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Evolutionary conservation of the grape sex-determining region in angiosperms and emergence of dioecy in Vitaceae

Author

Listed:
  • Mélanie Massonnet

    (University of California Davis)

  • Noé Cochetel

    (University of California Davis)

  • Valentina Ricciardi

    (Università degli Studi di Milano
    Division of Palermo)

  • Andrea Minio

    (University of California Davis)

  • Rosa Figueroa-Balderas

    (University of California Davis)

  • Jason P. Londo

    (Cornell University)

  • Dario Cantu

    (University of California Davis
    University of California Davis)

Abstract

In bunch grapes (Vitis spp.), flower sex is controlled by a ~ 200-kilobase sex-determining region (SDR) that contains genes involved in floral development. Here, we show that this region evolved from an ancient, highly conserved locus across angiosperms. Comparative genomic analysis of 56 plant genomes identifies homologous regions in all flowering plants but not in non-flowering lineages, suggesting a conserved role in floral function. Within the grape family (Vitaceae), we assemble and phase SDR haplotypes from six species, plus Leea coccinea as an outgroup, and find strong structural conservation, with size variation largely attributable to repetitive elements. Among the dioecious genera, Vitis and Muscadinia exhibit suppressed recombination in the SDR and share candidate sex-determining genes, whereas in Tetrastigma, the region appears to remain recombining, pointing to an alternative mechanism of sex determination. Altogether, our results suggest that dioecy emerged in grapes from a deeply conserved, collinear genomic region composed of multiple genes involved in floral development, morphology, and sexual fertility.

Suggested Citation

  • Mélanie Massonnet & Noé Cochetel & Valentina Ricciardi & Andrea Minio & Rosa Figueroa-Balderas & Jason P. Londo & Dario Cantu, 2025. "Evolutionary conservation of the grape sex-determining region in angiosperms and emergence of dioecy in Vitaceae," Nature Communications, Nature, vol. 16(1), pages 1-15, December.
    • Handle: RePEc:nat:natcom:v:16:y:2025:i:1:d:10.1038_s41467-025-61387-9
    DOI: 10.1038/s41467-025-61387-9
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    as
    1. Mélanie Massonnet & Noé Cochetel & Andrea Minio & Amanda M. Vondras & Jerry Lin & Aline Muyle & Jadran F. Garcia & Yongfeng Zhou & Massimo Delledonne & Summaira Riaz & Rosa Figueroa-Balderas & Brandon, 2020. "The genetic basis of sex determination in grapes," Nature Communications, Nature, vol. 11(1), pages 1-12, December.
    2. Pat Iocco-Corena & Jamila Chaïb & Laurent Torregrosa & Don Mackenzie & Mark R. Thomas & Harley M. Smith, 2021. "VviPLATZ1 is a major factor that controls female flower morphology determination in grapevine," Nature Communications, Nature, vol. 12(1), pages 1-10, December.
    3. Shengxiong Huang & Jian Ding & Dejing Deng & Wei Tang & Honghe Sun & Dongyuan Liu & Lei Zhang & Xiangli Niu & Xia Zhang & Meng Meng & Jinde Yu & Jia Liu & Yi Han & Wei Shi & Danfeng Zhang & Shuqing Ca, 2013. "Draft genome of the kiwifruit Actinidia chinensis," Nature Communications, Nature, vol. 4(1), pages 1-9, December.
    4. Jeannette N. Rapicavoli & Barbara Blanco-Ulate & Artur Muszyński & Rosa Figueroa-Balderas & Abraham Morales-Cruz & Parastoo Azadi & Justyna M. Dobruchowska & Claudia Castro & Dario Cantu & M. Caroline, 2018. "Lipopolysaccharide O-antigen delays plant innate immune recognition of Xylella fastidiosa," Nature Communications, Nature, vol. 9(1), pages 1-12, December.
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