红小豆与芸豆AREB1基因生物信息学分析
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摘要
【目的】红小豆和芸豆作为重要的粮食作物,在我国东北地区广泛种植。但其在生长过程中经常遭受各种非生物逆境,如干旱、低温和盐碱胁迫等,这将严重影响其生长发育过程及产量品质的提高。AREB1是ABA信号转导中最为重要的转录因子之一,其可调节胁迫相关基因的表达,因此,解析红小豆和芸豆中AREB1基因的功能具有十分重要的意义。【方法】本研究利用拟南芥、NCBI、Phytozome等数据库初步获取红小豆和芸豆中的AREB1基因及蛋白序列,并通过Ex PASy、SOPMA和MEGA 5.0等在线软件对所得蛋白质序列进行理化特性分析、二级结构预测和系统发育树构建。【结果】红小豆AREB1同源蛋白共3个,芸豆AREB1同源蛋白5个,均属于不稳定的亲水性蛋白,二级结构均以α螺旋和无规卷曲为主。除芸豆XP_007136688.1外,其余几种同源蛋白均为碱性蛋白,消光系数、分子量、脂肪族氨基酸指数、等电点均相近。同时红小豆AREB1的3个同源蛋白亲缘关系也较为相近,芸豆AREB1的5个同源蛋白除芸豆XP_007136688.1外也表现出较近的进化关系。【结论】利用红小豆和芸豆中AREB1基因结构与功能的生物信息学分析结果,可为其抗逆机制的研究及遗传改良提供重要参考与信息。
【Objective】Red bean and kidney bean,as important food crops,are widely planted in northeast of China. However,in the process of growth,they often suffer from various abiotic stresses,such as drought,low temperature and saline-alkali,which will seriously affect the growth and development process and the improvement of yield and quality. AREB1 is one of the most important transcription factors in ABA signaling,which regulates the expression of stress-related genes. Therefore,it is of great significance to analyze the function of the AREB1 gene in red bean and kidney bean. 【Method】In this study,Arabidopsis thaliana,NCBI and Phytozome databases were used to obtain the AREB1 genes and protein sequences in red bean and kidney bean. Then the physiobiochemical property and secondary structure was forecasted and the phylogenetic tree was drawn using Ex PASy,SOPMA and MEGA 5. 0 software. 【Result】The results showed that there were three AREB1 homologous proteins in red bean and five AREB1 homologous proteins in kidney bean. All of them were unstable and hydrophilic,and the secondary structure were dominated by alpha helix and coil. Except for XP_007136688. 1 of kidney bean,all the other homologous proteins were basic,and extinction coefficient,molecular weight,aliphatic index and isoelectric point were similar. At the same time,the three homologous proteins of red bean AREB1 are closely related,and the five homologous proteins of kidney bean AREB1 are also closely related to each other except kidney bean xp _007136688. 1. 【Conclusion】The bioinformatics analysis of structure and function of AREB1 gene in red bean and kidney bean can provide important references and information for the research on the stress resistance mechanism and genetic improvement.
【Objective】Red bean and kidney bean,as important food crops,are widely planted in northeast of China. However,in the process of growth,they often suffer from various abiotic stresses,such as drought,low temperature and saline-alkali,which will seriously affect the growth and development process and the improvement of yield and quality. AREB1 is one of the most important transcription factors in ABA signaling,which regulates the expression of stress-related genes. Therefore,it is of great significance to analyze the function of the AREB1 gene in red bean and kidney bean. 【Method】In this study,Arabidopsis thaliana,NCBI and Phytozome databases were used to obtain the AREB1 genes and protein sequences in red bean and kidney bean. Then the physiobiochemical property and secondary structure was forecasted and the phylogenetic tree was drawn using Ex PASy,SOPMA and MEGA 5. 0 software. 【Result】The results showed that there were three AREB1 homologous proteins in red bean and five AREB1 homologous proteins in kidney bean. All of them were unstable and hydrophilic,and the secondary structure were dominated by alpha helix and coil. Except for XP_007136688. 1 of kidney bean,all the other homologous proteins were basic,and extinction coefficient,molecular weight,aliphatic index and isoelectric point were similar. At the same time,the three homologous proteins of red bean AREB1 are closely related,and the five homologous proteins of kidney bean AREB1 are also closely related to each other except kidney bean xp _007136688. 1. 【Conclusion】The bioinformatics analysis of structure and function of AREB1 gene in red bean and kidney bean can provide important references and information for the research on the stress resistance mechanism and genetic improvement.
