SYNPHONI

SYNPHONI detects and analyzes conserved genomic order across evolutionary scales, identifying ancestral microsyntenic blocks and their descendants in extant genomes.

Key Features:

• Bridging synteny scales: Detects both macrosynteny and microsynteny without requiring strict collinearity or rigid size thresholds.
• Inclusive detection: Accommodates recent gene expansions and minor rearrangements to capture a broader spectrum of syntenic relationships.
• Evolutionary resolution: Provides detailed insights into synteny conservation and transformation to support analyses of evolutionary processes in animal genomes.

Scientific Applications:

• Comparative genomics: Enables cross-species comparisons of genomic order at chromosomal and subchromosomal scales.
• Evolutionary history reconstruction: Facilitates investigation of ancestral genomic arrangements and their descendants across lineages.
• Study of genomic rearrangements: Supports analysis of gene rearrangements and expansions that contribute to genomic diversity and adaptation.

Methodology:

Detects ancestral microsyntenic blocks and their descendants by integrating macrosynteny and microsynteny while allowing non-collinearity and variable block sizes, and accommodates recent expansions and minor rearrangements; implemented in Python 3.9.