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<p>X-chromosome inactivation (XCI) in mammals is orchestrated by the noncoding RNA X-inactive-specific transcript (Xist) that, together with specific interacting proteins, functions in <i>cis</i> to silence an entire X chromosome. Defined sites on Xist RNA carry the <i>N</i><sup>6</sup>-methyladenosine (m<sup>6</sup>A) modification and perturbation of the m<sup>6</sup>A writer complex has been found to abrogate Xist-mediated gene silencing. However, the relative contribution of m<sup>6</sup>A and its mechanism of action remain unclear. Here we investigate the role of m<sup>6</sup>A in XCI by applying rapid degron-mediated depletion of METTL3, the catalytic subunit of the m<sup>6</sup>A writer complex, an approach that minimizes indirect effects because of transcriptome-wide depletion of m<sup>6</sup>A. We find that acute loss of METTL3 and m<sup>6</sup>A accelerates Xist-mediated gene silencing and this correlates with increased levels and stability of Xist transcripts. We show that Xist RNA turnover is mediated by the nuclear exosome targeting complex but is independent of the principal nuclear m<sup>6</sup>A reader protein YTHDC1. Our findings demonstrate that the primary function of m<sup>6</sup>A on Xist RNA is to promote Xist RNA turnover, which in turn regulates XCI dynamics.</p>

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m6A and the NEXT complex direct Xist RNA turnover and X-inactivation dynamics

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2025年9月9日

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  • Guifeng Wei,
  • Heather Coker,
  • Lisa Rodermund,
  • Mafalda Almeida,
  • Holly L. Roach,
  • Tatyana B. Nesterova,
  • Neil Brockdorff

摘要

X-chromosome inactivation (XCI) in mammals is orchestrated by the noncoding RNA X-inactive-specific transcript (Xist) that, together with specific interacting proteins, functions in cis to silence an entire X chromosome. Defined sites on Xist RNA carry the N6-methyladenosine (m6A) modification and perturbation of the m6A writer complex has been found to abrogate Xist-mediated gene silencing. However, the relative contribution of m6A and its mechanism of action remain unclear. Here we investigate the role of m6A in XCI by applying rapid degron-mediated depletion of METTL3, the catalytic subunit of the m6A writer complex, an approach that minimizes indirect effects because of transcriptome-wide depletion of m6A. We find that acute loss of METTL3 and m6A accelerates Xist-mediated gene silencing and this correlates with increased levels and stability of Xist transcripts. We show that Xist RNA turnover is mediated by the nuclear exosome targeting complex but is independent of the principal nuclear m6A reader protein YTHDC1. Our findings demonstrate that the primary function of m6A on Xist RNA is to promote Xist RNA turnover, which in turn regulates XCI dynamics.