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[1]林艺灵 徐小萍 张春渝 陈晓慧 张梓浩 赖钟雄**.龙眼RDRP基因家族的全基因组鉴定与功能预测[J].应用与环境生物学报,2021,27(03):1-14.[doi:10.19675/j.cnki.1006-687x.2020.06063]
 Lin Yiling,XuXiaoping,Zhang Chunyu,et al.Genome-wide identification and functional prediction of RDRP gene family in Dimocarpus longan Lour[J].Chinese Journal of Applied & Environmental Biology,2021,27(03):1-14.[doi:10.19675/j.cnki.1006-687x.2020.06063]
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龙眼RDRP基因家族的全基因组鉴定与功能预测()
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《应用与环境生物学报》[ISSN:1006-687X/CN:51-1482/Q]

卷:
27卷
期数:
2021年03期
页码:
1-14
栏目:
研究论文
出版日期:
2021-06-25

文章信息/Info

Title:
Genome-wide identification and functional prediction of RDRP gene family in Dimocarpus longan Lour
作者:
林艺灵 徐小萍 张春渝 陈晓慧 张梓浩 赖钟雄**
福建农林大学园艺植物生物工程研究所 福州 350002
Author(s):
Lin Yiling XuXiaoping Zhang ChunyuChen XiaohuiZhang Zihao&Lai Zhongxiong**
Institute of Horticultural Biotechnology, Fujian Agriculture and Forestry University, Fuzhou 350002, C hina
关键词:
龙眼RDRP基因家族全基因组鉴定功能分析
Keywords:
Dimocarpus longan Lour. RNA-dependent RNA polymerase gene families genome-wide identification function analysis
DOI:
10.19675/j.cnki.1006-687x.2020.06063
摘要:
为了解龙眼RNA依赖的RNA聚合酶(RDRP)基因家族的生物学功能,采用生物信息学分析方法对龙眼RDRP家族基因成员进行鉴定,并且对其染色体定位、分子进化树、启动子顺式作用元件、蛋白质结构域、蛋白质二级和三级结构、蛋白质互作、可变剪接类型以及在体胚发生过程中差异表达的FPKM值进行分析。结果显示:龙眼RDRP家族基因包括10位成员,分别定位在1、8、9、11、15号共5条染色体上。通过龙眼与拟南芥、水稻构建的进化树分析,将其分为4类:分别为DlRDR1、DlRDR2、DlRDR4、DlRDR6。龙眼RDRP成员启动子包含多种植物激素以及低温、干旱等非生物胁迫的元件。龙眼RDRP家族均含有RDRP保守结构域,其蛋白质家族成员二级、三级结构较为相似,并且与特异性核酸内切酶(DCL)蛋白互作关系密切,同时也与基因沉默蛋白抑制剂3(SGS3)、依赖DNA的RNA聚合酶(NRPD1A)发生互作。不同体细胞胚发生阶段与不同组织部位的可变剪接事件以内含子剪接为主。龙眼体细胞胚不同阶段的表达模式分析中,龙眼RDRP在非胚性阶段显著上调。本研究表明龙眼RDRP家族成员能够响应植物激素的应答并且参与龙眼体胚和不同组织部位生长发育调控。
Abstract:
In order to clarify the biological functions of RNA-dependent RNA polymerase ( RDRP) gene families in longan, the bioinformatics analysis was used to identify the RNA-dependent RNA polymerase family in longan, and their chromosomal location, molecular evolutionary tree, cis-acting element of promoter, protein domain, protein secondary and tertiary structure, protein interaction, alternative splicing types and FPKM values in somatic embryo were analyzed. The results show that longan RDRP family consisted of 10 members which were located on a total of five chromosomes namely 1, 8, 9, 11 and 15. Through the analysis of the evolutionary tree constructed by Dimocarpus longan Lour, Arabidopsis and Oryza sativa , it was divided into four categories: DlRDR1, DlRDR2, DlRDR4 and DlRDR6. Longan RDRP family all contain RDRP conserved domain, and its protein family members have similar secondary and tertiary structures, which can be associated with SGS3 and NRPD1A, especially closely with DCL proteins. Intron retention was the main splicing event at different stages of somatic embryo and different tissue sites.In the analysis of expression patterns of longan somatic embryo at different stages, RDRP was significantly upregulated in the non-embryonic stage.This study showed that RDRP family members can respond to plant hormones and participate in the growth and development regulation of somatic embryo and different tissue parts of longan.

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备注/Memo

备注/Memo:
收稿日期 Received: 2020-06-24 接受日期 Accepted: 2020-07-27
国家自然科学基金项目(.31572088,31672127)、福建省高原学科建设经费(102/71201801101)和资助福建农林大学科技创新专项基金(KF2015108,CXZX2017189,CXZX2016118,CXZX2017314,CXZX2018076)资助 Supported by the National Natural Science Foundation of China (31572088, 31672127), the Funds for Plateau Discipline Construction of Fujian Province (102/71201801101), and the Special Fund for Science and Technology Innovation of Fujian Agriculture and Forestry University (KF2015108, CXZX2017189, CXZX2016118, CXZX2017314, CXZX2018076)
*通信作者 Corresponding author (E-mail: Laizx01@163.com)
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更新日期/Last Update: 2020-08-04