Transcriptome-wide N6-methyladenosine (m6A) methylation in watermelon under CGMMV infection

Abstract Background Cucumber green mottle mosaic virus (CGMMV) causes substantial global losses in cucurbit crops, especially watermelon. N6-methyladenosine (m6A) methylation in RNA is one of the most important post-transcriptional modification mechanisms in eukaryotes. It has been shown to have imp...

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Autores principales:	Yanjun He, Lili Li, Yixiu Yao, Yulin Li, Huiqing Zhang, Min Fan
Formato:	article
Lenguaje:	EN
Publicado:	BMC 2021
Materias:	Watermelon Cucumber green mottle mosaic virus (CGMMV) m6A methylation m6A-seq RNA-seq Botany QK1-989
Acceso en línea:	https://doaj.org/article/5e598d9372a14420ae78b1ef9070f717
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spelling	oai:doaj.org-article:5e598d9372a14420ae78b1ef9070f7172021-11-14T12:09:14ZTranscriptome-wide N6-methyladenosine (m6A) methylation in watermelon under CGMMV infection10.1186/s12870-021-03289-81471-2229https://doaj.org/article/5e598d9372a14420ae78b1ef9070f7172021-11-01T00:00:00Zhttps://doi.org/10.1186/s12870-021-03289-8https://doaj.org/toc/1471-2229Abstract Background Cucumber green mottle mosaic virus (CGMMV) causes substantial global losses in cucurbit crops, especially watermelon. N6-methyladenosine (m6A) methylation in RNA is one of the most important post-transcriptional modification mechanisms in eukaryotes. It has been shown to have important regulatory functions in some model plants, but there has been no research regarding m6A modifications in watermelon. Results We measured the global m6A level in resistant watermelon after CGMMV infection using a colorimetric method. And the results found that the global m6A level significantly decreased in resistant watermelon after CGMMV infection. Specifically, m6A libraries were constructed for the resistant watermelon leaves collected 48 h after CGMMV infection and the whole-genome m6A-seq were carried out. Numerous m6A modified peaks were identified from CGMMV-infected and control (uninfected) samples. The modification distributions and motifs of these m6A peaks were highly conserved in watermelon transcripts but the modification was more abundant than in other reported crop plants. In early response to CGMMV infection, 422 differentially methylated genes (DMGs) were identified, most of which were hypomethylated, and probably associated with the increased expression of watermelon m6A demethylase gene ClALKBH4B. Gene Ontology (GO) analysis indicated quite a few DMGs were involved in RNA biology and stress responsive pathways. Combined with RNA-seq analysis, there was generally a negative correlation between m6A RNA methylation and transcript level in the watermelon transcriptome. Both the m6A methylation and transcript levels of 59 modified genes significantly changed in response to CGMMV infection and some were involved in plant immunity. Conclusions Our study represents the first comprehensive characterization of m6A patterns in the watermelon transcriptome and helps to clarify the roles and regulatory mechanisms of m6A modification in watermelon in early responses to CGMMV.Yanjun HeLili LiYixiu YaoYulin LiHuiqing ZhangMin FanBMCarticleWatermelonCucumber green mottle mosaic virus (CGMMV)m6A methylationm6A-seqRNA-seqBotanyQK1-989ENBMC Plant Biology, Vol 21, Iss 1, Pp 1-14 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Watermelon Cucumber green mottle mosaic virus (CGMMV) m6A methylation m6A-seq RNA-seq Botany QK1-989
spellingShingle	Watermelon Cucumber green mottle mosaic virus (CGMMV) m6A methylation m6A-seq RNA-seq Botany QK1-989 Yanjun He Lili Li Yixiu Yao Yulin Li Huiqing Zhang Min Fan Transcriptome-wide N6-methyladenosine (m6A) methylation in watermelon under CGMMV infection
description	Abstract Background Cucumber green mottle mosaic virus (CGMMV) causes substantial global losses in cucurbit crops, especially watermelon. N6-methyladenosine (m6A) methylation in RNA is one of the most important post-transcriptional modification mechanisms in eukaryotes. It has been shown to have important regulatory functions in some model plants, but there has been no research regarding m6A modifications in watermelon. Results We measured the global m6A level in resistant watermelon after CGMMV infection using a colorimetric method. And the results found that the global m6A level significantly decreased in resistant watermelon after CGMMV infection. Specifically, m6A libraries were constructed for the resistant watermelon leaves collected 48 h after CGMMV infection and the whole-genome m6A-seq were carried out. Numerous m6A modified peaks were identified from CGMMV-infected and control (uninfected) samples. The modification distributions and motifs of these m6A peaks were highly conserved in watermelon transcripts but the modification was more abundant than in other reported crop plants. In early response to CGMMV infection, 422 differentially methylated genes (DMGs) were identified, most of which were hypomethylated, and probably associated with the increased expression of watermelon m6A demethylase gene ClALKBH4B. Gene Ontology (GO) analysis indicated quite a few DMGs were involved in RNA biology and stress responsive pathways. Combined with RNA-seq analysis, there was generally a negative correlation between m6A RNA methylation and transcript level in the watermelon transcriptome. Both the m6A methylation and transcript levels of 59 modified genes significantly changed in response to CGMMV infection and some were involved in plant immunity. Conclusions Our study represents the first comprehensive characterization of m6A patterns in the watermelon transcriptome and helps to clarify the roles and regulatory mechanisms of m6A modification in watermelon in early responses to CGMMV.
format	article
author	Yanjun He Lili Li Yixiu Yao Yulin Li Huiqing Zhang Min Fan
author_facet	Yanjun He Lili Li Yixiu Yao Yulin Li Huiqing Zhang Min Fan
author_sort	Yanjun He
title	Transcriptome-wide N6-methyladenosine (m6A) methylation in watermelon under CGMMV infection
title_short	Transcriptome-wide N6-methyladenosine (m6A) methylation in watermelon under CGMMV infection
title_full	Transcriptome-wide N6-methyladenosine (m6A) methylation in watermelon under CGMMV infection
title_fullStr	Transcriptome-wide N6-methyladenosine (m6A) methylation in watermelon under CGMMV infection
title_full_unstemmed	Transcriptome-wide N6-methyladenosine (m6A) methylation in watermelon under CGMMV infection
title_sort	transcriptome-wide n6-methyladenosine (m6a) methylation in watermelon under cgmmv infection
publisher	BMC
publishDate	2021
url	https://doaj.org/article/5e598d9372a14420ae78b1ef9070f717
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Transcriptome-wide N6-methyladenosine (m6A) methylation in watermelon under CGMMV infection

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