Detection and characterization of viruses of sweetpotatoes (Ipomoea batatas L.) from Guatemala and Honduras

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http://urn.fi/URN:NBN:fi:hulib-201507211915
Title: Detection and characterization of viruses of sweetpotatoes (Ipomoea batatas L.) from Guatemala and Honduras
Author: Kashif, Muhammad
Contributor: University of Helsinki, Faculty of Agriculture and Forestry, Department of Agricultural Sciences
Publisher: Helsingfors universitet
Date: 2012
Language: eng
URI: http://urn.fi/URN:NBN:fi:hulib-201507211915
http://hdl.handle.net/10138/33545
Thesis level: master's thesis
Discipline: Växtproduktionsvetenskap (växtpatologi / växtvirologi)
Plant Production Science (Plant pathology / Plant virology)
Kasvintuotantotieteet (kasvipatologia / kasvivirologia)
Abstract: Sweetpotato is a subsistence crop for many thousands of families across the globe. The present studies in the thesis provide basic knowledge about Sweet potato chlorotic stunt virus (SPCSV) and Sweet potato feathery mottle virus (SPFMV) that were detected and characterized from sweetpotatoes in Guatemala and Honduras. Sweetpotato plants from Central American countries were showing typical virus-like symptoms. Different strategies were adopted for virus detection. SPCSV and SPFMV were found to be infecting sweetpotato plants. SPFMV was detected only in sweetpotato plants from Honduras. SPFMV infection was detected serologically and results were confirmed by RT-PCR and sequencing. A recently developed detection method, based on restrictotypes of PCR products by two different endonucleases, revealed co-infection of SPFMV strains C and RC in a sweetpotato plant from Honduras which was corroborated by sequencing 3'-proximal end (1.8 kb) of the genome and the coat protein (CP) ~940 nt based phylogenetic analysis. SPCSV was detected by double-stranded RNA extraction, confirmed by RT-PCR and subsequent sequencing of the partial HSP70h gene of genomic RNA2 gene of SPCSV. Phylogenetic analysis was done by constructing neighbour-joining tree of aligned nucleotide sequences, including SPCSV-EA isolates and SPCSV-WA isolates from database that clearly differentiated SPCSV isolates of Central American countries. These isolates from Guatemala and Honduras were grouped together with SPCSV-WA isolates from Argentina, United States, Spain, Israel, Nigeria and Egypt. Additionally, the RNase3 gene with UTR at 3´ end of genomic RNA1 gene of SPCSV was sequenced (1264 nt) and aligned against other WA isolates. It was found that the gene for the silencing suppressor protein p22 (676nt) was missing, reflecting intraspecific variation in the genomic structure of SPCSV. These findings revealed the two most important sweetpotato viruses in Guatemala, Honduras, and Central America for the first time and urge further studies of sweetpotato viruses in the region.
Subject: Sweet potato chlorotic stunt virus
Sweet potato feathery mottle virus
intraspecific variability
Restriction analysis
common and russet crack strains of SPFMV
West African strain of SPCSV
Ipomoea batatas
sweetpotato
heat shock protein 70 homologue
detection


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