Tracking life’s first step: Two molecules ‘awaken’ brand new genome

Using zebrafish embryos as a model, Yale researchers have shed new light on the beginning of life from a molecular standpoint.

Within hours after fertilization, a unique genome forms from chromosomes contributed by the egg and sperm. However, this new genome is initially inactive and must be “awakened” to begin the transcription of its DNA and start embryonic development. How life’s first step happens has long fascinated developmental biologists.

This is the beginning of life from a molecular standpoint,” said Antonio Giraldez, the Fergus F. Wallace Professor of Genetics and chair of the Department of Genetics at Yale. “What hasn’t been clear is how and what kick-starts the transcriptional activity of the embryonic genome, so that the embryo starts taking control of its own development with its own genetic blueprint.”

Giraldez and his research team at Yale found that two specific factors are needed to activate DNA in the newly formed genome, they report June 17 in the journal Developmental Cell. Using a combination of microscopy and RNA sequencing analysis, they revealed the pattern of transcription within the nucleus of a zebrafish embryo.

The researchers also developed tools to visualize the first activated gene in the zebrafish genome, known as miR-430, and trace the gene’s activity in living embryos.

Now we can visually look inside the nucleus and analyze how the first gene within the silent genome is awakened,” said Shun Hang Chan lead author of the study and a doctoral student working in the Giraldez lab.

The activation of the zebrafish genome requires the presence of two proteins — P300 and Brd4 — produced by the mother. Disruption of the activity of these two proteins using small molecule inhibitors prevents the activation of the embryonic genome, which in turn blocks development of the embryo. However, researchers found that even after they blocked the production of these maternal proteins, they could overcome this block and prematurely kick-start activation of the embryonic genome through the artificial introduction of P300 and Brd4.

These molecular factors act as a sort of molecular timer, which sets the timing of genome’s awakening,” Giraldez said. “Finding these key factors involved in genome activation serve as the critical first step towards our understanding of how life begins.”

Miguel A. Moreno-Mateos, formerly of Yale and now at Universidad Pablo de Olavide/Consejo Superior de Investigaciones Científicas in Seville Spain, is co-senior author of the paper. The research was primarily funded by the National Institutes of Health; Fonds de Recherche du Québec Santé, Canada; Surdna Foundation; Ministerio de Ciencia, Innovación y Universidades, Spain; Howard Hughes Medical Institute; March of Dimes; and Marine Biological Laboratory.

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