小桐子Dof基因家族生物信息学与表达分析
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摘要
Dof转录因子在植物的生长发育和非生物胁迫响应中起重要的调控作用。在本研究中,总共24个小桐子Dof基因被鉴定。保守域分析结果表明,小桐子Dof蛋白的结构域均含有CX2CX21CX2C基序。染色体定位分析结果表明,23个Dof基因不均匀地分布在9个连锁群(LGs)上。系统发育树表明,24个小桐子Dof蛋白被分成9个组。在这24个Dof基因中,大多数在被检测的组织中显示出差异表达; 14个Dof基因的表达在至少1个胁迫(干旱或盐胁迫)条件下显示出增加或者降低。在这14个差异表达Dof基因中,8个Dof基因(Jc Dof4、Jc Dof8、Jcdof9、Jcdof10、Jcdof11、Jcdof21 Jcdof22、Jcdof24)在至少1个处理时间点表现出对干旱和盐胁迫响应,2个基因(Jc Dof2、Jc Dof23)仅对盐胁迫响应,4个基因(Jc Dof3、Jc Dof5、Jc Dof17、Jc Dof20)仅对干旱胁迫响应。该结果将为进一步研究Dof基因在调控小桐子生长发育和非生物胁迫响应中的作用提供一些有价值的信息。
The Dof transcription factors play an important regulatory role in plant growth and development and abiotic stress response. In this study,a total of 24 Dof genes were identified in the physic nut. The results of conserved domain analysis showed that physic nut Dof proteins contained CX2 CX21 CX2 C motif. Chromosomal location analysis results suggested that 23 Dof genes were unevenly distributed on nine linkage groups( LGs) of physic nut. Phylogenetic analysis results suggested that the 24 physic nut Dof proteins were clustered into nine groups. Most of these 24 Dof genes showed differential expression in these tested tissues. The expression of 14 Dof genes increased or decreased under at least one stress( drought or salt stress). Out of these 14 differentially expressed genes,eight Dof genes( JcD of4,JcD of8, Jcdof9, Jcdof10, Jcdof11, Jcdof21 Jcdof22,Jcdof24) showed the differential response to both drought and salt stress at least one time point,two Dof genes( JcD of2,JcD of23) only responded to salt stress,and four Dof genes( JcD of3,JcD of5,JcD of17,JcD of20) only responded to drought stress. The results will provide some valuable information for further studies on the roles of Dof genes in regulating physic nut's growth,development and responses to abiotic stress.
The Dof transcription factors play an important regulatory role in plant growth and development and abiotic stress response. In this study,a total of 24 Dof genes were identified in the physic nut. The results of conserved domain analysis showed that physic nut Dof proteins contained CX2 CX21 CX2 C motif. Chromosomal location analysis results suggested that 23 Dof genes were unevenly distributed on nine linkage groups( LGs) of physic nut. Phylogenetic analysis results suggested that the 24 physic nut Dof proteins were clustered into nine groups. Most of these 24 Dof genes showed differential expression in these tested tissues. The expression of 14 Dof genes increased or decreased under at least one stress( drought or salt stress). Out of these 14 differentially expressed genes,eight Dof genes( JcD of4,JcD of8, Jcdof9, Jcdof10, Jcdof11, Jcdof21 Jcdof22,Jcdof24) showed the differential response to both drought and salt stress at least one time point,two Dof genes( JcD of2,JcD of23) only responded to salt stress,and four Dof genes( JcD of3,JcD of5,JcD of17,JcD of20) only responded to drought stress. The results will provide some valuable information for further studies on the roles of Dof genes in regulating physic nut's growth,development and responses to abiotic stress.
引文
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[19] TANG Y H,QIN S S,GUO Y L,et al. Genome-wide analysis ofthe AP2/ERF gene family in physic nut and overexpression of theJc ERF011 gene in rice increased its sensitivity to salinity stress[J]. PLoS ONE,2016,11(3):e0150879.
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[22] JIANG H W,WU P Z,ZHANG S,et al. Global analysis of geneexpression profiles in developing physic nut(Jatropha curcas L.)seeds[J]. PLoS ONE,2012,7(5):e36522.
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[25] WU P Z,ZHOU C P,CHENG S,et al. Integrated genome se-quence and linkage map of physic nut(Jatropha curcas L.),abiodiesel plant[J]. Plant Journal,2015,81(5):810-821.
[26] CANNON S B,MITRA A,BAUMGARTEN A,et al. The roles ofsegmental and tandem gene duplication in the evolution of largegene families in Arabidopsis thaliana[J]. BMC Plant Biology,2004,4(1):1-10.
