Department of Chemistry, Seoul National University, Seoul, 08826, Korea.
Plant Genomics and Breeding Institute, Seoul National University, Seoul, 08826, Korea.
Sci Rep. 2020 Dec 4;10(1):21257. doi: 10.1038/s41598-020-78324-z.
In vitro plant regeneration involves a two-step practice of callus formation and de novo organogenesis. During callus formation, cellular competence for tissue regeneration is acquired, but it is elusive what molecular processes and genetic factors are involved in establishing cellular pluripotency. To explore the mechanisms underlying pluripotency acquisition during callus formation in monocot plants, we performed a transcriptomic analysis on the pluripotent and non-pluripotent rice calli using RNA-seq. We obtained a dataset of differentially expressed genes (DEGs), which accounts for molecular processes underpinning pluripotency acquisition and maintenance. Core regulators establishing root stem cell niche were implicated in pluripotency acquisition in rice callus, as observed in Arabidopsis. In addition, KEGG analysis showed that photosynthetic process and sugar and amino acid metabolism were substantially suppressed in pluripotent calli, whereas lipid and antioxidant metabolism were overrepresented in up-regulated DEGs. We also constructed a putative coexpression network related to cellular pluripotency in rice and proposed potential candidates conferring pluripotency in rice callus. Overall, our transcriptome-based analysis can be a powerful resource for the elucidation of the molecular mechanisms establishing cellular pluripotency in rice callus.
体外植物再生涉及愈伤组织形成和新器官发生的两步实践。在愈伤组织形成过程中，细胞获得了组织再生的能力，但尚不清楚涉及建立细胞多能性的分子过程和遗传因素是什么。为了探索单子叶植物愈伤组织形成过程中多能性获得的机制，我们使用 RNA-seq 对多能性和非多能性水稻愈伤组织进行了转录组分析。我们获得了一个差异表达基因（DEG）数据集，该数据集解释了支持多能性获得和维持的分子过程。在拟南芥中观察到，建立根干细胞龛的核心调控因子参与了水稻愈伤组织的多能性获得。此外，KEGG 分析表明，在多能性愈伤组织中，光合作用过程以及糖和氨基酸代谢显著受到抑制，而脂质和抗氧化代谢在上调的 DEG 中过表达。我们还构建了一个与水稻细胞多能性相关的假定共表达网络，并提出了在水稻愈伤组织中赋予多能性的潜在候选基因。总的来说，我们基于转录组的分析可以成为阐明水稻愈伤组织中细胞多能性建立的分子机制的有力资源。
