Pan-transcriptome Reveals a Large Accessory Genome Contribution to Gene Expression Variation in Yeast

Overview

Journal Nat Genet

Specialty Genetics

Date 2024 May 22

PMID 38778243

Authors

Elodie Caudal

Victor Loegler

Fabien Dutreux

Nikolaos Vakirlis

Elie Teyssonniere

Claudia Caradec

Anne Friedrich

Jing Hou

Joseph Schacherer

Affiliations

Soon will be listed here.

Abstract

Gene expression is an essential step in the translation of genotypes into phenotypes. However, little is known about the transcriptome architecture and the underlying genetic effects at the species level. Here we generated and analyzed the pan-transcriptome of ~1,000 yeast natural isolates across 4,977 core and 1,468 accessory genes. We found that the accessory genome is an underappreciated driver of transcriptome divergence. Global gene expression patterns combined with population structure showed that variation in heritable expression mainly lies within subpopulation-specific signatures, for which accessory genes are overrepresented. Genome-wide association analyses consistently highlighted that accessory genes are associated with proportionally more variants with larger effect sizes, illustrating the critical role of the accessory genome on the transcriptional landscape within and between populations.

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