Genome-Wide Identification of Arabidopsis LBD29 Target Genes Reveals the Molecular Events behind Auxin-Induced Cell Reprogramming during Callus Formation
Genome-Wide Identification of Arabidopsis LBD29 Target Genes Reveals the Molecular Events behind Auxin-Induced Cell Reprogramming during Callus Formation
复制标题
拟南芥 LBD29 靶基因的全基因组鉴定揭示了愈伤组织形成过程中生长素诱导的细胞重编程背后的分子事件
DOI：
10.1093/pcp/pcx168
复制
发表时间：
2018-04
影响因子：
4.9
通讯作者：
Hu Yuxin
中科院分区：
文献类型：
--
作者：
Xu Chongyi;Cao Huifen;Xu Enjun;Zhang Shiqi;Hu Yuxin
生长素诱导的愈伤组织的形成是植物离体再生过程中一个重要的细胞重编程过程，在这个过程中，植物器官内的中柱鞘或中柱鞘样细胞被重编程为被称为愈伤组织的多能细胞团，这通常是随后的根或茎再生所必需的。然而，生长素诱导的愈伤组织形成过程中细胞重编程背后的分子事件在很大程度上是难以捉摸的。我们之前发现生长素诱导的侧器官边界域（LBD）转录因子是生长素诱导的愈伤组织形成的主要调控因子。通过ChIP-seq（基于染色质免疫沉淀的测序）和RNA测序方法，我们在全基因组水平上鉴定了潜在的LBD29靶基因，并概述了在愈伤组织形成过程中lbd触发的细胞重编程的分子事件。我们发现LBD29优先结合G-box （CACGTG）和TGGGC[C/T]基序，潜在靶向bbb350基因，其中与甲基化、活性氧（ROS）代谢、细胞壁水解和脂质代谢相关的基因被快速激活，而大多数光响应基因被LBD29抑制。对一些代表性基因的进一步研究证实，它们是LBD29的靶点，参与了愈伤组织形成过程中细胞重编程的调控。我们的数据不仅概述了生长素诱导的愈伤组织形成细胞重编程的早期分子事件框架，而且为鉴定植物离体再生过程中调控细胞命运转换的基因提供了宝贵的资源。
Auxin-induced callus formation represents an important cell reprogramming process during in vitro regeneration of plants, in which the pericycle or pericycle-like cells within plant organs are reprogrammed into the pluripotent cell mass termed callus that is generally required for subsequent regeneration of root or shoot. However, the molecular events behind cell reprogramming during auxin-induced callus formation are largely elusive. We previously identified that auxin-induced LATERAL ORGAN BOUNDARIES DOMAIN (LBD) transcription factors act as the master regulators to trigger auxin-induced callus formation. Here, by ChIP-seq (chromatin immunoprecipitation-based sequencing) and RNA sequencing approaches, we identified the potential LBD29 target genes at the genome-wide level and outlined the molecular events of LBD-triggered cell reprogramming during callus formation. We showed that LBD29 preferentially bound to the G-box (CACGTG) and TGGGC[C/T] motifs and potentially targeted >350 genes, among which the genes related to methylation, reactive oxygen species (ROS) metabolism, cell wall hydrolysis and lipid metabolism were rapidly activated, while most of the light-responsive genes were suppressed by LBD29. Further examination of a few representative genes validated that they were targeted by LBD29 and participated in the regulation of cell reprogramming during callus formation. Our data not only outline a framework of the early molecular events behind auxin-induced cell reprogramming of callus formation, but also provide a valuable resource for identification of genes that regulate cell fate switch during in vitro regeneration of plants.
登录
查看更多内容
影响因子：
2.6
作者：
Funakoshi, Minoru;Hochstrasser, Mark
通讯作者：
Hochstrasser, Mark
影响因子：
14.9
作者：
Ritchie ME;Phipson B;Wu D;Hu Y;Law CW;Shi W;Smyth GK
通讯作者：
Smyth GK
影响因子：
14.8
作者：
Saleh, Abdelaty;Alvarez-Venegas, Raul;Avramova, Zoya
通讯作者：
Avramova, Zoya
影响因子：
3.8
作者：
Mammarella ND;Cheng Z;Fu ZQ;Daudi A;Bolwell GP;Dong X;Ausubel FM
通讯作者：
Ausubel FM
agriGO v2.0：农业社区的 GO 分析工具包，2017 年更新
影响因子：
14.9
作者：
Tian T;Liu Y;Yan H;You Q;Yi X;Du Z;Xu W;Su Z
通讯作者：
Su Z