引文
[1]张波,薛文通.红小豆功能特性研究进展[J].食品科学,2012(9):264-266.
[2]尹宝重,王艳,张月辰.干旱胁迫对红小豆苗期生理生化特性的影响[J].贵州农业科学,2011(7):65-67+70.
[3]Duan L,Dietrich D,Ng CH,et al.Endodermal ABA signaling promotes lateral root quiescence during salt stress in Arabidopsis seedlings[J].The Plant Cell,2013,25(1):324-341.
[4]Cutler SR,Rodriguez PL,Finkelstein RR,et al.Abscisic acid:emergence of a core signaling network[J].Annual Review of Plant Biology,2010,61:651-679.
[5]Santner A,Estelle M.Recent advances and emerging trends in plant hormone signaling[J].Nature,2009,459(7250):1071-1078.
[6]Zhu JK.Salt and drought stress signal transduction in plants[J].Annual Review of Plant Biology,2002,53:247-273.
[7]Pennisi E.Plant biology:Stressed out over a stress hormone[J].Science(New York,N.Y.),2009,324(5930):1012-1013.
[8]Hirayama T,Shinozaki K.Research on plant abiotic stress responses in the post-genome era:past,present and future[J].The Plant Journal,2010,61(6):1041-1052.
[9]Biasini M,Bienert S,Waterhouse A,et al.SWISS-MODEL:modelling protein tertiary and quaternary structure using evolutionary information.Nucleic Acids Research,2014,42(W1):W252-W258.
[10]唐益苗,赵昌平,高世庆,等.植物抗旱相关基因研究进展[J].麦类作物学报,2009,29:166-173.
[11]Ma Y,Szostkiewicz I,Korte A,et al.Regulators of PP2C phosphatase activity function as abscisic acid sensors[J].Science(New York,N.Y.),2009,324:1064-1068.
[12]Melcher K,Ng LM,Zhou XE,et al.A gate-latch-lock mechanism for hormone signaling by abscisic acid receptors[J].Nature,2009,462(7273):602-608.
[13]胡鹏伟,何朝勇,洪岚,等.AREB/ABF转录因子响应胁迫信号的网络调控[J].植物生理学报,2013,49(6):540-544.
[14]Fujii H,Chinnusamy V,Rodrigues A,et al.In vitro reconstitution of an abscisic acid signaling pathway[J].Nature,2009,462:660-664.
[15]洪岚,刘旭,李玲.植物AREB/ABF转录因子及其参与的ABA信号转导[J].植物生理学报,2011(3):211-217.
[16]Ji LX,Wang J,Ye MX,et al.Identification and characterization of the Populus AREB/ABF subfamily[J].Journal of Integrative Plant Biology,2013(2):177-186.
[17]方淑梅,冯乃杰,梁喜龙.大豆去乙酰化酶Sir2的生物信息学分析[J].贵州农业科学,2015(8):34-37.
[18]曹忠慧.苹果myb转录因子家族的生物信息学分析及MdMYB121和Md SIMYBI在非生物胁迫相应中的作用[D].山东农业大学,2013.
[19]张健.灰杨基因组适应性进化研究[D].兰州大学,2014.
[20]任广花.花生干旱胁迫响应转录因子AREB1基因等位变异和功能研究[D].山东农业大学,2015.
