基于特定序列的长牡蛎视黄酸反应元件预测  

Prediction of retinoic acid response elements based on specific sequences in the pacific oyster Crassostrea gigas

作　　者：李言柯 徐晓莹 魏磊 黄宝玉 张美溦 韩怡静 刘雅琼 王晓梅 王晓通 LI Yanke;XU Xiaoying;WEI Lei;HUANG Baoyu;ZHANG Meiwei;HAN Yijing;LIU Yaqiong;WANG Xiaomei;WANG Xiaotong(School of Agriculture,Ludong University,Yantai 264025,China;Yantai Institute of Marine Economy,Yantai 264034,China;Changdao Enhancement and Experiment Station,Chinese Academy of Fishery Sciences,Yantai 265800,China)

机构地区：[1]鲁东大学农学院,山东烟台264025 [2]烟台市海洋经济研究院,山东烟台264034 [3]中国水产科学研究院长岛增殖实验站,山东烟台265800

出　　处：《海洋通报》2023年第4期398-406,共9页Marine Science Bulletin

基　　金：国家自然科学基金(41876193,41906088,42076088);国家重点研发计划(2018YFD0901400);山东省泰山学者专项基金(tsqn201812094);山东省现代农业产业技术体系(SDAIT-14-03);山东省高等学校“青创科技计划”(2019KJF004)。

摘　　要：视黄酸受体和核受体超家族中的大部分成员对细胞整个分化、增殖过程都具有调控功能。视黄酸受体结合配体后激活,通过结合靶基因启动子区特定的核苷酸序列调控靶基因表达。视黄酸受体结合序列是由核心序列[A/G]G[T/G]TCA间隔不同碱基构成的重复序列,称为视黄酸反应元件。为了实现对长牡蛎基因组中含有的视黄酸反应元件的快速筛选预测,本研究利用Perl工具编写了一个可以批量筛选视黄酸反应元件的脚本,并对长牡蛎基因组中启动子区域序列进行筛选预测,共筛选到412个启动子区含有视黄酸反应元件的基因。随后,将这些基因在各种数据库中比对分析,预测其参与的生物学过程及可能的生物学功能。结果显示,大部分基因与蛋白质结合、核苷酸结合、水解酶活性、蛋白激酶活性等功能有关。Most members of the retinoic acid receptor and nuclear receptor superfamily regulate the process of cell differentiation and proliferation.RA receptors are activated by binding ligands and regulate the expression of target genes by binding specific nucleotide sequences in the promoter region of target genes.The retinoic acid receptor binding sequence is composed of[A/G]G[T/G]TCA,which is called retinoic acid response element.In order to achieve rapid screening and prediction of genes containing retinoic acid reaction elements on Crassostrea gigas genome,this study used Perl programming to predict the genes with retinoic acid response elements in the promoter region of genes on Crassostrea gigas genome.A total of 412 gene containing RAREs in the promoter regions were screened.Then,these genes were compared and analyzed in various databases to predict their biological processes and possible biological functions.The results showed that most of these genes were related to protein binding,nucleotide binding,hydrolase activity and protein kinase activity.

关 键 词：长牡蛎 视黄酸受体 视黄酸反应元件 基因组 PERL 

分 类 号：P714.5[天文地球—海洋科学] Q811.4[生物学—生物工程] TP313[自动化与计算机技术—计算机软件与理论]