Entries by Mary Williams

Review: Deep learning for plant genomics and crop improvement (Curr. Opin. Plant Biol.)

One of the goals of plant science is to use the molecular phenotype (genome, transcriptome, proteome) to predict the whole-plant phenotype. Deep learning approaches can potentially begin to do this, starting with a training dataset, and testing it with a validation dataset. Wang et al. review advances in towards this goal, particularly those that employ […]

Review. Flowering plants in the Anthropocene: A political agenda (Trends Plant Sci)

For the past 100 million years, flowering plants have been the main producers of land biomass. They also are indirectly responsible for the origin of agriculture, setting the ball rolling for the onset of the Anthropocene. Negrutiu et al. argue that the accompanying rapid global changes require a reconsideration of the relationship between humans and […]

A two-way molecular dialogue between embryo and endosperm is required for seed development ($) (Science)

During seed formation, the developing embryo becomes covered with a water-impermeable cuticle. Several Arabidopsis mutants have been identified that are defective in cuticle formation and provide a framework for how it is formed. Doll et al. have added a missing piece to this puzzle. Briefly, embryo cells produce a secreted sulfated peptide that must be […]

Enhanced sustainable green revolution yield via nitrogen-responsive chromatin modulation in rice ($) (Science)

The well-known success of the green-revolution was accomplished through the development of semi-dwarf grasses (rice and wheat), which led to decreased losses to lodging and higher yields; however, the benefits of these improved varieties depends on the application of nitrogen-rich fertilizer. As N-rich fertilizer is energetically costly and environmentally damaging, the quest is to sustain […]

Rhizosphere microbiome mediates systemic root metabolite exudation ($) (PNAS)

Roots exude metabolites that affect the composition and activities of their microbiome. Korenblum et al. show that the microbiome in turn affects metabolite exudation, not only locally but also systemically (shown using a split-root system). They call this response SIREM: systemically induced root exudation of metabolites. For example, the presence of Bacillus bacteria triggers exudation […]

Plant Science Research Weekly: February 14

Review: Deep learning for plant genomics and crop improvement One of the goals of plant science is to use the molecular phenotype (genome, transcriptome, proteome) to predict the whole-plant phenotype. Deep learning approaches can potentially begin to do this, starting with a training dataset, and testing it with a validation dataset. Wang et al. review […]

Review. Gossypium genomics: Trends, scope, and utilization for cotton improvement (Trends Plant Sci)

Cotton (Gossypium spp.) provides the world’s most important natural fiber, and I suspect with our growing realization of the problems with plastics there will be still more demand for it. Yang et al. review the current state of Gossypium genomics. As a crop that has been domesticated for millennia, it’s not surprising that its genomic […]

Reciprocal cybrids reveal how organellar genomes affect plant phenotypes (Nature Plants)

A cybrid is a cytoplasmic hybrid; in other words, a cell or organism in which the cytosolic genomes (mitochondria and plastid) have a different origin than the nuclear genome; the nuclear genome is inherited solely from the paternal parent, and the cytosolic genomes from the maternal parent. Starting with a chance observation and a fortuitous […]