2018

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Browsing 2018 by Author "Syeda Kissa Ali Gardezi"

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    Isolation and characterization of Begomovirus (ES) infecting ornamental plants
    (UMT Lahore, 2018) Syeda Kissa Ali Gardezi
    Begomoviruses is a group of the viruses that affect plant production in different countries including Pakistan. Begomovirus is an emerging threat to dicot crops specifically in Punjab and Sindh. Cotton leaf curl disease (ClCuD) causes losses in billions to the economy of Pakistan thereby affecting 80-85% crop yield per year. Begomovirus genome consists of single stranded circular DNA (Deoxyribonucleic acid), transmitted exclusively by whitefly (Bemisia Tabaci). Identification of begomoviruses on weeds and fruit plants is important because they can serve as an alternative host and provide shelter, mixing vessel and inoculum source for next season field crops. Two Rhynchosia plant-leaf samples were collected from Johar town Lahore showing typical begomovirus symptoms. Total DNA was extracted using Cetyl Trimethyl Ammonium Bromide method. The DNA was subjected to polymerase chain reaction. No amplification was obtained using Beta01/02 and SON-A-F/R primer set. A 2.8 kb band size was obtained by using KTB-F/R primers. The sequence (identified as 26CG) was confirmed with sequencing. Sequence analysis showed that 26CG is a member of Rhynchosia yellow mosaic virus DNA-B (RYMV DNA-B). As predicted, Open Reading Frame (ORF) finder identified two orfs: NSP (Nuclear Shuttle Protein; 28.3 kDa) and MP (Movement Protein; 33.68 kDa). Sequence Demarcation Tool showed 96% identities of 26CG with RYMV DNA-B. Furthermore, Recombination Detection Program showed that 26CG may not be a recombinant due to its lower recombination score. Lastly, phylogenetic analysis performed with MEGA7 showed that it is a close relative of RYMV DNAB.