Data-Driven Discovery

Over 25-75% of protein-encoding genes in all sequenced genomes are not similar to anything with known molecular functions. We develop approaches to systematically characterize these ‘unknown’ genes.
Graphical overview of the status of genome function annotations for model species and select bioenergy & food crops
​This part of our research program is the riskiest, but we are learning the newest biology from this approach. One example is a novel gene that we call CHIQUITA1, which is a negative growth regulator that attenuates cell division rates early in development. In the absence of the protein, cell division is accelerated during early development; organs switch from proliferation to differentiation earlier than the wild type, consigning the mutant plants to become dwarf at maturity. This is a holy-grail trait --early vigor combined with late onset dwarfism-- that farmers have been looking for since the Green Revolution. Another example is a gene we named FLOE1 (after the second movement of Philip Glass’s Glassworks), which acts as a water sensor and regulates seed germination. Upon exposure to water, the protein changes its physical nature from a glassy state to liquid droplets, which we believe changes the viscosity of the cell cytoplasm, thereby allowing metabolic activities and the germination process to start. We are currently translating these discoveries into oil crops and sorghum. Considering that these are the first two genes of the ‘unknown’ genes we have been characterizing, I am confident that this dark matter of the genome in plants is a gold mine for the riskphilic, creative, and optimistic.
STANFORD & MICHIGAN STATE UNIVERSITY LAND ACKNOWLEDGEMENTS
“Stanford sits on the ancestral land of the Muwekma Ohlone Tribe. This land was and continues to be of great importance to the Ohlone people. Consistent with our values of community and inclusion, we have a responsibility to acknowledge, honor, and make visible the University’s relationship to Native peoples.”
"We acknowledge that Michigan State University occupies the ancestral, traditional, and contemporary Lands of the Anishinaabeg – the Three Fires Confederacy of Ojibwe, Odawa, and Potawatomi peoples. We affirm Indigenous sovereignty and hold Michigan State University accountable to the needs of American Indian and Indigenous peoples."