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bioRxiv · 10.1101/2022.02.18.461833

MolEvolvR: a web-app for characterizing proteins using molecular evolution and phylogeny

Burke, J. T.·Chen, S. Z.·Sosinski, L. M.·Johnston, J. B.·Ravi, J.
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Abstract

Studying proteins through the lens of evolution can reveal features such as conserved domains, lineage-specific variants, and co-occurring domain architectures in phylogenetic context across all superkingdoms. MolEvolvR enables researchers to conduct such evolution-focused studies to generate testable hypotheses about protein function and evolution. MolEvolvR is a novel web-app allowing researchers to visualize the molecular evolution of their proteins of interest in a phylogenetic context across the tree of life. It accepts multiple input formats - protein/domain sequences, homologous proteins, or domain scans - and, using a general-purpose computational workflow, returns detailed homolog data and dynamic graphical summaries (e.g., phylogenetic trees, multiple sequence alignments, domain architectures, domain proximity networks, phyletic spreads, co-occurrence patterns across lineages). MolEvolvR performs domain-centric searches to capture remote homologs that are missed by full-length searches, integrates domain architecture evolution with phyletic distribution analyses, and provides evolutionary context visualizations that reveal lineage-specific adaptations versus those that are broadly conserved. Thus, MolEvolvR is a powerful, easy-to-use web interface for computational protein characterization. The web-app can be accessed here: https://jravilab.org/molevolvr.

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Burke, J. T., Chen, S. Z., Sosinski, L. M., Johnston, J. B., Ravi, J.. 2022-02-22. MolEvolvR: a web-app for characterizing proteins using molecular evolution and phylogeny. https://doi.org/10.1101/2022.02.18.461833

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