Peter Civáň

Ancestral Genome Reconstruction.

This paper introduces AGR, a pipeline to infer paleogenomes from modern species by using inter-species chromosomal synteny and hierarchical clustering.

DNA methylation around transcription start sites not globally associated with transcription in natural and synthetic hexaploid wheat

The paper investigates the relationship between DNA methylation and gene expression in natural and synthetic hexaploid wheat, finding weak associations and no clear regulatory role for 5' end methylation.

Modest transcriptomic response to polyploidization in allohexaploid wheat synthetics

The paper examines transcriptomic responses in synthetic allohexaploid wheat and finds minimal gene expression changes, primarily on the D subgenome, with no significant TE-gene associations.

Comment on ‘Multiple Origin but Single Domestication Led to Oryza sativa’

The paper critiques a reanalysis of rice domestication that supports a single origin hypothesis, arguing it misinterprets paraphyletic phylogenetic trees as monophyletic and addresses only part of the original evidence for multiple origins.

Diversity patterns across 1,800 chloroplast genomes of wild (Oryza rufipogon Griff.) and cultivated rice (O. sativa L.)

The paper analyzes chloroplast genome diversity in 1,800 wild and cultivated rice accessions, revealing distinct domestication histories for aus and aromatic rice groups.