SPLAYED (SYD) is a SWItch/Sucrose Non‐Fermentable (SWI/SNF)‐type chromatin remodeler identified in Arabidopsis thaliana (Arabidopsis). It is believed to play both redundant and differential roles with its closest homolog BRAHMA (BRM) in diverse plant growth and development processes. To better understand how SYD functions, we profiled the genome‐wide occupancy of SYD and its impact on the global transcriptome and trimethylation of histone H3 on lysine 27 (H3K27me3). To map the global occupancy of SYD, we generated a GFP‐tagged transgenic line and used it for chromatin immunoprecipitation experiments followed by next‐generation sequencing, by which more than 6000 SYD target genes were identified. Through integrating SYD occupancy and transcriptome profiles, we found that SYD preferentially targets to nucleosome‐free regions of expressed genes. Further analysis revealed that SYD occupancy peaks exhibit five distinct patterns, which were also shared by BRM and BAF60, a conserved SWI/SNF complex component, indicating the common target sites of these SWI/SNF chromatin remodelers and the functional relevance of such distinct patterns. To investigate the interplay between SYD and Polycomb‐group (PcG) proteins, we performed a genome‐wide analysis of H3K27me3 in syd‐5. We observed both increases and decreases in H3K27me3 levels at a few hundred genes in syd‐5 compared to wild type. Our results imply that SYD can act antagonistically or synergistically with PcG at specific genes. Together, our SYD genome‐wide occupancy data and the transcriptome and H3K27me3 profiles provide a much‐needed resource for dissecting SYD’s crucial roles in the regulation of plant growth and development.

中文翻译：

---

拟南芥 SWI/SNF 染色质重塑剂 SPLAYED 的全基因组占有率提供了对其与其密切同源物 BRAHMA 和 Polycomb 蛋白相互作用的见解

SPLAYED (SYD) 是一种在拟南芥中鉴定的 SWItch/蔗糖不可发酵 (SWI/SNF) 型染色质重塑剂（拟南芥）。它被认为与其最接近的同源物 BRAHMA (BRM) 在不同的植物生长和发育过程中扮演着冗余和差异化的角色。为了更好地了解 SYD 的功能，我们分析了 SYD 的全基因组占有率及其对全局转录组和组蛋白 H3 在赖氨酸 27 (H3K27me3) 上的三甲基化的影响。为了绘制 SYD 的全球占有率，我们生成了 GFP 标记的转基因品系，并将其用于染色质免疫沉淀实验，然后进行下一代测序，由此鉴定了 6000 多个 SYD 靶基因。通过整合 SYD 占有率和转录组谱，我们发现 SYD 优先靶向表达基因的无核小体区域。进一步的分析表明，SYD 占用峰表现出五种不同的模式，BRM 和 BAF60 也有这些模式，一个保守的 SWI/SNF 复合成分，表明这些 SWI/SNF 染色质重塑的共同目标位点以及这种不同模式的功能相关性。为了研究 SYD 和多梳组 (PcG) 蛋白之间的相互作用，我们对 H3K27me3 进行了全基因组分析。syd-5 . 与野生型相比，我们观察到syd-5 中数百个基因的 H3K27me3 水平增加和减少。我们的结果意味着 SYD 可以在特定基因上与 PcG 拮抗或协同作用。总之，我们的 SYD 全基因组占用数据以及转录组和 H3K27me3 谱为剖析 SYD 在植物生长和发育调控中的关键作用提供了急需的资源。