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FUNDING AGENCIES HAVE MADE SIGNIFICANT INVESTMENTS TO MITIGATE LOSSES AND IMPROVE PRODUCTION OF ECONOMICALLY AND ECOLOGICALLY IMPORTANT SPECIES, INCLUDING SUPPORT FOR POPULATION GENETIC STUDIES. THESE REQUIRE GENERATION AND INTEGRATION OF GENOTYPE, PHENOTYPE, AND ENVIRONMENTAL DATA. THE ASSOCIATED DATASETS MUST ALSO BE CONNECTED TO ANALYTICAL PIPELINES SUPPORTED BY HIGH PERFORMANCE COMPUTING TO CONTEND WITH HIGH THROUGHPUT TECHNOLOGIES. CURRENTLY, APPLICATIONS FOR THE COLLECTION OF THIS DATA AND ASSOCIATED METADATA ARE RARE, AND NOT UNIVERSALLY ADOPTED. MOREOVER, THE OUTCOMES OF LARGE-SCALE STUDIES, REVEALING POTENTIAL ADAPTIVE AND CAUSAL VARIANTS, ARE OFTEN LOST BETWEEN GENOME VERSIONS AND INTERMEDIATE ASSEMBLIES.WE WILL DEVELOP THE FIRST WEB-BASED APPLICATION THAT INTEGRATES GENOTYPE-PHENOTYPE METADATA AND DATA FOR MODEL AND NON-MODEL PLANT SYSTEMS IN A GEOSPATIAL CONTEXT. THE FIELD TO ANALYSIS FRAMEWORK WILL CONNECT DATA COLLECTION, DATA SUBMISSION, ONTOLOGY-BASED METADATA ANNOTATION, STORAGE, AND EXCHANGE DIRECTLY TO HIGH PERFORMANCE COMPUTING FOR ASSOCIATION/LANDSCAPE GENOMICS ANALYSIS TO EXAMINE ADAPTIVE POTENTIAL, GENOTYPIC DIVERSITY FROM WILD ACCESSIONS, IMPACT OF INVASIVE SPECIES, AND PRODUCTIVITY OF BREEDING POPULATIONS. THIS APPLICATION IS BEING DEVELOPED WITHIN THE OPEN-SOURCE TRIPAL FRAMEWORK WHICH REPRESENTS A FEDERATION OF OVER 25 PLANT AND ANIMAL GENOMICS/PHENOMICS DATABASES.PLANT HEALTH, PRODUCTIVITY, AND BIOGEOGRAPHICAL RESPONSE TO ENVIRONMENTAL CHALLENGES HAVE CONSEQUENCES BEYOND FOOD AND TIMBER PRODUCTION: THEY AFFECT THE ENVIRONMENT, SPANNING AREAS OF BIODIVERSITY, CARBON CYCLING, AND PLANETARY HEALTH. PROVIDING ACCESS TO HIGH QUALITY GENOTYPIC, PHENOTYPIC AND ENVIRONMENTAL DATA IN A SEMANTICALLY AWARE, GEOSPATIAL-ENABLED, WEB-BASED PLATFORM CONNECTED TO HIGH PERFORMANCE COMPUTING RESOURCES WILL ENABLE INTERROGATION, STORAGE, AND EXCHANGE OF DATA FROM LARGE-SCALE ASSOCIATION STUDIES.

$500,000FY2019National Institute of Food and AgricultureUSDA

University Of Connecticut, Storrs CT

Investigators

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