A5012797683- Microbial Metabolic Engineering and Bioproduction
- Plant Gene Expression Analysis
- Genetic and phenotypic traits in livestock
- Genetic Mapping and Diversity in Plants and Animals
- Metabolomics and Mass Spectrometry Studies
- Plant tissue culture and regeneration
- Phytochemistry and biological activity of medicinal plants
- Plant biochemistry and biosynthesis
- Genomics and Phylogenetic Studies
- Berry genetics and cultivation research
- Plant Stress Responses and Tolerance
- Wheat and Barley Genetics and Pathology
- Bioenergy crop production and management
- Plant Water Relations and Carbon Dynamics
- Ruminant Nutrition and Digestive Physiology
- Bioinformatics and Genomic Networks
- Light effects on plants
- Photosynthetic Processes and Mechanisms
- Plant Reproductive Biology
- Nutrition, Genetics, and Disease
- Plant Physiology and Cultivation Studies
- CRISPR and Genetic Engineering
- Plant Molecular Biology Research
Michigan State University
2024
Carnegie Institution for Science
2020-2023
Carnegie Department of Plant Biology
2020-2021
United States Department of Agriculture
2018-2020
Agricultural Research Service
2018-2020
University of Maryland, College Park
2014-2017
Washington State University
2017
To understand and engineer plant metabolism, we need a comprehensive accurate annotation of all metabolic information across species. As step towards this goal, generated genome-scale pathway databases 126 algal genomes, ranging from model organisms to crops medicinal plants (https://plantcyc.org). Of these, 104 have not been reported before. We systematically evaluated the quality databases, which revealed that our semi-automated validation pipeline dramatically improves quality. then...
Abstract Senna tora is a widely used medicinal plant. Its health benefits have been attributed to the large quantity of anthraquinones, but how they are made in plants remains mystery. To identify genes responsible for plant anthraquinone biosynthesis, we reveal genome sequence S. at chromosome level with 526 Mb (96%) assembled into 13 chromosomes. Comparison among related species shows that chalcone synthase-like (CHS-L) gene family has lineage-specifically and rapidly expanded . Combining...
Abstract Fragaria vesca is a species of diploid strawberry being developed as model for the octoploid garden strawberry. This work sequenced and compared genomes three F. accessions: ‘Hawaii 4′, ‘Rügen’ ‘Yellow Wonder’. Genome-scale analyses shared distinct SNPs among these accessions have revealed that Wonder’ are more similar to each other than they 4’. Though all inbred seven generations, accession still possesses extensive heterozygosity, highlighting inherent differences between...
Alfalfa (M. sativa L.) is a highly valuable forage crop, providing >58 Mt of hay, silage, and pasture each year in the United States. As alfalfa an outcrossing autotetraploid however, breeding for enhanced agronomic traits challenging progress has historically not been rapid. Methods that make use genotypic information statistical models to generate genomic estimated value (GEBV) plant at young age hold great deal promise accelerate gains. An emerging pipeline employs SNP chips or...
Wild strawberry Fragaria vesca is emerging as an important model system for the cultivated due to its diploid genome and availability of extensive transcriptome data a range molecular genetic tools. Being able better utilize these tools, especially data, will greatly facilitate research progress in other Rosaceae fruit crops. The electronic fluorescent pictograph (eFP) software useful popular tool display visually, widely used organisms including Arabidopsis mouse. Here we applied eFP wild...
The female reproductive organ of angiosperms, the gynoecium, often consists fusion multiple ovule-bearing carpels. It serves important function producing and protecting ovules as well mediating pollination. gynoecium has likely contributed to tremendous success angiosperms over their 160 million year history. In addition, being a highly complex plant organ, is suited serving model system for use in investigation morphogenesis development. longstanding Arabidopsis holds that apically...
Soil salinity is a growing problem in world production agriculture. Continued improvement crop salt tolerance will require the implementation of innovative breeding strategies such as marker-assisted selection (MAS) and genomic (GS). Genetic analyses for yield vigor traits under stress alfalfa populations with three different phenotypic datasets was assessed. Genotype-by-sequencing (GBS) developed markers allele dosage data were analyzed by genome-wide association studies (GWAS) GS using...
Abstract The Plant Metabolic Network (PMN) is a free online database of plant metabolism available at https://plantcyc.org. latest release, PMN 16, provides metabolic databases representing >1200 pathways, 1.3 million enzymes, >8000 metabolites, >10 000 reactions and >15 citations for 155 green algal genomes, as well pan-plant reference called PlantCyc. This release contains 29 additional genomes compared with 15, including species listed by the African Orphan...
Many agricultural lands in the western United States consist of soil with high concentrations salt, which is detrimental to alfalfa ( L.) growth and production, especially region where water resource limited. Developing varieties salt tolerance imperative for sustainable production under increasing salinity. In present study, we used advanced breeding populations evaluated five traits related including biomass dry weight (DW) fresh (FW), plant height (PH), leaf relative content (RWC),...
Abstract Heat waves, now more frequent and longer due to climate change, devastate plant productivity. Although rare, thermophilic plants could hold keys engineering heat resilience in crop plants. Tidestromia oblongifolia is a flowering that thrives at temperatures above 45°C. When exposed Death Valley summer conditions, T. increased its thermal optimum of photosynthesis within day accelerated growth 10 days. The physiological changes were accompanied by morphological, anatomical, gene...
Abstract Plant metabolism is a pillar of our ecosystem, food security, and economy. To understand engineer plant metabolism, we first need comprehensive accurate annotation all metabolic information across species. As step towards this goal, previously created the Metabolic Network (PMN), an online resource curated computationally predicted about enzymes, compounds, reactions, pathways that make up metabolism. Here report PMN 15, which contains genome-scale pathway databases 126 algal...
A Correction to this paper has been published: https://doi.org/10.1038/s41467-021-21987-7