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<p>We present iNOMe-seq, a novel method for in vivo simultaneous profiling of chromatin accessibility, nucleosome occupancy, DNA-binding protein sites, and DNA methylation in living tissues. iNOMe-seq utilizes an <sup>m5</sup>C methyltransferase to mark accessible cytosines in a GpC context, bypassing nucleosome-restricted regions. Using <i>Arabidopsis thaliana</i>, we demonstrate that iNOMe-seq improves chromatin accessibility quantification compared to existing methods. Furthermore, it allows for the spatial and temporal analysis of chromatin dynamics, transcription factor binding, and DNA methylation, offering insight into the role of epigenetic components in transcriptional regulation across tissues and genetic variations in natural populations.</p>

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iNOME-seq: in vivo simultaneous genome-wide mapping of chromatin accessibility, nucleosome positioning, DNA-binding protein sites, and DNA methylation in Arabidopsis

  • 期刊论文

  • 出版模式：

    开放获取

  • 发表日期：

    2025年10月22日

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  • Nosheen Hussain,
  • Ryan Merritt,
  • Julia Engelhorn,
  • Javier Antunez-Sanchez,
  • Anjar Wibowo,
  • David Latrasse,
  • Travis Wrightsman,
  • Maximillian Collenberg,
  • Ilja Bezrukov,
  • Hidayah Alotaibi,
  • Elsa Carrasco,
  • Moussa Benhamed,
  • Detlef Weigel,
  • Nicolae Radu Zabet,
  • Jose Gutierrez-Marcos

摘要

We present iNOMe-seq, a novel method for in vivo simultaneous profiling of chromatin accessibility, nucleosome occupancy, DNA-binding protein sites, and DNA methylation in living tissues. iNOMe-seq utilizes an m5C methyltransferase to mark accessible cytosines in a GpC context, bypassing nucleosome-restricted regions. Using Arabidopsis thaliana, we demonstrate that iNOMe-seq improves chromatin accessibility quantification compared to existing methods. Furthermore, it allows for the spatial and temporal analysis of chromatin dynamics, transcription factor binding, and DNA methylation, offering insight into the role of epigenetic components in transcriptional regulation across tissues and genetic variations in natural populations.