A5055512910- Plant Taxonomy and Phylogenetics
- Genomics and Phylogenetic Studies
- Chromosomal and Genetic Variations
- Genetic diversity and population structure
- Turfgrass Adaptation and Management
- Genetic Mapping and Diversity in Plants and Animals
- Plant and fungal interactions
- Molecular Biology Techniques and Applications
- Plant tissue culture and regeneration
- RNA and protein synthesis mechanisms
University of California, Davis
2022-2025
Abstract Over the last 20 million years, Andropogoneae tribe of grasses has evolved to dominate 17% global land area. Domestication these in 10,000 years yielded our most productive crops, including maize, sugarcane, and sorghum. The majority species, show a history polyploidy – condition that, while offering evolutionary advantage multiple gene copies, poses challenges basic cellular processes, expression, epigenetic regulation. Genomic studies have been limited by sparse sampling taxa...
Abstract Advancements in genome assembly and sequencing technology have made whole sequence (WGS) data reference genomes accessible to study polyploid species. Compared popular reduced‐representation approaches, the genome‐wide coverage greater marker density provided by WGS can greatly improve our understanding of species biology. However, biological features that make interesting also pose challenges read mapping, variant identification, genotype estimation. Accounting for characteristics...
Poa pratensis, commonly known as Kentucky bluegrass, is a popular cool-season grass species used turf in lawns and recreation areas globally. Despite its substantial economic value, reference genome had not previously been assembled due to the genome's relatively large size biological complexity that includes apomixis, polyploidy, interspecific hybridization. We report here fortuitous de novo assembly annotation of P. pratensis genome. Instead sequencing C4 grass, we accidentally sampled...
Advancements in genome assembly and sequencing technology have made whole sequence (WGS) data reference genomes accessible to study polyploid species. The genome-wide coverage greater marker density provided by WGS data, compared popular reduced-representation approaches, can greatly improve our understanding of species biology. However, biological features that make interesting also pose challenges read mapping, variant identification, genotype estimation. Accounting for characteristics,...
Abstract Non-coding regions of the genome are just as important coding for understanding mapping from genotype to phenotype. Interpreting deep learning models trained on RNA-seq is an emerging method highlight functional sites within non-coding regions. Most work RNA abundance has been done humans and mice, with little attention paid plants. Here, we benchmark four genomic model architectures genomes data 18 species closely related maize sorghum Andropogoneae. The Andropogoneae a tribe C4...
ABSTRACT Poa pratensis , commonly known as Kentucky bluegrass, is a popular cool-season grass species used turf in lawns and recreation areas globally. Despite its substantial economic value, reference genome had not previously been assembled due to the genome’s relatively large size biological complexity that includes apomixis, polyploidy, interspecific hybridization. We report here fortuitous de novo assembly annotation of P. genome. Instead sequencing C4 grass, we accidentally sampled...