Nils Stein

The paper identifies two epistatic mutations causing leaf variegation in a barley mutant and proposes they impair chloroplast proteostasis.

The paper links structural variation to regulatory genome function in barley by analyzing epigenomic data across multiple genotypes and developmental contexts.

The paper introduces SelHap, a haplotype-based method to prioritize genomes for pangenome expansion by focusing on novel haplotypes, resulting in increased non-redundant sequence content.

This paper identifies Raw7 as a second gene controlling barley awn roughness, showing epistatic interaction with Raw1, and proposes a cytokinin signaling pathway mechanism.

The paper analyzes DNA degradation in herbarium specimens over time and environments, finding faster decay rates compared to archaeological samples and highlighting environmental factors as key drivers.

The paper presents a pangenome and pantranscriptome of hexaploid oat, describing gene expression diversity and structural genome variation across 33 accessions and six tissues.

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

This study uses environmental DNA from Lake Tjornin to challenge the narrative of Norse-induced environmental collapse in Reykjavik, showing dynamic human-environment interactions shaped by both cultural practices and external stressors.

All five wild populations fed an early barley founder population in the Fertile Crescent during extended pre-domestication cultivation; about 91% of wild-matched haplotypes split 32 to 8 ka BP.

The paper analyzes CCT motif gene variation and functional diversification in barley using a pangenome and pan-transcriptome, revealing evolutionary dynamics and regulatory complexity.

The paper identifies MKK3 haplotypes in barley that influence seed dormancy and end-use traits through post-domestication selection, linking them to climate adaptation.

The paper de novo assembles the genome of Agropyron cristatum and identifies genes for wheat improvement, developing a genome-selection model for breeding derivatives.

The paper uses k-mer-based GWAS on a wheat collection to identify novel powdery mildew resistance loci, finding 27 new loci and a region for adult plant resistance.

The paper sequenced wild barley to identify genetic markers linked to agronomic traits and found novel loci for stem rust resistance and days to heading.

This study presents a barley pangenome revealing structural variation linked to traits like disease resistance and plant architecture, highlighting its role in adaptive evolution.

The paper analyzes the genetic composition and history of the bread wheat D genome using a pangenome of its donor species, revealing contributions from discrete subpopulations of Aegilops tauschii.

The paper investigates convergent evolution of plant prickles, finding that mutations in a cytokinin gene repeatedly cause prickle loss across species.

The paper presents an improved chromosome-level genome assembly for perennial ryegrass using Hi-C data to correct structural errors in a previous assembly.

This study annotates the wheat pan-transcriptome de novo and identifies gene diversity and expression patterns across multiple wheat cultivars and tissues.

The paper presents the first nuclear and mitochondrial genome sequences of Ranunculus, along with plastome evolution, using efficient assembly strategies for non-model plants.

DivBrowse provides an interactive web tool for visualizing and analyzing genomic diversity data from VCF files, supporting PCA and gene annotation integration.

This paper develops an automated classification method to improve taxonomic correction for Capsicum spp. accessions using genebank genomic data.

This study uses genomics-informed parent selection to identify high-yielding wheat parents from genetic resources, which outperform current elite cultivars in field trials.

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.

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

The paper presents a high-quality genome assembly for the barley cultivar Golden Promise, useful for genetic research and CRISPR-Cas9 experiments.

TRITEX improves chromosome-scale genome assemblies for Triticeae crops using open-source tools and multiple sequencing data types.

The paper identifies HvCMF3 as an essential gene for chloroplast development in barley through mutant analysis and phylogenetic studies.

The paper identifies a mutation in the HvAST gene causing leaf variegation in barley by residual activity of a chloroplast-targeted CCT-domain protein.