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Population diversity of cassava mosaic begomoviruses increases over the course of serial vegetative propagation
Cassava mosaic disease (CMD) represents a serious threat to cassava, a major root crop for more than 300 million Africans. CMD is caused by single-stranded DNA begomoviruses that evolve rapidly, making it challenging to develop durable disease resistance. In addition to the evolutionary forces of mu...
Autores principales: | , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Microbiology Society
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8491896/ https://www.ncbi.nlm.nih.gov/pubmed/34310272 http://dx.doi.org/10.1099/jgv.0.001622 |
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author | Aimone, Catherine D. Lavington, Erik Hoyer, J. Steen Deppong, David O. Mickelson-Young, Leigh Jacobson, Alana Kennedy, George G. Carbone, Ignazio Hanley-Bowdoin, Linda Duffy, Siobain |
author_facet | Aimone, Catherine D. Lavington, Erik Hoyer, J. Steen Deppong, David O. Mickelson-Young, Leigh Jacobson, Alana Kennedy, George G. Carbone, Ignazio Hanley-Bowdoin, Linda Duffy, Siobain |
author_sort | Aimone, Catherine D. |
collection | PubMed |
description | Cassava mosaic disease (CMD) represents a serious threat to cassava, a major root crop for more than 300 million Africans. CMD is caused by single-stranded DNA begomoviruses that evolve rapidly, making it challenging to develop durable disease resistance. In addition to the evolutionary forces of mutation, recombination and reassortment, factors such as climate, agriculture practices and the presence of DNA satellites may impact viral diversity. To gain insight into the factors that alter and shape viral diversity in planta, we used high-throughput sequencing to characterize the accumulation of nucleotide diversity after inoculation of infectious clones corresponding to African cassava mosaic virus (ACMV) and East African cassava mosaic Cameroon virus (EACMCV) in the susceptible cassava landrace Kibandameno. We found that vegetative propagation had a significant effect on viral nucleotide diversity, while temperature and a satellite DNA did not have measurable impacts in our study. EACMCV diversity increased linearly with the number of vegetative propagation passages, while ACMV diversity increased for a time and then decreased in later passages. We observed a substitution bias toward C→T and G→A for mutations in the viral genomes consistent with field isolates. Non-coding regions excluding the promoter regions of genes showed the highest levels of nucleotide diversity for each genome component. Changes in the 5′ intergenic region of DNA-A resembled the sequence of the cognate DNA-B sequence. The majority of nucleotide changes in coding regions were non-synonymous, most with predicted deleterious effects on protein structure, indicative of relaxed selection pressure over six vegetative passages. Overall, these results underscore the importance of knowing how cropping practices affect viral evolution and disease progression. |
format | Online Article Text |
id | pubmed-8491896 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Microbiology Society |
record_format | MEDLINE/PubMed |
spelling | pubmed-84918962021-10-06 Population diversity of cassava mosaic begomoviruses increases over the course of serial vegetative propagation Aimone, Catherine D. Lavington, Erik Hoyer, J. Steen Deppong, David O. Mickelson-Young, Leigh Jacobson, Alana Kennedy, George G. Carbone, Ignazio Hanley-Bowdoin, Linda Duffy, Siobain J Gen Virol Plant Cassava mosaic disease (CMD) represents a serious threat to cassava, a major root crop for more than 300 million Africans. CMD is caused by single-stranded DNA begomoviruses that evolve rapidly, making it challenging to develop durable disease resistance. In addition to the evolutionary forces of mutation, recombination and reassortment, factors such as climate, agriculture practices and the presence of DNA satellites may impact viral diversity. To gain insight into the factors that alter and shape viral diversity in planta, we used high-throughput sequencing to characterize the accumulation of nucleotide diversity after inoculation of infectious clones corresponding to African cassava mosaic virus (ACMV) and East African cassava mosaic Cameroon virus (EACMCV) in the susceptible cassava landrace Kibandameno. We found that vegetative propagation had a significant effect on viral nucleotide diversity, while temperature and a satellite DNA did not have measurable impacts in our study. EACMCV diversity increased linearly with the number of vegetative propagation passages, while ACMV diversity increased for a time and then decreased in later passages. We observed a substitution bias toward C→T and G→A for mutations in the viral genomes consistent with field isolates. Non-coding regions excluding the promoter regions of genes showed the highest levels of nucleotide diversity for each genome component. Changes in the 5′ intergenic region of DNA-A resembled the sequence of the cognate DNA-B sequence. The majority of nucleotide changes in coding regions were non-synonymous, most with predicted deleterious effects on protein structure, indicative of relaxed selection pressure over six vegetative passages. Overall, these results underscore the importance of knowing how cropping practices affect viral evolution and disease progression. Microbiology Society 2021-07-26 /pmc/articles/PMC8491896/ /pubmed/34310272 http://dx.doi.org/10.1099/jgv.0.001622 Text en © 2021 The Authors https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License. This article was made open access via a Publish and Read agreement between the Microbiology Society and the corresponding author’s institution. |
spellingShingle | Plant Aimone, Catherine D. Lavington, Erik Hoyer, J. Steen Deppong, David O. Mickelson-Young, Leigh Jacobson, Alana Kennedy, George G. Carbone, Ignazio Hanley-Bowdoin, Linda Duffy, Siobain Population diversity of cassava mosaic begomoviruses increases over the course of serial vegetative propagation |
title | Population diversity of cassava mosaic begomoviruses increases over the course of serial vegetative propagation |
title_full | Population diversity of cassava mosaic begomoviruses increases over the course of serial vegetative propagation |
title_fullStr | Population diversity of cassava mosaic begomoviruses increases over the course of serial vegetative propagation |
title_full_unstemmed | Population diversity of cassava mosaic begomoviruses increases over the course of serial vegetative propagation |
title_short | Population diversity of cassava mosaic begomoviruses increases over the course of serial vegetative propagation |
title_sort | population diversity of cassava mosaic begomoviruses increases over the course of serial vegetative propagation |
topic | Plant |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8491896/ https://www.ncbi.nlm.nih.gov/pubmed/34310272 http://dx.doi.org/10.1099/jgv.0.001622 |
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