Yongbiao Xue

Shaping of developmental gradients through selection on multiple loci in Antirrhinum

The paper shows how natural selection shapes molecular gradients by acting on multiple loci in snapdragons, with cis and trans regulatory variation influencing flower color gradients.

Genome-wide cline analysis identifies new locus contributing to a barrier to gene flow across an Antirrhinum hybrid zone

Blind genomic tree scans identify loci underlying adaptive peaks in Antirrhinum

The paper identifies genomic loci underlying adaptive peaks in Antirrhinum by analyzing 18 populations and finding two partitions associated with hybrid incompatibility and eco-adaptation.

PSI Atlas: a comprehensive knowledgebase of plant self-incompatibility

PSIA compiles genomic and sequence data on plant self-incompatibility, offering tools for analysis and comparative studies of S-loci across species.

Phase separation of S-RNase promotes self-incompatibility in Petunia hybrida

The paper shows that phase separation of S-RNase forms condensates in Petunia hybrida pollen tubes, which are necessary for self-incompatibility by inhibiting pollen tube growth.

Machine learning detection of SARS-CoV-2 high-risk variants

This paper develops a machine learning model using LightGBM to predict high-risk SARS-CoV-2 variants based on haplotype network features, achieving high accuracy in identifying variants of concern and interest.

The snapdragon genomes reveal the evolutionary dynamics of the S locus supergene

The paper presents chromosome-level genome assemblies of Antirrhinum hispanicum, revealing the evolutionary dynamics of the S-locus supergene through comparative genomics and haplotype analysis.

Transposable elements orchestrate subgenome-convergent and -divergent transcription in common wheat

This study identifies how transposable elements shape subgenome-convergent and -divergent transcription in common wheat by analyzing TFBS and TE evolution.

McAN: an ultrafast haplotype network construction algorithm

McAN constructs haplotype networks using a minimum-cost arborescence approach, achieving speeds two orders of magnitude faster than existing methods.

The global landscape of SARS-CoV-2 genomes, variants, and haplotypes in 2019nCoVR

The paper describes the 2019nCoVR resource, which curates and analyzes SARS-CoV-2 genomes, variants, and haplotypes globally, providing daily updates and integration with literature and databases.

Genome structure and evolution of Antirrhnum majus L.

This study presents the first high-quality genome assembly of Antirrhinum majus, revealing evolutionary relationships and genetic architectures of complex traits.