The team led by Prof. Bao Zhenmin and Prof. Wang Shi from the Key Laboratory of Marine Biogenetics and Breeding (OUC), Ministry of Education, and the Fang Zongxi Center for Marine Evo-Devo made significant advancement in the development of PanSyn, a genome architecture analysis tool, which is the first comprehensive analytical tool that integrates macro-/micro-evolutionary genomes and functional genomes. The article titled “Pan-evolutionary and regulatory genome architecture delineated by an integrated macro- and microsynteny approach” was published in Nature Protocols. 

PanSyn not only contains a comprehensive micro-collinearity analysis module, but also greatly compensates for the lack of macro-collinearity analysis tools and innovatively proposes an integrated analysis module that integrates micro- and macro-collinearity as well as regulatory genomics data. Compared with mainstream software and tools, PanSyn has obvious advantages: in micro-collinearity analysis, it can make comprehensive analysis from single to multiple comparison, from simple to complex ploidy, from low-dimensional to high-dimensional networks, and from structure to function; in macro-collinearity analysis, it can reconstruct ancestral genomes, cluster ancient genes, estimate karyotype conservation and chromosome evolution; in integrated analysis module, it puts forward the strategy from micro- to macroscale and from macro- to microscale and achieves systematic estimation and analysis of pan-evolutionary genome between ancestors and extant species. It also integrates multidimensional functional genomics data, provides a more comprehensive and in-depth functional interpretation perspective for the understanding of genome evolution. The research team has provided detailed instructions and application demonstrations of PanSyn, which is highly customizable to meet users’ specific analysis needs.