Brieanne Vaillancourt

Satellite DNA Editing Enables Meiosis-Independent Chromosome Engineering

This paper demonstrates that CRISPR targeting of satellite DNA allows for meiosis-independent chromosome engineering in aspen, producing stable structural variants in the first generation.

Time-dependent transcriptomic changes following protoplast isolation in plants

The paper characterizes time-dependent transcriptomic changes in plant protoplasts across species and identifies stress-like cell states in single-cell RNA-seq data.

A Comprehensive Epidermal Map from a Poplar Single-Cell Shoot Atlas Reveals New Trichome-Specific Genes

The paper presents a single-cell RNA-seq atlas of poplar shoots, identifies epidermal subclusters, and discovers new trichome-specific genes through integration with bulk transcriptome data.

Engineering carotenoid and steroidal glycoalkaloid depleted tomato fruit for heterologous production of high value terpenes

This study engineers tomato fruit to produce high-value terpenes by modifying genes involved in specialized metabolism.

Potato dihaploids uncover diverse alleles to facilitate diploid potato breeding

The paper develops a resource of 97 dihaploid potato clones to aid diploid breeding, identifies diversity in the maturity locus, and highlights structural genomic variation.

Chromosome-scale genome assembly for Yellow Wood sorrel, Oxalis stricta

This paper presents a chromosome-scale genome assembly for Oxalis stricta, revealing its allotetraploid nature and synteny with related species.

An allelic resolution gene atlas for tetraploid potato provides insights into tuberization and stress resilience

This study creates a gene atlas for tetraploid potato, identifying genes involved in tuberization and stress resilience through coexpression modules and structural variation analysis.

High resolution diel transcriptomes of autotetraploid potato reveal expression and sequence conservation among rhythmic genes

This study analyzes diel transcriptomes of autotetraploid potato to reveal conservation of cyclic gene expression and function across tissues and conditions.

Single cell multi-omics reveals rare biosynthetic cell types in the medicinal tree Camptotheca acuminata

The paper uses single-cell multi-omics to identify rare cell types involved in camptothecin biosynthesis in Camptotheca acuminata.

Cell-type aware regulatory landscapes governing monoterpene indole alkaloid biosynthesis in the medicinal plant Catharanthus roseus

The paper constructs a cell-type-aware gene regulatory network for MIA biosynthesis in C. roseus using single-cell multi-omics data, identifying a novel idioblast-specific TF that regulates late-stage biosynthetic genes.

K-mer Genome-wide Association Study for Anthracnose and BCMV Resistance in the Andean Diversity Panel

This paper uses k-mer-based GWAS to identify disease resistance associations in common beans, revealing pan-genomic variation and improved resolution compared to traditional SNP methods.

Chromosome-scale Salvia hispanica L. (Chia) genome assembly reveals rampant Salvia interspecies introgression

The paper presents a chromosome-scale genome assembly of Chia pinta and identifies population structure and interspecies introgression in Salvia species.

Targeted genotyping-by-sequencing of potato and data analysis with R/polyBreedR

The paper develops a mid-density targeted GBS assay for potato using DArTag technology and evaluates its performance with polyBreedR software for imputation and trait tracking.

Leveraging prior biological knowledge improves prediction of tocochromanols in maize grain

This study evaluates prediction models for tocochromanol content in maize grain using genomic and transcriptomic data, finding that incorporating biological knowledge improves predictive ability.

Combining GWAS and TWAS to identify candidate causal genes for tocochromanol levels in maize grain

The paper combines GWAS and TWAS to identify 13 candidate causal genes for tocochromanol levels in maize grain, including five previously unassociated genes.

Eleven biosynthetic genes explain the majority of natural variation for carotenoid levels in maize grain

The paper identifies eleven biosynthetic genes explaining most of the natural variation in carotenoid levels in maize grain through QTL analysis and expression correlation.

Variation and inheritance of small RNAs in maize inbreds and F1 hybrids

This study characterizes sRNA variation and inheritance in maize inbreds and F1 hybrids, revealing genotype and developmental influences on sRNA expression and non-additive inheritance patterns.

Highly Genotype- and Tissue-specific Single-Parent Expression Drives Dynamic Gene Expression Complementation in Maize Hybrids

The paper analyzes gene expression in maize hybrids and inbreds to show that single-parent expression is genotype- and tissue-specific, with implications for heterosis.