Xuebo Zhao

The paper constructs a graph-based pangenome of Venturia inaequalis, identifies structural variants linked to population differentiation, and reveals gene repertoire conservation and virulence-associated diversity.

The paper generates a chromosome-scale genome and single-nucleus transcriptomic atlas of sand bean roots to study coastal adaptation, finding that salt tolerance in Beach ecotypes relies on pre-existing, spatially organized stress-response programs.

The paper constructs a graph-based pangenome of Cucurbita pepo to study adaptive evolution, identifying structural variants and showing parallel domestication and environmental adaptation.

This study constructs a watermelon super-pangenome from 138 genomes, identifies over a million structural variants, and develops genomic prediction models for 18 traits to advance precision breeding.

The paper constructs a cucumber pangenome to analyze structural variant dynamics during domestication and breeding, finding SVs are purged more than SNPs and improving genomic prediction accuracy.

This study presents a phased chromosome-level genome assembly of sweetpotato, revealing its origin from a wild tetraploid relative and identifying genetic relationships with other progenitors.

This study evaluates SV detection methods using HiFi sequencing in wheat, finding optimal aligners and callers and demonstrating low-coverage HiFi sequencing is sufficient for accurate SV discovery.

This paper constructs a high-density genetic variation map of wheat using 1,062 genomes, revealing higher genetic diversity in wild emmer wheat and diploid goatgrass compared to common wheat.

This study uses whole-genome sequences of 795 wheats to trace the population history of bread wheat and its relatives, revealing origins, speciation, and spread across Eurasia.

This study evaluates SV detection using PacBio HiFi sequencing in wheat genomes, finding that aligners and callers significantly impact accuracy and that low-coverage HiFi sequencing can generate high-quality SV genotypes.

This study uses whole-genome sequencing of Triticum and Aegilops populations to show that introgression from wild relatives contributed 13-36% of the bread wheat genome, enhancing genetic diversity and enabling adaptation, while convergent adaptation to human selection was enriched despite ploidy and environmental differences.