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Rachapudi, Suneel Sekhar, 2019. Molecular detection and characterization of begomoviruses from Burkina Faso and Nicaragua. Second cycle, A1E. Uppsala: SLU, Dept. Of Plant Biology

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Abstract

Agriculture plays a major role in the economy of countries in Africa and America. Viruses have emerged as major plant pathogens during the last few decades on agriculturally important field crop plants. The genus Begomovirus belongs to the family Geminiviridae, which is the largest family of plant-infecting viruses. Geminiviruses can infect both monocot and dicot plants. Begomoviruses have circular, single-stranded DNA (css-DNA) genomes with one or two equally sized genome components (~2.7 kb each). In previous studies, the begomoviruses, tomato leaf curl Mali virus (ToLCMLV), tomato yellow leaf curl Mali virus (ToYLCMV) and pepper yellow vein Mali virus (PeYVMLV) were found in tomato (Solanum lycopersicum) plants from Burkina Faso, while bean golden yellow mosaic virus (BGYMV) and calopogonium golden mosaic virus (CalGMV) had been found in common bean (Phaseolus vulgaris) plants from Nicaragua.

The aim of this study was to confirm the reported infections by these viruses in tomato plants as well as common beans plants. Another aim of this study was to amplify the full-length genomes of CalGMV and BGYMV since only partial DNA sequences were determined in the previous study on bean-infecting begomoviruses from Nicaragua. Sequencing results of cloned amplification products derived from rolling circle amplification (RCA) of tomato plants from Burkina Faso showed the highest nucleotide identity to okra yellow crinkle virus (OkYCrV) and okra yellow mosaic Mexican virus (OYMMV), and contamination was probably the most likely reason for this result. Sequencing results of PCR products of the coat protein gene from two samples of common beans from Nicaragua showed highest nucleotide (nt) identity at 98% with BGYMV (sample 2a) or 86-88% with CalGMV (sample 15c). Moreover, the corresponding full-length sequences of DNA-A components showed 99% identity with BGYMV or 94% with the partial sequence of CalGMV available in GenBank (AF439402). Previously no complete sequence of CalGMV existed so the full-length sequences of 15c can be considered as the first full-length sequences of the DNA-A component of CalGMV.

Main title:Molecular detection and characterization of begomoviruses from Burkina Faso and Nicaragua
Authors:Rachapudi, Suneel Sekhar
Supervisor:Kvarnheden, Anders and Sattar, Muhammad Naeem
Examiner:Meijer, Johan
Series:Examensarbete / Institutionen för växtbiologi, SLU
Volume/Sequential designation:147
Year of Publication:2019
Level and depth descriptor:Second cycle, A1E
Student's programme affiliation:NM003 Biotechnology - Master's Programme 120 HEC
Supervising department:(NL, NJ) > Dept. Of Plant Biology
Keywords:geminivirus, begomovirus, Calopogonium mosaic virus, Bean golden mosaic virus, Phaseolus vulgaris, polymerase chain reaction, rolling circle amplification
URN:NBN:urn:nbn:se:slu:epsilon-s-10255
Permanent URL:
http://urn.kb.se/resolve?urn=urn:nbn:se:slu:epsilon-s-10255
Subjects:Plant diseases
Language:English
Additional Information:The thesis is part of the department series: Examensarbete / Institutionen för växtbiologi, SLU
Deposited On:12 Mar 2019 08:38
Metadata Last Modified:13 Mar 2019 02:00

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