Yeast gene order browser

Yeast gene order browser displays and analyzes synteny and gene order conservation across multiple yeast genomes to support comparative and evolutionary genomics.

Key Features:

• Synteny visualization and analysis: Visualization and computational analysis of synteny relationships across multiple yeast genomes.
• Curated homolog datasets: Intensively curated datasets of homologous genes assembled using sequence similarity and genomic context (synteny).
• Ohnolog reconciliation and cataloging: Reconciles laboratory-generated gene lists to produce comprehensive catalogs of ohnolog pairs resulting from whole-genome duplications.
• Species-specific ohnolog counts: Provides ohnolog lists including 551 pairs (22 previously unidentified) for Saccharomyces cerevisiae, 599 for Saccharomyces castellii, and 404 for Candida glabrata.
• Integration of computational and curated data: Integrates curated datasets with computational analysis to refine synteny and paralog identification.

Scientific Applications:

• Gene conservation analysis: Analysis of gene order conservation and identification of conserved genetic elements across yeast species.
• Genomic rearrangement studies: Investigation of genomic rearrangements and their functional implications.
• Evolutionary genomics: Reconstruction of evolutionary history and study of whole-genome duplication-derived paralogs (ohnologs) in yeasts.
• Comparative genomics: Comparative genomic analyses among Saccharomyces cerevisiae, Saccharomyces castellii, Candida glabrata, and other yeast species.

Methodology:

Assembles homologous gene datasets using sequence similarity and genomic context (synteny), reconciles laboratory-generated gene lists to identify ohnolog pairs, and performs computational analysis and visualization of synteny relationships.