Hana Šimková

A chromosome-scale genome assembly of Hordeumerectifolium: genomic, transcriptomic and anatomicaladaptations to drought in a wild barley relative

This study presents a chromosome-scale genome of H. erectifolium, a drought-tolerant wild barley relative, and identifies genomic and transcriptomic adaptations to drought compared to cultivated barley.

Epigenome and interactome profiling uncovers principles of distal regulation in the barley genome

The paper annotates CREs in the barley genome using epigenetic profiling and HiChIP, identifying 77,000 CRE candidates and revealing promoter-promoter interactions.

The Silene latifolia genome and its giant Y chromosome

This study sequences the giant Y chromosome of Silene latifolia and reveals its structure, function, and evolutionary history.

Prospects of telomere-to-telomere assembly in barley: analysis of sequence gaps in the MorexV3 reference genome

The paper analyzes sequence gaps in the barley MorexV3 reference genome, identifying centromeric and repeat regions as major contributors to fragmentation and discussing strategies for gap closure.

Chromosome-scale genome assembly provides insights into rye biology, evolution, and agronomic potential

The paper presents a chromosome-scale rye genome assembly to study genomic evolution and agronomic traits in Triticeae crops.

A novel high-accuracy genome assembly method utilizing a high-throughput workflow

The paper introduces a high-throughput genome assembly method that improves accuracy and efficiency for complex genomes, achieving 92.7% coverage of a wheat chromosome with 98% correct BAC sequences.

Anatomy, transcription dynamics and evolution of wheat ribosomal RNA loci deciphered by a multi-omics approach

The paper uses a multi-omics approach to analyze the structure, expression, and methylation of rRNA loci in wheat, revealing tissue-specific expression patterns and silencing mechanisms.

Optical and physical mapping with local finishing enables megabase-scale resolution of agronomically important regions in the wheat genome