research output: Contribution to journalArticle

Tabuloc, CA, Lewald, KM, Conner, WR, Lee, Y, Lee, EK, Cain, AB, Godfrey, KE, Arnó, J, Agustí, N, Perini, CR, Guedes, JC, Zalom, FG & Chiu, JC 2019, 'Sequencing of Tuta absoluta genome to develop SNP genotyping assays for species identification', Journal of Pest Science. https://doi.org/10.1007/s10340-019-01116-6
Tabuloc, Christine A. ; Lewald, Kyle M. ; Conner, William R. ; Lee, Yoosook ; Lee, Ernest K. ; Cain, Alexander B. ; Godfrey, Kristine E. ; Arnó, Judit ; Agustí, Nuria ; Perini, Clerison R. ; Guedes, Jerson C. ; Zalom, Frank G. ; Chiu, Joanna C. / Sequencing of Tuta absoluta genome to develop SNP genotyping assays for species identification. In: Journal of Pest Science. 2019.
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