Flowering plants alternate between two multicellular generations: the diploid sporophyte
and haploid gametophyte. Despite its small size, the gametophyte has significant impacts on …

It has long been recognized that natural selection during the haploid gametophytic phase of
the plant life cycle may have widespread importance for rates of evolution and the …

Demethylation of transposons can activate the expression of nearby genes and cause
imprinted gene expression in the endosperm; this demethylation is hypothesized to lead to …

Flowering plants alternate between multicellular haploid (gametophyte) and diploid
(sporophyte) generations. Pollen actively transcribes its haploid genome, providing …

For successful double fertilization in flowering plants (angiosperms), pollen tubes deliver 2
nonmotile sperm cells toward female gametes (egg and central cell, respectively) …

Transcript-based annotations of genes facilitate both genome-wide analyses and detailed
single-locus research. In contrast, transposable element (TE) annotations are rudimentary …

Although DNA methylation primarily represses TEs, it also represses select genes that are
methylated in plant body tissues but demethylated by DNA glycosylases (DNGs) in …

Pollen is a vector for diversification, fitness-selection, and transmission of plant genetic
material. The extent to which the pollen microbiome may contribute to host diversification is …

Motivation Over the last decade, RNA-Seq whole-genome sequencing has become a widely
used method for measuring and understanding transcriptome-level changes in gene …

Accurate alignment of transcribed RNA to reference genomes is a critical step in the analysis
of gene expression, which in turn has broad applications in biomedical research and in the …