[27] XIONG W D,X X Q,LIN Z,et al. Genome-wide analysis of theWRKY gene family in physic nut(Jatropha curcas L.)[J].Gene,2013,524(2):124-132.
[28] TANG M,LIU X,DENG H,et al. Over-expression of Jc DREB,aputative AP2/EREBP domain-containing transcription factor genein woody biodiesel plant Jatropha curcas,enhances salt and freez-ing tolerance in transgenic Arabidopsis thaliana[J]. Plant Sci-ence,2011,181(6):623-631.
[29] CHENG H L,JIN H P,WANG H Y,et al. Role of ArabidopsisRAP2. 4 in regulating light-and ethylene-mediated developmentalprocesses and drought stress tolerance[J]. Molecular Plant,2008,1(1):42-57.
[30] HE L,SU C,WANG Y C,et al. ATDOF5.8 protein is the up-stream regulator of ANAC069 and is responsive to abiotic stress[J]. Biochimie,2015,110:17-24.
[31] LIU L,WHITE M J,MACRAE T H,et al. Transcription factorsand their genes in higher plants[J]. European Journal of Bio-chemistry,1999,262(2):247-257.
[32] PI L,AICHINGER E,VAN d G E,et al. Organizer-derivedWOX5 signal maintains root columella stem cells through chroma-tin-mediated repression of CDF4 expression[J]. DevelopmentalCell,2015,33(5):576-588.
[33] NEGI J,MORIWAKI K,KONISHI M,et al. A Dof transcriptionfactor,SCAP1,is essential for the development of functional sto-mata in Arabidopsis[J]. Current Biology,2013,23(6):479-484.
[2]张凤军,叶景秀,师理,等.干旱胁迫下不同抗旱水平马铃薯叶片蛋白质组学分析[J].江苏农业科学,2018,46(9):23-28.
[3]曲杰,程亮,王素兰,等. 3个时期干旱对夏花生株型、农艺性状及荚果产量的影响[J].山东农业科学,2018,50(3):41-44.
[4]高树涛,石生伟.盐胁迫对5种抗旱型小麦苗期生理特性的影响[J].南方农业学报,2017,48(8):1374-1380.
[5]赵会君,马名立,代飞燕,等.盐胁迫对宁夏水稻不同品种萌发指标和同工酶的影响[J].江苏农业科学,2018,46(20):44-47.
[6]张丽丽,徐碧玉,刘菊华,等. Ma ASR1基因通过乙烯途径提高拟南芥抗旱性的作用机制[J].江苏农业学报,2018,34(3):511-519.
[7] NOGUERO M,ATIF R M,OCHATT S,et al. The role of theDNA-binding one zinc finger(DOF)transcription factor family inplants[J]. Plant Science,2013,209(2):32-45.
[8] WU Z M,CHENG J W,CUI J J,et al. Genome-wide identifica-tion and expression profile of Dof transcription factor gene family inpepper(capsicum annuum L.)[J]. Frontiers in Plant Science,2016,7:164.
[9] EWAS M,KHAMES E,ZIAF K,et al. The tomato DOF dailyfluctuations 1,TDDF1 acts as flowering accelerator and protectoragainst various stresses[J]. Scientific Reports,2017,7:1-7.
[10] KURAI T,WAKAYAMA M,ABIKO T,et al. Introduction of theZmDof1 gene into rice enhances carbon and nitrogen assimilationunder low-nitrogen conditions[J]. Plant Biotechnology Journal,2011,9(8):826-837.
[11] ZOU H F,ZHANG Y Q,WEI W,et al. The transcription factorAt DOF4.2 regulates shoot branching and seed coat formation in Ar-abidopsis[J]. Biochemical Journal,2013,449(2):373-388.
[12] LIJAVETZKY D,CARBONERO P,VICENTE C J,et al. Ge-nome-wide comparative phylogenetic analysis of the rice and Arabi-dopsis Dof gene families[J]. BMC Evolutionary Biology,2003,3(1):1-17.
[13] GUPTA S,MALVIYA N,KUSHWAHA H,et al. Insights intostructural and functional diversity of Dof(DNA binding with onefinger)transcription factor[J]. Planta,2015,241(3):549-562.
[14] CORRALES A R,NEBAUER S G,CARRILLO L,et al. Charac-terization of tomato cycling Dof factors reveals conserved and newfunctions in the control ofowering time and abiotic stress respon-ses[J]. Journal of Experimental Botany,2014,65(4):995-1012.
