Whole genome sequence analysis of unidentified genetically modified papaya for development of a specific detection method. (15th August 2016)

• Record Type: Journal Article
• Authors: Nakamura, Kosuke; Kondo, Kazunari; Akiyama, Hiroshi; Ishigaki, Takumi; Noguchi, Akio; Katsumata, Hiroshi; Takasaki, Kazuto; Futo, Satoshi; Sakata, Kozue; Fukuda, Nozomi; Mano, Junichi; Kitta, Kazumi; Tanaka, Hidenori; Akashi, Ryo; Nishimaki-Mogami, Tomoko
• Is Part Of: Food chemistry. Volume 205(2016)
• Page Start: 272
• Page End: 279
• Publication Date: 2016-08-15
• Subjects: bp base pair -- Chy chymopapain -- Ct threshold cycle -- ΔRn change in normalized reporter signal -- DNA deoxyribonucleic acid -- FAM 6-carboxyfluorescein -- GM genetically modified -- LOD limit of detection -- NOSt nopaline synthase terminator -- NPTII neomycin phosphotransferase II -- P35S Cauliflower mosaic virus 35S RNA promoter -- PRSV Papaya ringspot virus -- CP coat protein -- PCR polymerase chain reaction -- QV quality value -- RSD relative standard deviation -- TAMRA 6-carboxytetramethyl-rhodamine -- UV ultraviolet; Genetically modified -- Transgenic sequence -- Next-generation sequencer -- Genome sequence -- Real-time PCR -- Carica papaya L.; Food -- Analysis -- Periodicals; Food -- Composition -- Periodicals; 664
• DOI: 10.1016/j.foodchem.2016.02.157
• Languages: English
• ISSNs: 0308-8146

Abstract

Highlights: Unknown genetically modified (GM) papaya ( Carica papaya Linnaeus) was identified by whole genome sequence analysis. Contigs having transgenic construct- and event-specific DNA sequences in GM papaya were found. Searches of GM papaya whole genome sequence data were possible using common transgenic sequences (>17 bp). A method for real-time PCR detection of GM papaya from whole genome sequence data was developed. Abstract: Identification of transgenic sequences in an unknown genetically modified (GM) papaya ( Carica papaya L.) by whole genome sequence analysis was demonstrated. Whole genome sequence data were generated for a GM-positive fresh papaya fruit commodity detected in monitoring using real-time polymerase chain reaction (PCR). The sequences obtained were mapped against an open database for papaya genome sequence. Transgenic construct- and event-specific sequences were identified as a GM papaya developed to resist infection from a Papaya ringspot virus . Based on the transgenic sequences, a specific real-time PCR detection method for GM papaya applicable to various food commodities was developed. Whole genome sequence analysis enabled identifying unknown transgenic construct- and event-specific sequences in GM papaya and development of a reliable method for detecting them in papaya food commodities.