[1]戴晓港,刘景胜,李淑娴*.望春玉兰WRKY基因家族生物信息学分析[J].江苏林业科技,2021,48(06):1-9.[doi:10.3969/j.issn.1001-7380.2021.06.001]
　Dai Xiaogang,Liu Jingsheng,Li Shuxian*.Bioinformatics analysis of WRKY gene family in Yulania biondii[J].Journal of Jiangsu Forestry Science &Technology,2021,48(06):1-9.[doi:10.3969/j.issn.1001-7380.2021.06.001]
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望春玉兰WRKY基因家族生物信息学分析()
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《江苏林业科技》[ISSN:1001-7380/CN:32-1236/S]

卷:
第48卷
期数:
2021年06期
页码:
1-9
栏目:
试验研究
出版日期:
2021-12-31

文章信息/Info

Title:
Bioinformatics analysis of WRKY gene family in Yulania biondii
文章编号:
1001-7380（2021）06-0001-09
作者:
戴晓港;  刘景胜;  李淑娴*
南京林业大学林学院/南方杨树工程技术研究中心/江苏省杨树种质创新与品种改良重点实验室, 江苏 南京 210037
Author(s):
Dai Xiaogang;  Liu Jingsheng;  Li Shuxian*
The Key Laboratory of Tree Genetic Improvement and Biotechnology of Jiangsu Province, The Southern Poplar Germplasm Engineeringand Wood Processing Technology Center, College of Forestry, Nanjing Forestry University, Nanjing 210037,China
关键词:
望春玉兰; WRKY转录因子; 进化分析; 基因表达模式
Keywords:
Yulania biondii; WRKY transcription factor; Evolution analysis; Gene expression pattern
分类号:
Q756；S792.9.9
DOI:
10.3969/j.issn.1001-7380.2021.06.001
文献标志码:
A
摘要:
WRKY超级转录因子基因家族，参与植物生长、发育、非生物胁迫以及次生代谢产物的调节。该文鉴定了药用植物望春玉兰全基因组WRKY基因，并采用生物信息学方法，分析了该基因家族成员的蛋白理化性质、亚细胞定位、系统进化、保守结构域、顺式作用元件，以及在不同组织中的表达模式。在望春玉兰全基因组中共鉴定56个WRKY基因；根据进化分析的结果，将这些基因分为3个组(Group Ⅰ—Ⅲ)，又将Group Ⅱ进一步分为5个亚组(Ⅱa—Ⅱe)。该家族基因蛋白分子量在12 215.15—191 326.88 Da之间，理论等电点在4.9—10.06之间。亚细胞定位结果显示，55个基因家族成员定位在细胞核，其中1个基因同时定位在细胞外间隙，还有1个基因定位在细胞质。顺式作用元件分析表明，望春玉兰WRKY基因除了广泛参与到调节非生物胁迫中，还参与次生代谢产物的合成调控。该文同时分析了WRKY基因在根、叶片和花中的表达模式，并鉴定了组织特异表达基因。通过对望春玉兰WRKY基因家族的生物信息学分析，为深入研究WRKY基因家族的功能提供了基础。
Abstract:
As a super transcription factor family, WRKY proteins were involved in regulating plant growth, development, abiotic stress response and secondary metabolism. In this study, genome-wide WRKY transcription factors were identified from a medical tree of Yulania biondii, and their physico-chemical properties, subcellular localization, phylogenetic evolution, conserved domain, cis-acting elements, gene expression pattern in different tissues were analyzed by bioinformatics. Fifty-six WRKY genes identified in Y. biondii genome were classified into 3 main groups (Group Ⅰ—Ⅲ), with 5 subgroups (IIa—IIe) in group II based on the evolution analysis result. The proteins varied ranging from 12 215.15 Da to 191 326.88 Da and theoretical pI varying from 4.9—10.06. Subcellular localization results showed that 55 genes were localized in nucleus, with one localized in extracellular space, another in cytoplasm simultaneously. Cis-acting element analysis showed that Y. biondii WRKY genes were not only found in being involved in abiotic stress response, but also regulating the synthesis of secondary metabolites. Gene expression pattern were analyzed with the RNA-seq data from root, leaf and flower, with the specific expression genes identified in different tissues. The bioinformatics analysis will provide the basis for further functional study of WRKY gene family in Y. biondii.

