| Abstract Detail
Bioinformatics - Afternoon Menda, Naama [1], Mueller, Lukas [1], Tanksley, Steve [1]. Implementation of Ontologies for Solanaceae Phenotypes. THE ancient mode of Solanaceae evolution, coupled with its high level of genome conservation, makes the family a unique subject to explore the basis of phenotypic diversity and their range of adaptations to various natural and agricultural environments. However, while sequencing of the tomato genome will provide a reference for understanding Solanaceae diversification, a robust discovery of gene-function will remain a challenge. A comparative approach for addressing this gene-function question is the use of ontologies for gene and phenotype annotation. Applying common controlled vocabularies for describing existing Solanaceae phenotypic resources, such as mutants and wild-species populations, can be exploited to study the underlying genes for their phenotypic variation. Currently, several tomato germplasms are annotated using Gene Ontology (GO) and Plant Ontology (PO) terms, and comparative curation of other Solanaceae phenotypic resources will follow. We also recently added several terms to PO to accommodate Solanaceae specific features, particularly terms related to fleshy-fruit and tuber anatomy, growth stages and development. On SGN (SOL Genomics Network), a framework for searching across Solanaceae phenotypes and annotations, with on-line submission and feedback pipelines, will be made available. Gene annotation using ontologies has proved efficient in other plant model organisms, including Arabidopsis, rice, and Maize. Implementing accurate and granular ontology-based annotations for tomato will enrich the SOL community with a new resource that stores all known information of every tomato gene, and allows finding putative orthologs within the Solanaceae and in other taxa.
Log in to add this item to your schedule
Related Links:
SOL Genomics Network
1 - Cornell University, Plant Breeding and Genetics, Tower Rd., Ithaca, NY, 14853, USA
Keywords:
ontology
phenotype
annotation
SGN.
Session: SAT07-5
Location: Hall of Ideas Room E/Monona Terrace
Date: Wednesday, July 26th, 2006
Time: 3:20 PM
Abstract ID:103 |
