Challenge

Genotype to Phenotype (iPG2P)

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iPlant Genotype to Phenotype

Elucidating the relationship between plant genotypes and the resultant phenotypes in complex, non-constant environments is one of the foremost challenges in plant biology (NRC, 2008*). Plant phenotypes are determined by intricate interactions between genetic controls and environmental conditions.

In a world where the environment is undergoing rapid anthropogenic change, predicting altered plant responses is central to studies of plant adaptation, ecological genomics, crop improvement activities (e.g. international agriculture, biofuels), physiology (e.g. photosynthesis, stress), plant development, and many more.

Addressing the Genotype to Phenotype (G2P) problem requires the integrated efforts of specialists from disciplines such as functional, quantitative, and computational genetics/genomics, bioinformatics, modeling, physiology, and computer science. New innovations in cyberinfrastructure are needed to support these diverse collaborations.

iPlant is supporting the development of cyberinfrastructure to enable analysis of large, complex datasets and empower plant biologists to execute the analysis without being a computational expert.

iPG2P Steering Committee

Name Role Institution
Stephen Welch iPG2P Lead Kansas State University
Tom Brutnell Next Generation Sequencing WG Lead Cornell
Doreen Ware
Data Intergration WG Lead iPlant Collaborative, Cold Spring Harbor Laboratory
Dan Kliebenstein Statistical Inference WG Lead UC Davis
Ed Buckler Statistical Inference WG Lead Cornell
Ruth Grene Visual Analytics WG Lead Virginia Tech
Jeffrey White
Modeling WG Lead USDA-ARS
Chris Myers Modeling WG Lead Cornell
Chris Jordan Data Integration WG Lead iPlant Collaborative, TACC
Zhenyuan Lu Collaborator iPlant Collaborative, Cold Spring Harbor Laboratory 
Greg Abram Visual Analytics WG Lead iPlant Collaborative, TACC

*National Research Council, Achievements of the National Plant Genome Initiative and New Horizons in Plant Biology. 2008, Washington, D.C.: The National Academies Press