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Uncovering genetic regulatory network divergence between duplicate genes using yeast eQTL landscape
Yangyun Zou1, Zhixi Su, Jian Yang
1Institutes of Biomedical Sciences, Fudan University, Shanghai, China.
Gene duplication impacts gene expression regulation. Genetical genomics reveals that trans-acting eQTL divergence increases with evolutionary time and influences biological processes and fitness.
Area of Science:
- Genetics
- Systems Biology
- Evolutionary Biology
Background:
- Genetical genomics integrates microarray technology and quantitative genetics to identify expression quantitative trait loci (eQTLs).
- Understanding how gene duplication affects genome-wide expression patterns is crucial for evolutionary studies.
Purpose of the Study:
- To investigate the divergence of genetic eQTL regulation in yeast ancestral genes after duplication.
- To assess the contribution of eQTL divergence to expression divergence and its relation to gene function and fitness.
Main Methods:
- Analysis of yeast genomic eQTL data.
- Quantitative genetic analysis of gene expression heritability, epistasis, and directional effects.
- Assessment of trans-acting eQTL divergence and transcription factor (TF)-target interaction divergence.
- Correlation analysis with gene ontology categories and fitness defects.
Main Results:
- Duplicate genes exhibit higher expression heritability than single-copy genes.
- Trans-acting eQTL divergence increases with evolutionary time since gene duplication.
- Trans-acting eQTL divergence explains significant variation in expression divergence, especially when combined with TF-target interaction divergence.
- eQTL divergence is linked to "Biological processes" and "Cellular components" and impacts fitness under stress.
Conclusions:
- eQTL analysis offers a novel approach to study the impact of gene duplication on genetic regulatory networks.
- Divergence in trans-acting eQTLs plays a significant role in the evolution of gene expression post-duplication.
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