Thomas Hartwig

A composited genome approach to analyse cistrome diversity in barley

The paper develops a composite genome approach to analyze TF occupancy diversity in barley using short-read data, showing improved accuracy over SNP-replacement strategies for MOA-seq analyses.

The role of methylation and structural variants in shaping the recombination landscape of barley

This study identifies genomic features that explain recombination variation in barley, showing methylation and structural variants jointly determine recombination hotspots and coldspots.

Cell identities along the proximal-distal and micropylar-chalazal axes in the Arabidopsis heart-stage seed

The paper uses single-cell RNA-sequencing to analyze cell diversity in Arabidopsis seeds, identifying distinct cell clusters and spatial domains along developmental axes.

Investigating the barley methylome, its variation and association with genomic, transcriptomic, and phenotypic variation

This study investigates the barley methylome, identifies differentially methylated regions, and shows their association with gene expression and phenotypic traits, improving genomic prediction models.

Cis-regulatory architecture downstream of FLOWERING LOCUS T underlies quantitative control of flowering

The paper identifies a cis-regulatory region downstream of the FT gene in Arabidopsis that controls flowering by analyzing enhancer function and chromatin dynamics.

Genetic variation at transcription factor binding sites largely explains phenotypic heritability in maize

The paper identifies genetic variants at transcription factor binding sites that explain a large portion of phenotypic heritability in maize under different water conditions.

From lab to field: analyses of genome-edited bacterial blight resistant rice

The paper evaluates genome-edited rice lines resistant to bacterial blight, showing no performance defects and absence of foreign DNA in offspring.

MINI-AC: Inference of plant gene regulatory networks using bulk or single-cell accessible chromatin profiles

MINI-AC infers plant gene regulatory networks using bulk or single-cell accessible chromatin data, outperforming existing methods in identifying TF binding sites and revealing cell-type specific regulators.

Structural variants in the barley gene pool: precision and sensitivity to detect them using short-read sequencing and their association with gene expression and phenotypic variation

This study benchmarks SV callers for sensitivity and precision in barley genomes, finds associations between SV clusters and gene expression, and shows their superior predictive power for phenotypes compared to SNPs.

Arabidopsis ACINUS is O-glycosylated and regulates transcription and alternative splicing of regulators of reproductive transitions

This study identifies AtACINUS as an O-GlcNAcylated and O-fucosylated protein that regulates transcription and alternative splicing of reproductive regulators in Arabidopsis.