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Biased Retention of Environment-Responsive Genes Following Genome Fractionation.
Beringer, Marc; Choudhury, Rimjhim Roy; Mandáková, Terezie; Grünig, Sandra; Poretti, Manuel; Leitch, Ilia J; Lysak, Martin A; Parisod, Christian.
Afiliación
  • Beringer M; Department of Biology, University of Fribourg, Chemin du Musée 10, 1700 Fribourg, Switzerland.
  • Choudhury RR; Institute of Plant Sciences, University of Bern, Altenbergrain 21, 3013 Bern, Switzerland.
  • Mandáková T; Department of Biology, University of Fribourg, Chemin du Musée 10, 1700 Fribourg, Switzerland.
  • Grünig S; Institute of Plant Sciences, University of Bern, Altenbergrain 21, 3013 Bern, Switzerland.
  • Poretti M; Central European Institute of Technology, Masaryk University, 625 00 Brno, Czech Republic.
  • Leitch IJ; Department of Biology, University of Fribourg, Chemin du Musée 10, 1700 Fribourg, Switzerland.
  • Lysak MA; Institute of Plant Sciences, University of Bern, Altenbergrain 21, 3013 Bern, Switzerland.
  • Parisod C; Department of Biology, University of Fribourg, Chemin du Musée 10, 1700 Fribourg, Switzerland.
Mol Biol Evol ; 41(8)2024 Aug 02.
Article en En | MEDLINE | ID: mdl-39073781
ABSTRACT
The molecular underpinnings and consequences of cycles of whole-genome duplication (WGD) and subsequent gene loss through subgenome fractionation remain largely elusive. Endogenous drivers, such as transposable elements (TEs), have been postulated to shape genome-wide dominance and biased fractionation, leading to a conserved least-fractionated (LF) subgenome and a degenerated most-fractionated (MF) subgenome. In contrast, the role of exogenous factors, such as those induced by environmental stresses, has been overlooked. In this study, a chromosome-scale assembly of the alpine buckler mustard (Biscutella laevigata; Brassicaceae) that underwent a WGD event about 11 million years ago is coupled with transcriptional responses to heat, cold, drought, and herbivory to assess how gene expression is associated with differential gene retention across the MF and LF subgenomes. Counteracting the impact of TEs in reducing the expression and retention of nearby genes across the MF subgenome, dosage balance is highlighted as a main endogenous promoter of the retention of duplicated gene products under purifying selection. Consistent with the "turn a hobby into a job" model, about one-third of environment-responsive duplicates exhibit novel expression patterns, with one copy typically remaining conditionally expressed, whereas the other copy has evolved constitutive expression, highlighting exogenous factors as a major driver of gene retention. Showing uneven patterns of fractionation, with regions remaining unbiased, but with others showing high bias and significant enrichment in environment-responsive genes, this mesopolyploid genome presents evolutionary signatures consistent with an interplay of endogenous and exogenous factors having driven gene content following WGD-fractionation cycles.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Genoma de Planta Idioma: En Revista: Mol Biol Evol Asunto de la revista: BIOLOGIA MOLECULAR Año: 2024 Tipo del documento: Article País de afiliación: Suiza Pais de publicación: Estados Unidos
Texto completo
Añadir a Mi BVS
Imprimir
XML
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Genoma de Planta Idioma: En Revista: Mol Biol Evol Asunto de la revista: BIOLOGIA MOLECULAR Año: 2024 Tipo del documento: Article País de afiliación: Suiza Pais de publicación: Estados Unidos