Discovering, Integrating, and Reinterpreting the Molecular Logic of Life: From Classical Theories of Heredity to an Extended Functional Perspective on the Central Dogma

The conceptual understanding of genetic information has evolved from early philosophical speculation to the molecular precision of contemporary biology. Initial debates over the nature of heredity, including Mendel's hereditary factors and the longstanding protein versus nucleic acid controversy, underscored the difficulty of identifying the true substrate of inheritance. Subsequent discoveries, including reverse transcription, protein-based infectivity (prions), transposable elements, and the regulatory functions of non-coding RNAs, revealed molecular processes that operate at the boundaries of, or alongside, Crick's original formulation of the Central Dogma of Molecular Biology. Importantly, these findings do not violate the directional rules of information transfer defined by the Central Dogma (DNA → RNA → protein), but instead reshape how, when, and under what constraints these canonical flows are executed in living systems. Epigenetic and epigenetic-like mechanisms, including DNA methylation, histone modifications, chromatin topology, non-canonical DNA conformations, and cytoplasmic inheritance, introduce regulatory layers that modulate information flow without constituting independent information matrices. In parallel, genome innovation, through <i>de novo</i> gene birth, and genome erosion, through pseudogenization, demonstrate that the repertoire of DNA → RNA → protein pathways is itself evolutionarily dynamic. This narrative integrative review reconstructs the historical milestones that culminated in the Central Dogma and synthesizes subsequent discoveries that expand its functional realization. By revisiting the Central Dogma through an extended, holistic lens, this article argues that DNA, RNA, and proteins function not only as carriers of genetic information, but also as active participants in its regulation, contextualization, and evolutionary diversification, without departing from the core directional principles originally articulated by Crick. For reader convenience, a dedicated section entitled "Abbreviations and Key Molecular Terms" is provided at the end of the manuscript to facilitate navigation and interdisciplinary accessibility.