Publication Date
2016
Document Type
Dissertation/Thesis
First Advisor
Bujarski, Jozef J.
Degree Name
M.S. (Master of Science)
Legacy Department
Department of Biological Sciences
LCSH
Beans--Diseases and pests; Plants--Diseases and pests; Plant viruses
Abstract
Encapsidation of the viral genome into capsid is a highly specific process. Despite the viral RNA specificity, evidence of the host cellular RNA co-encapsidation have been shown in some insect viruses like Flock house virus (FHV) and plant viruses like Cucumber necrotic virus (CNV). This study is dedicated to finding the similar evidence of host RNA encapsidation by the two members, BBMV and CCMV of the Bromovirus family -- model virus system. The Next Generation RNA sequencing (NGS RNA-seq) can be implemented to sequence the RNAs encapsidated by the highly purified virions. We mapped and aligned the reads obtained from sequencing to the viral references to filter out the co-encapsidated non-viral reads. These co-encapsidated non-viral reads are then classified into different categories on the basis of their origin from the host plants. BBMV and CCMV co-encapsidated 1.465% and 1.323% of the host RNAs respectively. Majorities of the host RNAs encapsidated are nuclear including ribosomal RNAs (rRNAs) and messenger RNAs (mRNAs). Among the co-encapsidated plant RNAs, 21.228% and 35.220% reads are from transposable elements (TEs) in BBMV and CCMV respectively, which make these virions a potential carrier for the horizontal gene transfer (HGT) in plants.
Recommended Citation
Shrestha, Nipin, "Encapsidation of the host RNAs by broad bean mottle virus (BBMV) and cowpea chlorotic mottle virus (CCMV)" (2016). Graduate Research Theses & Dissertations. 2872.
https://huskiecommons.lib.niu.edu/allgraduate-thesesdissertations/2872
Extent
vi, 73 pages
Language
eng
Publisher
Northern Illinois University
Rights Statement
In Copyright
Rights Statement 2
NIU theses are protected by copyright. They may be viewed from Huskie Commons for any purpose, but reproduction or distribution in any format is prohibited without the written permission of the authors.
Media Type
Text
Comments
Advisors: Jozef Julian Bujarski.||Committee members: Melvin R. Duvall; Gabriel P. Holbrook.||Includes bibliographical references.||Includes illustrations.