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Two consequences of genome merging on gene expression remain particularly poorly understood: dosage effects and evolution of expression.<\/jats:p><\/jats:list-item>\n<jats:list-item><jats:p>We employed <jats:italic>Chlamydomonas reinhardtii<\/jats:italic> as a model to investigate the effects of asymmetric genome merging by crossing a diploid with a haploid strain to create a novel triploid line. Five independent clonal lineages derived from this triploid line were evolved for 425 asexual generations in a laboratory natural selection experiment.<\/jats:p><\/jats:list-item>\n<jats:list-item><jats:p>Utilizing fitness assays, flow cytometry, and RNA\u2010Seq, we assessed the immediate consequences of genome merging and subsequent evolution. Our findings reveal substantial alterations in genome size, gene expression, protein homeostasis, and cytonuclear stoichiometry. Gene expression exhibited expression\u2010level dominance and transgressivity (i.e. expression level higher or lower than either parent). Ongoing expression\u2010level dominance and a pattern of \u2018functional dominance\u2019 from the haploid parent was observed.<\/jats:p><\/jats:list-item>\n<jats:list-item><jats:p>Despite major genomic and nucleo\u2010cytoplasmic disruptions, enhanced fitness was detected in the triploid strain. By comparing gene expression across generations, our results indicate that proteostasis restoration is a critical component of rapid adaptation following genome merging in <jats:italic>Chlamydomonas reinhardtii<\/jats:italic> and possibly other systems.<\/jats:p><\/jats:list-item>\n<\/jats:list><\/jats:p>","DOI":"10.1111\/nph.20249","type":"journal-article","created":{"date-parts":[[2024,11,6]],"date-time":"2024-11-06T06:59:57Z","timestamp":1730876397000},"page":"869-884","update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":7,"title":["Asymmetric genome merging leads to gene expression novelty through nucleo\u2010cytoplasmic disruptions and transcriptomic shock in <i>Chlamydomonas<\/i> triploids"],"prefix":"10.1111","volume":"245","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-2779-9097","authenticated-orcid":false,"given":"Lucas","family":"Prost\u2010Boxoen","sequence":"first","affiliation":[{"name":"Department of Plant 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