[21]Hong L,Hu B,Liu X,et al.Molecular cloning and expression analysis of a new stress-related AREB gene from Arachis hypogaea[J].Biologia Plantarum,2013,57(1):56-62.
[22]高世庆.大豆、小麦抗逆相关Gm/Ta AREB转录因子基因、启动子克隆及功能鉴定[D].北京:中国农业科学院,2007.
[23]Casaretto J,Ho TH.The transcription factors Hv ABI5 and Hv VP1are required for the abscisic acid induction of gene ex-pression in barley aleurone cells[J].Plant Cell,2003,15:271-284.
[24]Hsieh TH,Li CW,Su RC,et al.A tomato b ZIP transcription factor,Sl AREB,is involved in water deficit and salt stress response[J].Planta,2010,231:1459-1473.
[25]Gao SQ,Chen M,Xu ZS,et al.The soybean Gmb ZIP1 transcription factor enhances multiple abiotic stress tolerances in transgenic plants[J].Plant Molecular Biology Reporter 2011,75:537-553.
[26]Tang N,Zhang H,Li XH,et al.Constitutive activation of transcription factor Osb ZIP46 improves drought tolerance in rice[J].Plant Physiol,2012,158:1755-1768.
[27]林莹莹,李晓云,刘帅,等.过表达转录因子Ah AREB1对拟南芥生长素分布的影响[J].华南师范大学学报(自然科学版),2015,47(1):87-92.
[28]Fujita Y,Fujita M,Satoh R,et al.AREB1 is a transcription activator of novel ABRE-dependent ABA signaling that enhances drought stress tolerance in Arabidopsis[J].The Plant Cell,2005,17:3470-3488.
[29]王含,魏明,李成浩.毛果杨Pt AREB1基因启动子的克隆及功能[J].东北林业大学学报,2016,44(4):18-24.
[30]魏明,王含,李成浩.毛果杨Pt AREB9基因启动子的克隆与功能初步分析[J].植物生理学报,2015,51(11):1927-1932.
[31]杨玲.烟草ABF转录因子基因的克隆及功能分析[D].重庆大学,2014.
[32]Li XY,Liu X,Yao Y,et al.Overexpression of Arachis hypogaea AREB1 gene enhances drought tolerance by modulating ROS scavenging and maintaining endogenous ABA content[J].International Journal of Molecular Sciences,2013,14(6):12827-12842.
[2]尹宝重,王艳,张月辰.干旱胁迫对红小豆苗期生理生化特性的影响[J].贵州农业科学,2011(7):65-67+70.
[3]Duan L,Dietrich D,Ng CH,et al.Endodermal ABA signaling promotes lateral root quiescence during salt stress in Arabidopsis seedlings[J].The Plant Cell,2013,25(1):324-341.
[4]Cutler SR,Rodriguez PL,Finkelstein RR,et al.Abscisic acid:emergence of a core signaling network[J].Annual Review of Plant Biology,2010,61:651-679.
[5]Santner A,Estelle M.Recent advances and emerging trends in plant hormone signaling[J].Nature,2009,459(7250):1071-1078.
[6]Zhu JK.Salt and drought stress signal transduction in plants[J].Annual Review of Plant Biology,2002,53:247-273.
[7]Pennisi E.Plant biology:Stressed out over a stress hormone[J].Science(New York,N.Y.),2009,324(5930):1012-1013.
[8]Hirayama T,Shinozaki K.Research on plant abiotic stress responses in the post-genome era:past,present and future[J].The Plant Journal,2010,61(6):1041-1052.
[9]Biasini M,Bienert S,Waterhouse A,et al.SWISS-MODEL:modelling protein tertiary and quaternary structure using evolutionary information.Nucleic Acids Research,2014,42(W1):W252-W258.
[10]唐益苗,赵昌平,高世庆,等.植物抗旱相关基因研究进展[J].麦类作物学报,2009,29:166-173.
