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Genomics

Title:		Mapping and identification of potential target genes from short-RNA seq for the control of Pieris rapae larvae
Author(s):		Senthil Kumar R; Srinivasan R; Rawdzah MA; Malini P;
Address:		"World Vegetable Center, Shanhua, Tainan, Taiwan. World Vegetable Center, Shanhua, Tainan, Taiwan. Electronic address: srini.ramasamy@worldveg.org. World Vegetable Center, Shanhua, Tainan, Taiwan; Universiti Kebangsaan Malaysia, 43600 Bangi, Selangor, Malaysia"
Journal Title:		Genomics
Year:		2020
Volume:		20190823
Issue:		2
Page Number:		1464 - 1476
DOI:		10.1016/j.ygeno.2019.08.017
ISSN/ISBN:		1089-8646 (Electronic) 0888-7543 (Linking)
Abstract:		"Pieris rapae is a serious pest of brassicas worldwide. We performed de novo assembly of P. rapae transcriptome by next-generation sequencing and assembled approximately 65,727,422 clean paired-end reads into 32,118 unigenes, of which 13,585 were mapped to 255 pathways in the KEGG database. A total of 6173 novel transcripts were identified from reads directly mapped to P. rapae genome. Additionally, 1490 SSRs, 301,377 SNPs, and 29,284 InDels were identified as potential molecular markers to explore polymorphism within P. rapae populations. We screened and mapped 36 transcripts related to OBP, CSP, SNMP, PBAN, and OR. We analyzed the expression profiles of 7 selected genes involved in pheromone transport and degradation by quantitative real-time PCR; these genes are sex-specific and differentially expressed in the developmental stages. Overall, the comprehensive transcriptome resources described in this study could help understand and identify molecular targets particularly reproduction-related genes for developing effective P. rapae management tools"
Keywords:		"Animals Female *Gene Expression Regulation, Developmental Gene Regulatory Networks *Genes, Insect Larva/genetics/growth & development Lepidoptera/*genetics/growth & development Male RNA, Small Untranslated/*genetics/metabolism Sex Attractants/genetics/met;"
Notes:		"MedlineSenthil Kumar, Rajendran Srinivasan, Ramasamy Rawdzah, Mat Ali Malini, Periasamy eng Research Support, Non-U.S. Gov't 2019/08/27 Genomics. 2020 Mar; 112(2):1464-1476. doi: 10.1016/j.ygeno.2019.08.017. Epub 2019 Aug 23"