Genome-wide DNA methylation and transcriptomic profiles in the lifestyle strategies and asexual development of the forest fungal pathogen Heterobasidion parviporum

Show full item record



Permalink

http://hdl.handle.net/10138/299869

Citation

Zeng , Z , Wu , J , Kovalchuk , A , Raffaello , T , Wen , Z , Liu , M & Asiegbu , F O 2019 , ' Genome-wide DNA methylation and transcriptomic profiles in the lifestyle strategies and asexual development of the forest fungal pathogen Heterobasidion parviporum ' , Epigenetics , vol. 14 , no. 1 , pp. 16-40 . https://doi.org/10.1080/15592294.2018.1564426

Title: Genome-wide DNA methylation and transcriptomic profiles in the lifestyle strategies and asexual development of the forest fungal pathogen Heterobasidion parviporum
Author: Zeng, Zhen; Wu, Jiayao; Kovalchuk, Andriy; Raffaello, Tommaso; Wen, Zilan; Liu, Mengxia; Asiegbu, Fred O.
Contributor: University of Helsinki, Department of Forest Sciences
University of Helsinki, Department of Forest Sciences
University of Helsinki, Department of Forest Sciences
University of Helsinki, Forest Ecology and Management
University of Helsinki, Department of Forest Sciences
University of Helsinki, Department of Forest Sciences
University of Helsinki, Department of Forest Sciences
Date: 2019-01-02
Language: eng
Number of pages: 25
Belongs to series: Epigenetics
ISSN: 1559-2294
URI: http://hdl.handle.net/10138/299869
Abstract: Heterobasidion parviporum is the most devastating fungal pathogen of conifer forests in Northern Europe. The fungus has dual life strategies, necrotrophy on living trees and saprotrophy on dead woods. DNA cytosine methylation is an important epigenetic modification in eukaryotic organisms. Our presumption is that the lifestyle transition and asexual development in H. parviporum could be driven by epigenetic effects. Involvements of DNA methylation in the regulation of aforementioned processes have never been studied thus far. RNA-seq identified lists of highly induced genes enriched in carbohydrate-active enzymes during necrotrophic interaction with host trees and saprotrophic sawdust growth. It also highlighted signaling- and transcription factor-related genes potentially associated with the transition of saprotrophic to necrotrophic lifestyle and groups of primary cellular activities throughout asexual development. Whole-genome bisulfite sequencing revealed that DNA methylation displayed pronounced preference in CpG dinucleotide context across the genome and mostly targeted transposable element (TE)-rich regions. TE methylation level demonstrated a strong negative correlation with TE expression, reinforcing the protective function of DNA methylation in fungal genome stability. Small groups of genes putatively subject to methylation transcriptional regulation in response to saprotrophic and necrotrophic growth in comparison with free-living mycelia were also explored. Our study reported on the first methylome map of a forest pathogen. Analysis of transcriptome and methylome variations associated with asexual development and different lifestyle strategies provided further understanding of basic biological processes in H. parviporum. More importantly, our work raised additional potential roles of DNA methylation in fungi apart from controlling the proliferation of TEs.
Subject: Heterobasidion parviporum
DNA cytosine methylation
necrotrophy
saprotrophy
conidiospores
free-living mycelia
asexual development
Norway spruce
DIFFERENTIAL EXPRESSION ANALYSIS
GENE-EXPRESSION
SECONDARY METABOLISM
WOOD-DECAY
ANNOTATION
MECHANISMS
REGULATORS
EVOLUTION
RESPONSES
ALIGNMENT
1182 Biochemistry, cell and molecular biology
Rights:


Files in this item

Total number of downloads: Loading...

Files Size Format View
Zhen_Zeng_Genome_wide_DNA_.pdf 4.796Mb PDF View/Open

This item appears in the following Collection(s)

Show full item record