Rosa Elia Figueroa-Balderas

The paper presents a chromosome-level genome of a type B avocado cultivar, identifies structural variations at flowering-type loci, and predicts the flowering type of a West Indian accession.

This study identifies haplotype-specific expression of a terpene synthase gene as the source of linalool variation in Riesling grapevines, showing regulatory variation within terpene synthase clusters drives monoterpene diversity.

The paper characterizes genome organization and sex-biased gene expression in the vine mealybug, revealing female-skewed, spatially clustered expression patterns and lineage-specific secreted proteins.

The paper shows that TPS gene expression, not copy number, explains aroma diversity in grapevine cultivars by analyzing haplotype-resolved genomes and validating enzyme activity through functional assays.

This study examines how Botrytis cinerea infection alters the microbiome of grape berries during noble rot, identifying microbial shifts and associations across infection stages and vintages.

The paper analyzes haplotype diversity at the PdR1 locus in Vitis species to identify resistance mechanisms against Pierce's Disease.

The paper constructs a multi-organ single-nucleus transcriptomic atlas of grapevine, revealing organ-independent regulatory programs in companion cells.

The paper characterizes clonal genomic diversity in Chilean Carmenere grapevines using genome sequencing, identifying thousands of private SNVs and indels per clone.

The paper quantifies methylation inheritance in clonally propagated grapevines using phased genomes and multi-omics data, showing remarkable stability of epigenetic marks despite clonal variability.

The paper analyzes the genome of Phytophthora theobromicola using long-read sequencing and comparative genomics to reveal dynamic structure and variable effector repertoires.

The paper identifies NLR genes associated with powdery mildew resistance loci Ren6 and Ren7 in Vitis piasezkii by analyzing phased genomes and structural variation across multiple accessions.

This study identifies genetic loci in grapevine that influence berry-associated microbial communities, including pathogenic fungi and fermentative yeasts, revealing broad genetic control over microbiome assembly.

The paper investigates smoke-induced transcriptional changes in grapevines, identifying glycosyltransferases linked to smoke taint formation and proposing targets for breeding interventions.

This study traces the evolutionary history of the grape sex-determining region across angiosperms, finding it conserved in flowering plants but not in non-flowering plants.

This study uses dual-organism single-nucleus transcriptomics to analyze grapevine and Erysiphe necator gene expression during early powdery mildew infection, identifying cell type markers and immune response patterns.

The paper presents genome sequences of four esca-associated Basidiomycetes, identifies virulence factors, and highlights their evolutionary patterns related to plant pathogenesis.

This study constructs a super-pangenome of North American wild grape species to capture genetic diversity and identify loci associated with adaptive traits like salt tolerance.

The paper analyzes pangenomes of grapevine trunk pathogens to compare the evolution of virulence factors across species.

This study creates a reference genome for avocado and identifies genes potentially contributing to heterodichogamy through population genomics analysis.

The paper compares transcriptional responses of eight grape resistance loci to powdery mildew, finding distinct gene expression patterns and limited overlap between loci.

The paper reports chromosome-scale diploid assemblies of three grape rootstocks using PacBio HiFi sequences and HaploSync, providing resources for studying stress adaptation and marker development.

The paper identifies and characterizes haplotype-resolved resistance loci in Muscadinia rotundifolia, revealing structural variations affecting NLR genes involved in powdery mildew resistance.

This study identifies GST4 as a candidate gene for berry color in muscadine grapes, showing a proline to leucine mutation correlates with black vs. bronze berry color.

The paper assembles the diploid genome of Muscadinia rotundifolia, identifies chromosome fusions, and detects expanded disease resistance genes in comparison to Vitis species.

This study reconstructs the genomes of Phytophthora megakarya and P. palmivora to understand virulence differences and evolutionary history.

This study analyzes somatic mutations in clonally propagated grapevines, finding that repetitive intergenic regions drive genome diversification and that deleterious mutations accumulate in clones.

This study uses Iso-Seq to reconstruct the transcriptome of Cabernet Sauvignon grape berries, identifying cultivar-specific genes without relying on a reference genome.

The paper identifies structural genomic variation affecting secondary metabolism gene clusters in Phaeoacremonium minimum, highlighting the need for a pan-transcriptome reference to capture virulence factor diversity.

This study develops a closed-reference metatranscriptomics approach to profile virulence activities of multiple grapevine trunk pathogens in planta.