美国佐治亚大学Robert J. Schmitz课题组绘制了大豆发育的空间分辨多组学单细胞图谱。这一研究成果于2024年12月31日在线发表在国际学术期刊《细胞》上。

据介绍，顺式调控元件（CRE）精确地控制细胞内基因的时空表达。通过利用一个包含大豆十种组织的基因表达，和染色质可及性的空间解析单细胞图谱，研究人员识别出了103种不同的细胞类型，和303199个可接近的染色质区域（ACR）。近40%的ACR展示了细胞类型特异性的模式，并富含转录因子（TF）基序，这些基序定义了不同的细胞身份。

研究人员识别了全新的富集TF基序，并探讨了支撑豆科植物共生固氮的基因调控网络的保守性。通过对胚乳和胚胎的全面发育轨迹分析，研究人员揭示了胚乳三个亚细胞类型的功能转变，识别出了13种与指状11（DOF11）基序共享DNA结合的蔗糖转运蛋白。

这些转运蛋白在晚期外周胚乳中共同上调，并确定了胚胎发生过程中，胚胎细胞类型规格化的关键调控因子，包括促进子叶薄壁组织身份的同源盒转录因子。该资源为分析大豆不同组织和生命周期阶段的，细胞类型基因调控程序提供了宝贵的基础。

附：英文原文

Title: A spatially resolved multi-omic single-cell atlas of soybean development

Author: Xuan Zhang, Ziliang Luo, Alexandre P. Marand, Haidong Yan, Hosung Jang, Sohyun Bang, John P. Mendieta, Mark A.A. Minow, Robert J. Schmitz

Issue&Volume: 2024-12-31

Abstract: Cis-regulatory elements (CREs) precisely control spatiotemporal gene expression in cells. Using a spatially resolved single-cell atlas of gene expression with chromatin accessibility across ten soybean tissues, we identified 103 distinct cell types and 303,199 accessible chromatin regions (ACRs). Nearly 40% of the ACRs showed cell-type-specific patterns and were enriched for transcription factor (TF) motifs defining diverse cell identities. We identified de novo enriched TF motifs and explored the conservation of gene regulatory networks underpinning legume symbiotic nitrogen fixation. With comprehensive developmental trajectories for endosperm and embryo, we uncovered the functional transition of the three sub-cell types of endosperm, identified 13 sucrose transporters sharing the DNA binding with one finger 11 (DOF11) motif that were co-upregulated in late peripheral endosperm, and identified key embryo cell-type specification regulators during embryogenesis, including a homeobox TF that promotes cotyledon parenchyma identity. This resource provides a valuable foundation for analyzing gene regulatory programs in soybean cell types across tissues and life stages.

DOI: 10.1016/j.cell.2024.10.050

Source: https://www.cell.com/cell/abstract/S0092-8674(24)01273-X