PCI Genomics

Title

Nucleosome patterns in four plant pathogenic fungi with contrasted genome structuresuse asterix (*) to get italics

Authors

Colin Clairet, Nicolas Lapalu, Adeline Simon, Jessica L. Soyer, Muriel Viaud, Enric Zehraoui, Berengere Dalmais, Isabelle Fudal, Nadia PontsPlease use the format "First name initials family name" as in "Marie S. Curie, Niels H. D. Bohr, Albert Einstein, John R. R. Tolkien, Donna T. Strickland"

Year

2022

Picture

Abstract

<p style="text-align: justify;">Fungal pathogens represent a serious threat towards agriculture, health, and environment. Control of fungal diseases on crops necessitates a global understanding of fungal pathogenicity determinants and their expression during infection. Genomes of phytopathogenic fungi are often compartmentalized: the core genome contains housekeeping genes whereas the fast-evolving genome mainly contains transposable elements and species-specific genes. In this study, we analysed nucleosome landscapes of four phytopathogenic fungi with contrasted genome organizations to describe and compare nucleosome repartition patterns in relation with genome structure and gene expression level. We combined MNase-seq and RNA-seq analyses to concomitantly map nucleosome-rich and transcriptionally active regions during fungal growth in axenic culture; we developed the MNase-seq Tool Suite (MSTS) to analyse and visualise data obtained from MNase-seq experiments in combination with other genomic data and notably RNA-seq expression data. We observed different characteristics of nucleosome profiles between species, as well as between genomic regions within the same species. We further linked nucleosome repartition and gene expression. Our findings support that nucleosome positioning and occupancies are subjected to evolution, in relation with underlying genome sequence modifications. Understanding genomic organization and its role in expression regulation is the next gear to understand complex cellular mechanisms and their evolution.</p>

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https://www.ncbi.nlm.nih.gov/sra/?term=PRJNA580372, https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE150127, https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE162838, https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE162839You should fill this box only if you chose 'All or part of the results presented in this preprint are based on data'. URL must start with http:// or https://

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Keywords

None

Methods that require specific expertise (optional)

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Thematic fields

Epigenomics, Fungi

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Submission date

2021-04-17 10:32:41

Recommender

Sébastien Bloyer

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