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Published on: July 27, 2018
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Evolutionary study of maize dwarf mosaic virus using nearly complete genome sequences acquired by next-generation
Dulanjani Wijayasekara1, Akhtar Ali2,3
1Department of Biological Science, The University of Tulsa, Tulsa, OK, 74104, USA.
Scientific Reports
|September 23, 2021
Summary
Next-generation sequencing revealed genetic diversity in Maize dwarf mosaic virus (MDMV) isolates from maize and Johnsongrass. Analysis showed distinct evolutionary clusters and negative selection, indicating significant USA MDMV divergence.
Area of Science:
- Plant Virology
- Genomics
- Evolutionary Biology
Background:
- Maize dwarf mosaic virus (MDMV) poses a significant threat to global maize production.
- Traditional sequencing methods are time-consuming for plant virus genome analysis.
Purpose of the Study:
- To determine the genetic diversity and evolutionary relationships of MDMV isolates from maize and Johnsongrass in the USA.
- To utilize next-generation sequencing for rapid plant virus genome analysis.
Main Methods:
- Sequencing of 19 MDMV isolates (10 Johnsongrass, 9 maize) using Illumina technology.
- Assembly of nearly complete viral genomes and phylogenetic analysis based on nucleotide and amino acid sequences.
- Statistical analysis of gene-specific selection and fixation index (FST) to assess gene flow and divergence.
Main Results:
- Obtained 19 nearly complete MDMV genome sequences, revealing two main phylogenetic clusters.
- Phylogenetic analysis indicated a close evolutionary relationship among isolates but significant divergence between clusters.
- All genes were under negative selection, and FST analysis showed no gene flow between clusters.
- The P1 gene coding region exhibited the highest mean genetic distance and nucleotide diversity among USA MDMV isolates.
Conclusions:
- This study provides the first comprehensive analysis of MDMV evolutionary relationships using nearly complete genomes.
- The findings highlight the divergence of USA MDMV isolates and identify the P1 gene as a key area of genetic variation.
- Next-generation sequencing is confirmed as an efficient method for plant virus genome studies.
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