Journal of Molecular Evolution covers experimental, computational, and theoretical work aimed at deciphering features of molecular evolution and the processes bearing on these features, from the initial formation of macromolecular systems through their evolution at the molecular level, the co-evolution of their functions in cellular and organismal systems, and their influence on organismal adaptation, speciation, and ecology. Topics addressed include the evolution of informational macromolecules and their relation to more complex levels of biological organization, including populations and taxa, as well as the molecular basis for the evolution of ecological interactions of species and the use of molecular data to infer fundamental processes in evolutionary ecology. This coverage accommodates such subfields as new genome sequences, comparative structural and functional genomics, population genetics, the molecular evolution of development, the evolution of gene regulation and gene interaction networks, and in vitro evolution of DNA and RNA, molecular evolutionary ecology, and the development of methods and theory that enable molecular evolutionary inference, including but not limited to, phylogenetic methods.

分子進化雜志涵蓋了實驗、計算和理論工作旨在解密功能的分子進化和影響這些特性的過程,從最初的形成大分子系統在演化過程中在分子的層次上,聯合進化的細胞和器官系統的功能,及其影響有機體的適應、物種形成、生態。討論的主題包括信息大分子的進化及其與更復雜的生物組織層次(包括種群和分類群)的關系，以及物種生態相互作用進化的分子基礎，以及利用分子數據推斷進化生態學的基本過程。這覆蓋等領域提供新的基因組序列,比較結構和功能基因組學、群體遺傳學、分子進化的發展,基因調控和基因相互作用網絡的發展,DNA和RNA和體外進化,分子進化生態學、和方法和理論的發展,使分子進化推理,包括但不限于系統方法。