Scott A. Jackson

CASCADE recovers promoter-associated regulatory motifs from cell-type-resolved DNA language-model attributions

The paper introduces CASCADE, a method to identify promoter-associated regulatory motifs from cell-type-resolved DNA language model attributions in soybean.

The unexplored diversity of wild lupins provides rich genomic resources and insights into lupin evolution

This study sequenced two wild lupin species to explore their genomic diversity and evolutionary insights, revealing gene family expansions linked to seed size and adaptation.

Selection and adaptive introgression guided the complex evolutionary history of the European common bean

The paper traces the evolutionary history of European common beans, showing Andean origins and adaptive introgression shaping their genomic diversity.

Genome-wide signatures of geographic expansion and breeding process in soybean

This study analyzes genome sequences of 2,214 soybeans to trace its evolutionary history, identifying four geographic expansion paths and local adaptation mechanisms.

Ancient genomes reveal early Andean farmers selected common beans while preserving diversity

The paper analyzes ancient and modern common bean genomes to show that genetic diversity was preserved during early domestication, with significant erosion occurring only recently.

Fast neutron mutagenesis in soybean creates frameshift mutations

This study analyzes small insertions and deletions (indels) in soybean lines mutagenized by fast neutron irradiation, finding that while SNPs are likely spontaneous, indels are enriched and increase loss-of-function mutations.