John T. Lovell

The paper identifies a supernumerary B-Chromosome in Atlantic switchgrass, showing its evolutionary origin and impact on gene expression and genomic diversity.

The paper presents the genomes of Ayahuasca source plants, revealing retrotransposon-derived centromeres and distinct biosynthetic pathways for DMT and beta-carbolines.

This study uses pangenomics and machine learning to identify genetic markers associated with carotenoid accumulation in sorghum, revealing structural variation and multi-locus genetic architecture.

This study shows that cold acclimation in Brassica rapa involves diel retiming, paralog-specific regulation, and conserved regulatory programs masked by paralog diversification.

This study uses genome sequences from Cercis canadensis and Chamaecrista fasciculata to infer legume genome structures and histories, including the timing of whole genome duplications and the ancestral karyotype.

The paper identifies an X-linked sex determination mechanism in cannabis and hop, showing that an X-linked gene involved in ethylene biosynthesis controls female inflorescence development, while the Y chromosome lacks clear sex-determining genes.

The paper identifies the genetic drivers of the G-locus in pecan trees using pangenome-integrated quantitative genomics, revealing a Mendelian super-gene responsible for dichogamy.

The paper catalogs structural and sequence variation in the pennycress pangenome, revealing contrasting evolutionary modes across genomic regions and highlighting the utility of pangenomic resources for crop development.

This study identifies hundreds of drought-responsive genes in sorghum using multi-season transcriptomic data from field experiments.

The paper links karyotype evolution to meiotic recombination by analyzing holocentric genomes and crossover patterns in Rhynchospora species.

The paper evaluates challenges in creating consistent pangene sets across pangenomes, showing that annotation inconsistencies lead to misleading presence-absence variation interpretations.

This study uses over 700 pecan genotypes and a haplotype-resolved genome to identify gene pools, assess environmental adaptation, and predict future maladaptation risks.

This study investigates the origins and adaptive consequences of polyploidy in the prairie grass Andropogon gerardi, finding that whole genome duplication is common and provides fitness advantages in xeric climates.

This study presents a chromosome-level genome of Myrothamnus flabellifolia and transcriptomic data, revealing its desiccation tolerance mechanisms and sex determination system.

The paper identifies the pangenomic origins and molecular basis of RMES1, a noncanonical NLR gene that enabled evolutionary rescue in sorghum by disrupting aphid feeding through global immunity activation.

The paper demonstrates how a global pangenomic breeding network can develop and deploy drought and pest-resistant sorghum varieties for smallholder farmers in Niger.

This paper constructs a sorghum pangenome and identifies trait-associated variants to inform climate-aware genome-enabled breeding strategies.

The paper examines local adaptation between switchgrass and its rust pathogen across North America, finding that both host and parasite can be locally adapted despite varying genetic loci associated with rust severity.

The paper presents an improved haplotype-resolved genome assembly for Eucalyptus grandis, increasing gene annotation completeness and revealing structural variations and tandem duplicates.

This paper identifies ECM29 as a key protein mediating microbial enhancement of plant heat stress tolerance through proteasome modulation in Arabidopsis.

The paper develops genomic resources to improve American chestnut resistance to pathogens through breeding and gene editing.

The paper presents a haplotype-resolved genome assembly of Amborella trichopoda, identifying a young ZW sex chromosome system with a 3-Megabase sex-determination region that shows limited degeneration.

The paper sequenced twelve Camelina sativa genomes to study pangenomic variation in an allohexaploid species, finding minimal gene presence-absence variation but subgenome-specific gene content.

This paper presents an updated soybean genome assembly (Wm82.a6) and compares it with other assemblies and Fiskeby III, revealing genomic heterogeneity and polymorphisms.

GENESPACE provides pan-genome annotations to analyze syntenic relationships across diverse eukaryotic genomes, revealing structural variation at multiple biological scales.

The paper uses genome resources from Setaria viridis to identify loci associated with climate response, seed shattering, and leaf angle, and validates a novel domestication gene.

This paper introduces FlxQTL, a flexible multivariate linear mixed model for genetic mapping of multiple correlated traits, adjusting for relatedness and modeling multiple environments or timepoints.