Genome assembly of Thaumatotibia leucotreta, a major polyphagous pest of agriculture in sub-Saharan Africa.

Publisher: Oxford University Press Country of Publication: England NLM ID: 101566598 Publication Model: Print Cited Medium: Internet ISSN: 2160-1836 (Electronic) Linking ISSN: 21601836 NLM ISO Abbreviation: G3 (Bethesda) Subsets: MEDLINE

Publication: 2021- : [Oxford] : Oxford University Press
Original Publication: Bethesda, MD : Genetics Society of America, 2011-

Commerce* ; Moths*/genetics; Male ; Animals ; Internationality ; Insecticide Resistance ; South Africa

The false codling moth (FCM; Thaumatotibia leucotreta, Meyrick; Lepidoptera: Tortricidae) is a highly polyphagous, major agricultural pest indigenous to sub-Saharan Africa. With growing international trade, there is an increasing concern about introducing this pest into other countries. In South Africa, FCM poses a risk to multiple crops, and is currently suppressed through a combination of chemical, microbial, cultural, augmentative biological control, and the sterile insect technique. Compared with other lepidopteran agricultural pests, such as codling moth Cydia pomonella, genetic and other -omic resources for FCM have not been as well developed and/or not made publicly available to date. The need to develop genomic resources to address questions around insecticide resistance, chemosensory capabilities, and ultimately, develop novel control methods (e.g. gene editing) of this pest is highlighted. In this study, an adult male was sequenced using long-read PacBio Sequel II reads and Illumina NextSeq short reads and assembled using a hybrid assembly pipeline and Pilon error correction. Using the chromosome-level genome assembly of Cy. pomonella, we performed comparative analysis, arranged FCM scaffolds to chromosomes, and investigated genetic variation related to insecticide resistance and chemosensory capabilities. This work provides a platform upon which to build future genomic research on this economically important agricultural pest.
Competing Interests: Conflicts of interest statement The authors declare no conflict of interest.
(© The Author(s) 2022. Published by Oxford University Press on behalf of the Genetics Society of America.)

Comp Biochem Physiol A Mol Integr Physiol. 2019 Mar;229:40-44. (PMID: 30502471)
Bioinformatics. 2017 Jul 15;33(14):2202-2204. (PMID: 28369201)
Genome Res. 2017 May;27(5):722-736. (PMID: 28298431)
Bioinformatics. 2013 Apr 15;29(8):1072-5. (PMID: 23422339)
Int J Environ Res Public Health. 2021 Jan 29;18(3):. (PMID: 33572807)
BMC Genomics. 2018 Jul 20;19(1):544. (PMID: 30029592)
Bioinformatics. 2009 Aug 15;25(16):2078-9. (PMID: 19505943)
Insects. 2022 Mar 23;13(4):. (PMID: 35447757)
J Mol Biol. 1990 Oct 5;215(3):403-10. (PMID: 2231712)
Nat Commun. 2019 Sep 17;10(1):4237. (PMID: 31530873)
Bioinformatics. 2010 Mar 1;26(5):589-95. (PMID: 20080505)
Bioinformatics. 2014 Aug 1;30(15):2114-20. (PMID: 24695404)
Insect Biochem Mol Biol. 2019 Apr;107:53-62. (PMID: 30802494)
Bioinformatics. 2015 Oct 1;31(19):3210-2. (PMID: 26059717)
Bioinformatics. 2014 Oct;30(19):2811-2. (PMID: 24930139)
Genome Res. 2008 Jan;18(1):188-96. (PMID: 18025269)
Pest Manag Sci. 2007 Sep;63(9):890-902. (PMID: 17665366)
BMC Bioinformatics. 2018 Nov 29;19(1):460. (PMID: 30497373)
Bioinformatics. 2014 Jan 1;30(1):31-7. (PMID: 23732276)
Front Physiol. 2021 Mar 05;12:636353. (PMID: 33762968)
Bull Entomol Res. 2021 Feb;111(1):17-30. (PMID: 32613917)
J Comput Biol. 2012 May;19(5):455-77. (PMID: 22506599)
Elife. 2018 Jan 29;7:. (PMID: 29376823)
Pest Manag Sci. 2020 Aug;76(8):2674-2680. (PMID: 32133753)

Keywords: Thaumatotibia leucotreta; agricultural pest; hybrid genome assembly; polyphagous

Date Created: 20221213 Date Completed: 20230313 Latest Revision: 20230915

20231215

PMC10469399

10.1093/g3journal/jkac328

36510844