J. C. Schnable

Unveiling shared genetic regulators for plant architectural and biomass yield traits in sorghum

This study identifies genetic loci and haplotypes associated with plant architectural and biomass yield traits in sorghum using genome-wide association studies and network analysis.

Data driven discovery and quantification of hyperspectral leaf reflectance phenotypes across a maize diversity panel

This study uses data-driven methods to analyze hyperspectral leaf reflectance data from maize plants, identifying genetic markers correlated with reflectance patterns and chlorophyll content.

Population level gene expression can repeatedly link genes to functions in maize

This study uses transcriptome-wide association studies in maize to identify flowering time genes, finding TWAS detects more genes than GWAS and links gene expression to function across tissues and environments.

Genotype-specific nonphotochemical quenching responses to nitrogen deficit are linked to chlorophyll a to b ratios

The paper examines genotype-specific responses of non-photochemical quenching (NPQ) to nitrogen deficit in maize, finding correlations between NPQ changes and chlorophyll a/b ratios.

THI1 Gene Evolutionary Trends: A Comprehensive Plant-Focused Assessment via Data Mining and Large-Scale Analysis

The paper analyzes the evolutionary trends of the THI1 gene across 702 homologs in Archaea and Eukarya, with a focus on plants, revealing conservation patterns and regulatory mechanisms.

Rhythmic lipid and gene expression responses to chilling in panicoid grasses

The paper examines gene expression and lipid changes in three panicoid grasses under chilling stress, revealing conserved and species-specific responses and identifying potential target genes for improving chilling tolerance.

Comparative GWAS identifies a role for Mendel green pea gene in the nonphotochemical quenching kinetics of sorghum, maize, and arabidopsis

This study uses comparative GWAS to identify genes influencing NPQ kinetics in sorghum, maize, and Arabidopsis, revealing a Mendelian gene involved in pigment degradation.

A Common Resequencing-Based Genetic Marker Dataset for Global Maize Diversity

The paper creates a unified genetic marker dataset from maize resequencing data to enhance the analysis of genetic diversity and functional allele frequency changes.

Yield Prediction Through Integration of Genetic, Environment, and Management Data Through Deep Learning

This study uses deep learning to predict maize yield by integrating genetic, environmental, and management data, finding that models incorporating interactions perform best.

Machine learning reveals conserved chromatin patterns determining meiotic recombination sites in plants

The paper uses machine learning to identify key chromatin features that determine meiotic recombination sites in plants, finding that three features can predict crossover sites with 90% accuracy.

Variation in morpho-physiological and metabolic responses to low nitrogen stress across the sorghum association panel

The paper quantifies variation in sorghum's morphological, physiological, and metabolic responses to nitrogen stress and links these to grain yield under different conditions.

Association Mapping Across a Multitude of Traits Collected in Diverse Environments Identifies Pleiotropic Loci in Maize.

This study identifies pleiotropic loci in maize by analyzing trait associations across diverse environments using high-density genetic markers and resampling-based genome-wide association tests.

Maize root-associated microbes likely under adaptive selection by the host to enhance phenotypic performance

This study identifies plant genetic loci associated with rhizobiome composition in maize and shows host selection influences microbial abundance under different nitrogen conditions.

The genome of stress tolerant crop wild relativePaspalum vaginatum leads to increased biomassproductivity in the crop Zea mays

This study sequenced Paspalum vaginatum, a stress-tolerant wild relative of maize, and found that inducing trehalose accumulation in maize increases biomass through autophagy.

3D reconstruction identifies loci linked to variation in angle of individual sorghum leaves

This paper uses 3D reconstruction to measure leaf angles in sorghum and identifies genetic loci associated with leaf angle variation.

A UAV-based high-throughput phenotyping approach to assess time-series nitrogen responses and identify traits associated genetic components in maize

This study uses UAV-based phenotyping to analyze maize nitrogen responses over time, identifying genetic regions and candidate genes associated with phenotypic traits.

Quantitative resistance loci to southern rust mapped in a temperate maize diversity panel

The paper maps quantitative resistance loci to southern rust in a temperate maize diversity panel using genome-wide association studies and transcriptome-wide association studies.

Automation of Leaf Counting in Maize and Sorghum Using Deep Learning

This paper develops and evaluates deep learning models for automated leaf counting in maize and sorghum, achieving performance close to human annotators.

Meta-Analysis Identifies Pleiotropic Loci Controlling Phenotypic Trade-offs in Sorghum

The paper uses existing trait datasets from a sorghum population to identify pleiotropic loci through multivariate analysis, revealing new insights into phenotypic trade-offs.

Rhizosphere Microbiomes in a Historical Maize/Soybean Rotation System respond to Host Species and Nitrogen Fertilization at Genus and Sub-genus Levels

The paper examines how host plant species and nitrogen fertilization affect rhizosphere microbiomes in maize and soybean, identifying specific microbial taxa responding to these factors.

Functional principal component based time-series genome-wide association in sorghum

This study uses functional principal component analysis to identify genetic loci regulating phenotypic change over time in sorghum, successfully detecting known genes not found in single-time-point analyses.

Simulated Plant Images Improve Maize Leaf Counting Accuracy

The paper shows synthetic maize leaf images improve leaf counting accuracy when real-world data are limited, outperforming real data in some cases.

Genome wide analysis of Ga1-s modifiers in maize

The paper identifies seven genetic modifiers of a reproductive barrier in maize, revealing complexity beyond the known ga1 locus.

Parallel natural selection in the cold-adapted crop-wild relative Tripsacum dactyloides and artificial selection in temperate adapted maize

The paper identifies overlapping genetic targets of natural and artificial selection in Tripsacum dactyloides and maize for temperate adaptation.

Integrating phylogenetic and network approaches to study gene family evolution: the case of the AGAMOUS family of floral genes

The paper combines phylogenetic and network methods to analyze the evolution of the AGAMOUS gene family, showing how network approaches improve interpretation of low-support branches and functional divergence.

Conventional and hyperspectral time-series imaging of maize lines widely used in field trials

The paper phenotypes maize lines using conventional and hyperspectral imaging, showing correlations between image data and manual measurements, and highlights unique hyperspectral signatures in stem tissue.