Sugarcane mosaic virus mediated changes in cytosine methylation pattern and differentially transcribed fragments in resistance-contrasting sugarcane genotypes

Autor: Ricardo Harakava, Marcel Fernando da Silva, Cibele Nataliane Medeiros, Luciana Rossini Pinto, Marcos Guimarães de Andrade Landell, Michael dos Santos Brito, Marcos Cesar Gonçalves
Přispěvatelé: Universidade Estadual Paulista (Unesp), Universidade de São Paulo (USP), Universidade Federal de São Paulo (UNIFESP), Inst Agron
Jazyk: angličtina
Rok vydání: 2020
Předmět:
0106 biological sciences
0301 basic medicine
Protein Structure Comparison
Candidate gene
Transcription
Genetic
Potyvirus
01 natural sciences
Biochemistry
Database and Informatics Methods
Gene Expression Regulation
Plant
Genotype
Macromolecular Structure Analysis
Disease Resistance
Genetics
Regulation of gene expression
Principal Component Analysis
Multidisciplinary
DNA methylation
biology
Nucleotides
Organic Compounds
Chemical Reactions
Eukaryota
Agriculture
Plants
Chromatin
Saccharum
Nucleic acids
Chemistry
Sugarcane mosaic virus
CpG site
Physical Sciences
Medicine
Epigenetics
DNA modification
Sequence Analysis
Chromatin modification
Research Article
Chromosome biology
Cell biology
Protein Structure
Bioinformatics
Science
Crops
Research and Analysis Methods
Methylation
03 medical and health sciences
Cytosine
Tandem repeat
Protein Domains
Grasses
RNA
Messenger
Molecular Biology
Plant Diseases
Biology and life sciences
Organic Chemistry
Chemical Compounds
Organisms
Proteins
DNA
Sugarcane
biology.organism_classification
030104 developmental biology
Pyrimidines
Gene expression
Sequence Alignment
010606 plant biology & botany
Crop Science
Zdroj: PLoS ONE
Web of Science
Repositório Institucional da UNESP
Universidade Estadual Paulista (UNESP)
instacron:UNESP
PLoS ONE, Vol 15, Iss 11, p e0241493 (2020)
ISSN: 1932-6203
Popis: Made available in DSpace on 2021-06-25T12:25:59Z (GMT). No. of bitstreams: 0 Previous issue date: 2020-11-09 Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq) Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP) Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES) Sugarcane mosaic virus (SCMV) is the causal agent of sugarcane mosaic disease (SMD) in Brazil; it is mainly controlled by using resistant cultivars. Studies on the changes in sugarcane transcriptome provided the first insights about the molecular basis underlying the genetic resistance to SMD; nonetheless, epigenetic modifications such as cytosine methylation is also informative, considering its roles in gene expression regulation. In our previous study, differentially transcribed fragments (DTFs) were obtained using cDNA-amplified fragment length polymorphism by comparing mock- and SCMV-inoculated plants from two sugarcane cultivars with contrasting responses to SMD. In this study, the identification of unexplored DTFs was continued while the same leaf samples were used to evaluate SCMV-mediated changes in the cytosine methylation pattern by using methylation-sensitive amplification polymorphism. This analysis revealed minor changes in cytosine methylation in response to SCMV infection, but distinct changes between the cultivars with contrasting responses to SMD, with higher hypomethylation events 24 and 72 h post-inoculation in the resistant cultivar. The differentially methylated fragments (DMFs) aligned with transcripts, putative promoters, and genomic regions, with a preponderant distribution within CpG islands. The transcripts found were associated with plant immunity and other stress responses, epigenetic changes, and transposable elements. The DTFs aligned with transcripts assigned to stress responses, epigenetic changes, photosynthesis, lipid transport, and oxidoreductases, in which the transcriptional start site is located in proximity with CpG islands and tandem repeats. Real-time quantitative polymerase chain reaction results revealed significant upregulation in the resistant cultivar of aspartyl protease and VQ protein, respectively, selected from DMF and DTF alignments, suggesting their roles in genetic resistance to SMD and supporting the influence of cytosine methylation in gene expression. Thus, we identified new candidate genes for further validation and showed that the changes in cytosine methylation may regulate important mechanisms underlying the genetic resistance to SMD. Univ Estadual Paulista, Fac Ciencias Agr & Vet FCAV, Biol Aplicada Agr, Jaboticabal, SP, Brazil Inst Biol, Crop Protect Res Ctr, Sao Paulo, Brazil Univ Fed Sao Paulo, Dept Ciencia & Tecnol, Inst Ciencia & Tecnol, Sao Jose Dos Campos, SP, Brazil Inst Agron, Ctr Cana, Ribeirao Preto, SP, Brazil Univ Estadual Paulista, Fac Ciencias Agr & Vet FCAV, Biol Aplicada Agr, Jaboticabal, SP, Brazil CNPq: 424050/2016-1 FAPESP: 2012/15060-6 FAPESP: 08/56146-5 CAPES: 001
Databáze: OpenAIRE
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