参考文献/References:

[1]李书粉,孙富丛,肖理慧,等.植物对非生物胁迫应答的转录因子及调控机制[J].西北植物学报, 2006, 26(6):1295-1300.
[2]EULGEM T, RUSHTON P J, ROBATZEK S, et al. The WRKY superfamily of plant transcription factors[J]. Trends in Plant Science, 2000, 5(5): 199-206.
[3]EULGEM T, SOMSSICH I E. Networks of WRKY transcription factors in defense signaling[J]. Current Opinion in Plant Biology, 2007, 10(4): 366-371.
[4]REN X, CHEN Z, LIU Y, et al. ABO3, a WRKY transcription factor, mediates plant responses to abscisic acid and drought tolerance in Arabidopsis[J]. The Plant Journal, 2010, 63(3): 417-429.
[5]XU Y H, WANG J W, WANG S, et al. Characterization of GaWRKY1, a cotton transcription factor that regulates the sesquiterpene synthase gene (+)-δ-cadinene synthase-A[J]. Plant Physiology, 2004, 135(1): 507-515.
[6]MA D, PU G, LEI C, et al. Isolation and characterization of AaWRKY1, an Artemisia annua transcription factor that regulates the amorpha-4, 11-diene synthase gene, a key gene of artemisinin biosynthesis[J]. Plant and Cell Physiology, 2009, 50(12): 2146-2161.
[7]张庆宝,申亚梅,范义荣.木兰属(Magnolia)观赏植物育种现状及育种策略[J]. 江苏林业科技, 2008, 35(6): 46-48.
[8]中华人民共和国卫生部药典委员会.中国药典:第一版[M]. 北京:人民卫生出版社, 1977.
[9]DONG S, LIU M, LIU Y, et al. The genome of Magnolia biondii Pamp. provides insights into the evolution of Magnoliales and biosynthesis of terpenoids[J]. Horticulture Research, 2021, 8(1): 1-13.
[10]LETUNIC I, DOERKS T, BORK P. SMART: recent updates, new developments and status in 2015[J]. Nucleic Acids Research, 2015, 43(Database issue):257-260.
[11]ARTIMO P, JONNALAGEDDA M, ARNOLD K, et al. ExPASy: SIB bioinformatics resource portal[J]. Nucleic Acids Research, 2012, 40(W1): 597-603.
[12]TAMURA K, STECHER G, PETERSON D, et al. MEGA6: Molecular evolutionary genetics analysis version 6.0[J]. Molecular Biology & Evolution, 2013, 30(12):1-12.
[13]CHEN C, CHEN H, ZHANG Y, et al. TBtools: an integrative toolkit developed for interactive analyses of big biological data[J]. Molecular Plant, 2020, 13(8): 1194-1202.
[14]LEHTI-SHIU M D, ZOU C, HANADA K, et al. Evolutionary history and stress regulation of plant receptor-like kinase/pelle genes[J]. Plant Physiology, 2009, 150(1): 12-26.
[15]BOLGER A M, LOHSE M, U SADEL B. Trimmomatic: a flexible trimmer for Illumina sequence data[J]. Bioinformatics. 2014;30(15):2114-2120.
[16]DOBIN A, DAVIS C A, SCHLESINGER F, et al. STAR: ultrafast universal RNA-seq aligner[J]. Bioinformatics, 2013, 29(1): 15-21.
[17]LIU J, WANG X, CHEN Y, et al. Identification, evolution and expression analysis of WRKY gene family in Eucommia ulmoides[J]. Genomics, 2021, 113: 3294-3309.
[18]宋辉,南志标.蒺藜苜蓿全基因组中WRKY转录因子的鉴定与分析[J].遗传, 2014, 36(2): 152-168.
[19]DONG Q, ZHENG W, DUAN D, et al. MdWRKY30, a group IIa WRKY gene from apple, confers tolerance to salinity and osmotic stresses in transgenic apple callus and Arabidopsis seedlings[J]. Plant Science, 2020, 299: 110-117.
[20]PENG Y, BARTLEY L E, CANLAS P, et al. OsWRKY IIa transcription factors modulate rice innate immunity[J]. Rice, 2010, 3(1): 36-42.

备注/Memo

备注/Memo:
收稿日期：2021-10-02;修回日期：2021-10-29
基金项目：国家自然科学基金项目“簸箕柳组培再生体系及农杆菌介导的遗传转化研究”(31500533)
作者简介：戴晓港(1984- ), 男, 江苏新沂人, 实验师，博士。主要从事林木遗传育种研究。 E-mail: xgdai@njfu.edu.cn
*通信作者：李淑娴(1969- ), 女, 山东潍坊人, 教授，博士。主要从事观赏植物育种研究。 E-mail: shuxianli@njfu.com.cn
更新日期/Last Update: 2022-01-13