Single-nucleus RNA and ATAC sequencing analyses provide molecular insights into early pod development of peanut fruit

作     者：Yuanyuan Cui Yanning Su Jianxin Bian Xue Han Haosong Guo Zhiyuan Yang Yijun Chen Lihui Li Tianyu Li Xing Wang Deng Xiaoqin Liu 

作者机构：Peking University Institute of Advanced Agricultural SciencesShandong Laboratory for Advanced Agricultural Sciences at WeifangShandong 261325China School of Advanced Agricultural SciencesPeking UniversityBeijing 100083China 

出 版 物：《Plant Communications》 (植物通讯（英文）)

年 卷 期：2024年第5卷第8期

页      面：50-68页

核心收录：

学科分类：1002[医学-临床医学] 100214[医学-肿瘤学] 10[医学] 

基　　金：supported by grants from the Taishan Scholar Foundation of Shandong Province(tsqn202103161) the Natural Science Foundation of Shandong Province(ZR202103010405) the Key R&D Program of Shandong Province,China(ZR202211070163) the Foundation of President of the Peking University Institute of Advanced Agricultural Sciences(ZR202211070163) the Peanut Seed Industry Project in Shandong Province,China(2022LZGC007)to X.L It was also funded by the National Natural Science Foundation of China(NSFC)Key Program(32230006)to X.W.D 

主　　题：peanut pod development single-nucleus RNA-seq single-nucleus ATAC-seq in situ RNA hybridization 

摘      要：Peanut(Arachis hypogaea L.)is an important leguminous oil and economic crop that produces flowers aboveground and fruits *** fruit-pod development,which significantly affects peanut production,involves complex molecular mechanisms that likely require the coordinated regulation of multiple genes in different *** investigate the molecular mechanisms that underlie peanut fruitpod development,we characterized the anatomical features of early fruit-pod development and integrated single-nucleus RNA-sequencing(snRNA-seq)and single-nucleus assay for transposase-accessible chromatin with sequencing(snATAC-seq)data at the single-cell *** identified distinct cell types,such as meristem,embryo,vascular tissue,cuticular layer,and stele cells within the shell *** specific cell types were used to examine potential molecular changes unique to each cell type during pivotal stages of fruit-pod ***-seq analyses of differentially expressed genes revealed cell-type-specific insights that were not previously obtainable from transcriptome analyses of bulk *** instance,we identified MADS-box genes that contributes to the formation of parenchyma cells and gravity-related genes that are present in the vascular cells,indicating an essential role for the vascular cells in peg ***,our single-nucleus analysis provides comprehensive and novel information on specific cell types,gene expression,and chromatin accessibility during the early stages of fruit-pod *** information will enhance our understanding of the mechanisms that underlie fruit-pod development in peanut and contribute to efforts aimed at improving peanut production.