Shaoying Chen

Abstract Grapevines (Vitis) are pivotal fruit crops for human nutrition and civilization. The evolutionary history of grapevines in the grape family (Vitaceae) remains mysterious, requiring family-wide and whole-genome phylogenomic insights. Here we conduct evolutionary genomic analyses of Vitaceae by generating chromosome-level genome assemblies, placing Ampelopsis closer to Parthenocissus and Vitis.

Abstract Tomato (Solanum lycopersicum), one of the world’s most valuable vegetable crops, has suffered from diminished genetic diversity and stress resistance. Wild tomatoes serve as an invaluable genetic reservoir, yet their potential for stress resilience remains largely unexploited in tomato breeding. Here we report a genus-wide super-pangenome across 16 tomato species by integrating 20 telomere-to-telomere genomes and 27 published chromosome-scale genomes.

Abstract The centromere paradox, in which functionally conserved centromeres exhibit rapid evolution, has long intrigued geneticists and evolutionary biologists. Despite its importance, the centromeric landscape remains poorly understood due to the lack of complete assemblies. Here we dissect the dynamic evolution of Brassica centromeres by generating telomere-to-telomere genome assemblies from seven morphotypes of B. rapa (AA) and the two tetraploids B. juncea (AABB) and B. napus (AACC).