Ramadan Ahmed M
Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), PO Box 80141, Jeddah, 21589, Saudi Arabia.
Department of Plant Molecular Biology, Agricultural Genetic Engineering Research Institute (AGERI), Agriculture Research Center (ARC), Giza, Egypt.
J Genet Eng Biotechnol. 2020 Sep 11;18(1):49. doi: 10.1186/s43141-020-00064-4.
RNA editing is common in terrestrial plants, especially in mitochondria and chloroplast. In the photosynthesis process, NAD dehydrogenase plays a very important role. Subunit 2 of NADH-dehydrogenase is one of the major subunits in NAD dehydrogenase complex. Using desert plant Calotropis (Calotropis procera), this study focuses on the RNA editing activity of ndhB based on light time.
NdhB (NADH-dehydrogenase subunit 2) gene accession no. MK144329 was isolated from Calotropis procera genomic data (PRJNA292713). Additionally, using RNA-seq data, the cDNA of the ndhB gene of C. procera was isolated at three daylight periods, i.e., dawn (accession no. MK165161), at midday (accession no. MK165160), and pre-dusk (accession no. MK165159). Seven RNA editing sites have been found in several different positions (nucleotide no. C467, C586, C611, C737, C746, C830, and C1481) within the ndhB coding region. The rate of these alterations was deferentially edited across the three daylight periods. RNA editing rate of ndhB gene was highest at dawn, (87.5, 79.6, 78.5, 76, 68.6, 39.3, and 96.9%, respectively), less in midday (74.8, 54.1, 62.6, 47.4, 45.5, 47.4, and 93.4%, respectively), and less at pre-dusk (67, 52.6, 56.9, 40.1, 40.7, 33.2, and 90%, respectively), also all these sites were validated by qRT-PCR.
The differential editing of chloroplast ndhB gene across light periods may be led to a somehow relations between the RNA editing and control of photosynthesis.
RNA编辑在陆生植物中很常见，尤其是在线粒体和叶绿体中。在光合作用过程中，NAD脱氢酶起着非常重要的作用。NADH脱氢酶亚基2是NAD脱氢酶复合体的主要亚基之一。本研究以沙漠植物牛角瓜（Calotropis procera）为材料，基于光照时间重点研究ndhB的RNA编辑活性。
从牛角瓜基因组数据（PRJNA292713）中分离出ndhB（NADH脱氢酶亚基2）基因登录号MK144329。此外，利用RNA测序数据，在三个白天时段分离出牛角瓜ndhB基因的cDNA，即黎明（登录号MK165161）、中午（登录号MK165160）和黄昏前（登录号MK165159）。在ndhB编码区内的几个不同位置（核苷酸编号C467、C586、C611、C737、C746、C830和C1481）发现了7个RNA编辑位点。这些改变的发生率在三个白天时段有所不同。ndhB基因的RNA编辑率在黎明时最高（分别为87.5%、79.6%、78.5%、76%、68.6%、39.3%和96.9%），中午较低（分别为74.8%、54.1%、62.6%、47.4%、45.5%、47.4%和93.4%），黄昏前更低（分别为67%、52.6%、56.9%、40.1%、40.7%、33.2%和90%），所有这些位点也通过qRT-PCR进行了验证。
叶绿体ndhB基因在不同光照时段的差异编辑可能导致RNA编辑与光合作用调控之间存在某种关联。