[11]Ma Y,Szostkiewicz I,Korte A,et al.Regulators of PP2C phosphatase activity function as abscisic acid sensors[J].Science(New York,N.Y.),2009,324:1064-1068.
[12]Melcher K,Ng LM,Zhou XE,et al.A gate-latch-lock mechanism for hormone signaling by abscisic acid receptors[J].Nature,2009,462(7273):602-608.
[13]胡鹏伟,何朝勇,洪岚,等.AREB/ABF转录因子响应胁迫信号的网络调控[J].植物生理学报,2013,49(6):540-544.
[14]Fujii H,Chinnusamy V,Rodrigues A,et al.In vitro reconstitution of an abscisic acid signaling pathway[J].Nature,2009,462:660-664.
[15]洪岚,刘旭,李玲.植物AREB/ABF转录因子及其参与的ABA信号转导[J].植物生理学报,2011(3):211-217.
[16]Ji LX,Wang J,Ye MX,et al.Identification and characterization of the Populus AREB/ABF subfamily[J].Journal of Integrative Plant Biology,2013(2):177-186.
[17]方淑梅,冯乃杰,梁喜龙.大豆去乙酰化酶Sir2的生物信息学分析[J].贵州农业科学,2015(8):34-37.
[18]曹忠慧.苹果myb转录因子家族的生物信息学分析及MdMYB121和Md SIMYBI在非生物胁迫相应中的作用[D].山东农业大学,2013.
[19]张健.灰杨基因组适应性进化研究[D].兰州大学,2014.
[20]任广花.花生干旱胁迫响应转录因子AREB1基因等位变异和功能研究[D].山东农业大学,2015.
[21]Hong L,Hu B,Liu X,et al.Molecular cloning and expression analysis of a new stress-related AREB gene from Arachis hypogaea[J].Biologia Plantarum,2013,57(1):56-62.
[22]高世庆.大豆、小麦抗逆相关Gm/Ta AREB转录因子基因、启动子克隆及功能鉴定[D].北京:中国农业科学院,2007.
[23]Casaretto J,Ho TH.The transcription factors Hv ABI5 and Hv VP1are required for the abscisic acid induction of gene ex-pression in barley aleurone cells[J].Plant Cell,2003,15:271-284.
[24]Hsieh TH,Li CW,Su RC,et al.A tomato b ZIP transcription factor,Sl AREB,is involved in water deficit and salt stress response[J].Planta,2010,231:1459-1473.
[25]Gao SQ,Chen M,Xu ZS,et al.The soybean Gmb ZIP1 transcription factor enhances multiple abiotic stress tolerances in transgenic plants[J].Plant Molecular Biology Reporter 2011,75:537-553.
[26]Tang N,Zhang H,Li XH,et al.Constitutive activation of transcription factor Osb ZIP46 improves drought tolerance in rice[J].Plant Physiol,2012,158:1755-1768.
[27]林莹莹,李晓云,刘帅,等.过表达转录因子Ah AREB1对拟南芥生长素分布的影响[J].华南师范大学学报(自然科学版),2015,47(1):87-92.
[28]Fujita Y,Fujita M,Satoh R,et al.AREB1 is a transcription activator of novel ABRE-dependent ABA signaling that enhances drought stress tolerance in Arabidopsis[J].The Plant Cell,2005,17:3470-3488.
[29]王含,魏明,李成浩.毛果杨Pt AREB1基因启动子的克隆及功能[J].东北林业大学学报,2016,44(4):18-24.
[30]魏明,王含,李成浩.毛果杨Pt AREB9基因启动子的克隆与功能初步分析[J].植物生理学报,2015,51(11):1927-1932.
[31]杨玲.烟草ABF转录因子基因的克隆及功能分析[D].重庆大学,2014.
[32]Li XY,Liu X,Yao Y,et al.Overexpression of Arachis hypogaea AREB1 gene enhances drought tolerance by modulating ROS scavenging and maintaining endogenous ABA content[J].International Journal of Molecular Sciences,2013,14(6):12827-12842.