[15] CORRALES A R,CARRILLO L,LASIERRA P,et al. Multifac-eted role of cycling DOF factor 3(CDF3)in the regulation of flow-ering time and abiotic stress responses in Arabidopsis[J]. PlantCell and Environment,2017,40(5):748-764.
[16] XU P P,CHEN H Y,YING L,et al. At DOF5.4/OBP4,a DOFtranscription factor gene that negatively regulates cell cycle progres-sion and cell expansion in Arabidopsis thaliana[J]. Scientific Re-ports,2016,6:27705.
[17] MA J,LI M Y,WANG F,et al. Genome-wide analysis of Doffamily transcription factors and their responses to abiotic stresses inChinese cabbage[J]. BMC Genomics,2015,16(1):1-14.
[18] CAI X,ZHANG Y,ZHANG C,et al. Genome-wide analysis ofplant-specific Dof transcription factor family in tomato[J]. Journalof Integrative Plant Biology,2013,55(6):552-566.
[19] TANG Y H,QIN S S,GUO Y L,et al. Genome-wide analysis ofthe AP2/ERF gene family in physic nut and overexpression of theJc ERF011 gene in rice increased its sensitivity to salinity stress[J]. PLoS ONE,2016,11(3):e0150879.
[20] ZHANG C,ZHANG L,ZHANG S,et al. Global analysis of geneexpression profiles in physic nut(Jatropha curcas L.)seedlingsexposed to drought stress[J]. BMC Plant Biology,2015,15(1):1-17.
[21] ZHANG L,ZHANG C,WU P Z,et al. Global analysis of geneexpression profiles in physic nut(Jatropha curcas L.)seedlingsexposed to salt stress[J]. PLoS ONE,2014,9(5):e97878.
[22] JIANG H W,WU P Z,ZHANG S,et al. Global analysis of geneexpression profiles in developing physic nut(Jatropha curcas L.)seeds[J]. PLoS ONE,2012,7(5):e36522.
[23] LARKIN M A,BLACKSHIELDS G,BROWN N P,et al. ClustalW and Clustal X version 2.0[J]. Bioinformatics,2007,23(21):2947-2948.
[24] TAMURA K,PETERSO D,PETERSON N,et al. MEGA5:mo-lecular evolutionary genetics analysis using maximum likelihood,evolutionary distance,and maximum parsimony methods[J]. Mo-lecular Biology and Evolution,2011,28(10):2731-2739.
[25] WU P Z,ZHOU C P,CHENG S,et al. Integrated genome se-quence and linkage map of physic nut(Jatropha curcas L.),abiodiesel plant[J]. Plant Journal,2015,81(5):810-821.
[26] CANNON S B,MITRA A,BAUMGARTEN A,et al. The roles ofsegmental and tandem gene duplication in the evolution of largegene families in Arabidopsis thaliana[J]. BMC Plant Biology,2004,4(1):1-10.
[27] XIONG W D,X X Q,LIN Z,et al. Genome-wide analysis of theWRKY gene family in physic nut(Jatropha curcas L.)[J].Gene,2013,524(2):124-132.
[28] TANG M,LIU X,DENG H,et al. Over-expression of Jc DREB,aputative AP2/EREBP domain-containing transcription factor genein woody biodiesel plant Jatropha curcas,enhances salt and freez-ing tolerance in transgenic Arabidopsis thaliana[J]. Plant Sci-ence,2011,181(6):623-631.
[29] CHENG H L,JIN H P,WANG H Y,et al. Role of ArabidopsisRAP2. 4 in regulating light-and ethylene-mediated developmentalprocesses and drought stress tolerance[J]. Molecular Plant,2008,1(1):42-57.
[30] HE L,SU C,WANG Y C,et al. ATDOF5.8 protein is the up-stream regulator of ANAC069 and is responsive to abiotic stress[J]. Biochimie,2015,110:17-24.
[31] LIU L,WHITE M J,MACRAE T H,et al. Transcription factorsand their genes in higher plants[J]. European Journal of Bio-chemistry,1999,262(2):247-257.
[32] PI L,AICHINGER E,VAN d G E,et al. Organizer-derivedWOX5 signal maintains root columella stem cells through chroma-tin-mediated repression of CDF4 expression[J]. DevelopmentalCell,2015,33(5):576-588.
[33] NEGI J,MORIWAKI K,KONISHI M,et al. A Dof transcriptionfactor,SCAP1,is essential for the development of functional sto-mata in Arabidopsis[J]. Current Biology,2013,23(6):479-484.