Genetic Mapping and Diversity in Plants and Animals

This study identifies 213 QTL associated with drought-induced lodging in grain sorghum, showing strong links to plant height and carbon remobilisation traits.

The paper identifies quantitative trait loci (QTL) for plant architecture traits in sorghum using a nested association mapping population and evaluates genomic prediction accuracy.

The paper introduces a method to reconstruct elite genotypes in clonally-reproducing plants by selecting marker-based lines that retain the genetic architecture of a top-performing cultivar with agronomically relevant differences.

BSAseq identifies causal mutations in bulked F2 populations using a probabilistic model and interactive web tool.

The paper systematically inventories rat genes associated with human diseases and phenotypes, highlighting their relevance to human disease susceptibility and therapeutic approaches.

mrMLM v4.0 is an R platform for multi-locus GWAS that improves detection of important loci by comparing with existing methods and confirming its effectiveness with simulations and real datasets.

This study performs a genome-wide association analysis on cassava to identify genetic loci associated with defensive, agro-morphological, and quality traits, uncovering 41 significant associations and candidate genes.

This study identifies 35 meta-QTLs and 45 heat-responsive genes specific to reproductive tissues in rice, providing targets for marker-assisted breeding to develop heat-tolerant cultivars.

This study identifies markers for the male-sterility gene MS1 in Cryptomeria japonica and demonstrates their use in marker-assisted selection across different populations.

The paper reanalyzes tomato genome sequences to develop the TGV database, integrating SNPs and INDELs with functional annotations for trait improvement.

The paper introduces methods to analyze multi-parent multi-environment QTL data, showing they better estimate QTL effects across environments and sub-populations than single-environment analyses.

The paper develops miRNA-based SSR markers in Cleistogenes songorica and evaluates their transferability to other species, finding high polymorphism and utility for genetic studies.

The paper proposes a cost-effective genetic mapping strategy for autopolyploids using low-coverage NGS data and allele dosage probabilities to detect loci associated with phenotypes.

ZEAMAP integrates multi-omics data for maize and teosinte to support genetic research and trait improvement.

The paper identifies metabolite quantitative trait loci (mQTLs) for flavonoids in strawberries, revealing genetic factors influencing fruit quality traits.

The paper estimates additive genetic variation in rice root growth under selection and finds low marker heritability and no associated loci in a tropical japonica population.

QTG-Finder2 improves QTL causal gene prioritization in plants by using orthologs and additional features, achieving high recall in Sorghum and Setaria species.

The paper analyzes genome-wide variations in the waxy sorghum cultivar Hongyingzi to identify genetic differences related to liquor-making traits.

The paper adapts genotype-by-sequencing for HS rats to call and impute over 3.7 million SNPs with 99% concordance compared to a genotyping array.

The paper identifies a single gene, scb-1, as a pleiotropic locus underlying variation in Caenorhabditis elegans responses to multiple chemotherapeutics.

This paper develops a random-effect model for QTL mapping in autopolyploid sweetpotato, identifying 41 QTL across eight yield traits in a full-sib population.

The paper develops a 36-SNP marker set for quality assurance and control in sweetpotato breeding programs, showing it can detect mislabeling errors similarly to a high-density SNP set.

The paper presents a high-quality Oryza rufipogon genome assembly using SMRT sequencing and identifies genomic variants and selected genes related to reproductive traits and adaptation.

The paper generates 12 new high-quality rice reference genomes to expand the genetic diversity coverage of cultivated rice, forming a comprehensive pan-genome resource with 16 reference sequences.

The paper develops a MAGIC population in B. juncea for QTL mapping of glucosinolate content and identifies three major QTLs associated with different GSL types.

This study identifies genetic factors controlling inflorescence morphology in sorghum using nested association mapping, revealing QTL associated with precipitation adaptation.

The paper introduces a GWAS method to identify QTLs with group-specific allele effects in admixed populations, applied to maize flowering time data.

This study applies variance heterogeneity genome-wide association mapping to identify novel genomic loci and epistatic interactions influencing grain cadmium concentration in bread wheat.

The paper maps expression quantitative trait loci and constructs sex-specific regulatory networks in Drosophila to understand how genetic variation affects gene expression and transposable element activity.

This study shows that combining target populations with more diverse populations improves GWAS power for detecting QTNs, depending on genetic diversity metrics like FST and He.