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ARS Home » Midwest Area » Madison, Wisconsin » Vegetable Crops Research » Research » Publications at this Location » Publication #336359

Research Project: Resources for the Genetic Improvement of Potato

Location: Vegetable Crops Research

Title: Data integration and knowledge management to facilitate research on plant-pathogen interactions: case study Solanum tuberosum – Verticillium

Author
item AMES, MERCEDES - Biomax Informatics Ag
item ROUSE, DOUG - University Of Wisconsin
item KUMAR, ARUN - University Of Wisconsin
item Jansky, Shelley

Submitted to: Plant and Animal Genome
Publication Type: Abstract Only
Publication Acceptance Date: 12/15/2016
Publication Date: 1/13/2017
Citation: Ames, M., Rouse, D., Kumar, A., Jansky, S.H. 2017. Data integration and knowledge management to facilitate research on plant-pathogen interactions: case study Solanum tuberosum – Verticillium [abstract]. Plant and Animal Genome. Paper No. 4335.

Interpretive Summary:

Technical Abstract: Verticillium wilt is an important disease causing considerable economic losses in potato production globally. Soil and environmental conditions affect symptom expression and the effect of the disease on yield. A ten year field trial has been conducted in order to better understand the dynamics of wilt disease development and symptom expression in response to environmental conditions in several commercial potato cultivars. Understanding the dynamics of plant-pathogen interactions is a complex issue involving large amounts of data that need to be curated, integrated, visualized, analyzed and interpreted from a systems perspective. We have built a centralized repository for the Potato-Verticillium data, not only representing all the data gathered from the field trials (symptoms expression, genetic and environmental data), but also relevant information from public databases, ontologies, methods and analytical tools. We used the BioXMTM Knowledge Management environment to semantically integrate the different layers of information, data sources, public databases and analytical tools. The BioXMTM platform, which is configuration-based, allows designing and adapting a knowledge model that can expand as much as the research projects expand. The Potato-Verticillium network of knowledge currently can be queried to report and share results, to interactively visualize the data, use analytical tools for data analysis, explore integrated data from different sources to formulate new hypothesis, facilitate collaboration, record decision making and add newly generated data and in an organized and systematic way.