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Unifying framework explaining how parental regulatory divergence can drive gene expression in hybrids and allopolyploids
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SYSNO ASEP 0600014 Document Type J - Journal Article R&D Document Type Journal Article Subsidiary J Článek ve WOS Title Unifying framework explaining how parental regulatory divergence can drive gene expression in hybrids and allopolyploids Author(s) Janko, Karel (UZFG-Y) ORCID
Eisner, J. (CZ)
Cígler, Petr (UOCHB-X) RID, ORCID
Tichopád, T. (CZ)Article number 8714 Source Title Nature Communications. - : Nature Publishing Group - ISSN 2041-1723
Roč. 15, č. 1 (2024)Number of pages 16 s. Publication form Online - E Language eng - English Country US - United States Keywords hybridization ; polyploidy ; gene expression OECD category Biology (theoretical, mathematical, thermal, cryobiology, biological rhythm), Evolutionary biology R&D Projects GA21-25185S GA ČR - Czech Science Foundation (CSF) EF15_003/0000460 GA MŠMT - Ministry of Education, Youth and Sports (MEYS) EH22_008/0004558 GA MŠMT - Ministry of Education, Youth and Sports (MEYS) Method of publishing Open access Institutional support UZFG-Y - RVO:67985904 ; UOCHB-X - RVO:61388963 UT WOS 001331421200024 EID SCOPUS 85205985805 DOI https://doi.org/10.1038/s41467-024-52546-5 Annotation Hybridization and polyploidy are powerful evolutionary forces, inducing a range of phenotypic outcomes, including non-additive expression, subgenome dominance, deviations in genomic dosage, and transcriptome downsizing. The reasons for these patterns and whether they are universal adaptive responses to genome merging and doubling remain debated. To address this, we develop a thermodynamic model of gene expression based on transcription factor (TF)-promoter binding. Applied to hybridization between species with divergent gene expression levels, cell volumes, or euchromatic ratios, this model distinguishes the effects of hybridization from those of polyploidy. Our results align with empirical observations, suggesting that gene regulation patterns in hybrids and polyploids often stem from the constrained interplay between inherited diverged regulatory networks rather than from subsequent adaptive evolution. In addition, occurrence of certain phenotypic traits depend on specific assumptions about promoter-TF coevolution and their distribution within the hybrid's nucleoplasm, offering new research avenues to understand the underlying mechanisms. In summary, our model explains how the legacy of divergent species directly influences the phenotypic traits of hybrids and allopolyploids.
Hybridization and polyploidization influence gene expression with several prominent trends. This study uses a thermodynamic model to show that many observed gene expression patterns in hybrids and allopolyploids can be explained by regulatory divergence between parents, revealing the complex interplay of admixed regulatory networks.Workplace Institute of Animal Physiology and Genetics Contact Jana Zásmětová, knihovna@iapg.cas.cz, Tel.: 315 639 554 Year of Publishing 2025 Electronic address https://www.nature.com/articles/s41467-024-52546-5
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