与植物抗逆相关的miR-398-3p基因家族进化分析及靶基因预测
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摘要
通过生物信息学方法对miR-398-3p基因家族进行序列分析和靶基因预测。结果表明,大部分miR-398-3p基因分布在不同的染色体上,miR-398-3p序列在不同物种间具有高度的保守性。进化分析结果表明,miR-398-3p基因家族的成员呈现为7个分支,个别物种miR-398-3p的不同成员具有较远的亲缘关系;miR-398-3p的靶基因具有超氧化物歧化酶[Cu-Zn]、花粉特异性蛋白质SF3、锌指蛋白WIP2、C2H2型锌指家族蛋白等功能,参与植物的生物和非生物胁迫及生长发育调控过程。
In this paper,the miR-398-3p gene family were analyzed by bioinformatics method and the target genes were predicted.The results showed that most miR-398-3p genes were scattered on different chromosomes,and the miR-398-3p sequence was highly conserved among different species.The miR-398-3p gene family showed that the miR-398-3p gene was composed of seven branches,and the different members of miR-398-3p had a distant genetic relationship.The miR-398-3p family regulated superoxide dismutase [Cu-Zn],pollen-specific protein SF3,zinc finger protein WIP2,C2 H2 type zinc finger family protein and other respects,were involved in plant biological and abiotic stress and growth and development control process.
In this paper,the miR-398-3p gene family were analyzed by bioinformatics method and the target genes were predicted.The results showed that most miR-398-3p genes were scattered on different chromosomes,and the miR-398-3p sequence was highly conserved among different species.The miR-398-3p gene family showed that the miR-398-3p gene was composed of seven branches,and the different members of miR-398-3p had a distant genetic relationship.The miR-398-3p family regulated superoxide dismutase [Cu-Zn],pollen-specific protein SF3,zinc finger protein WIP2,C2 H2 type zinc finger family protein and other respects,were involved in plant biological and abiotic stress and growth and development control process.
引文
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[20] WANG X,ZHANG H,GAO Y,et al.Characterization of Cu/Zn-SOD enzyme activities and gene expression in soybean under low nitrogen stress[J].J Sci Food Agric,2016,96(8):2692-2697.
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[23] NAYA L,PAUL S,VALDS-LPEZ O,et al.Regulation of copper homeostasis and biotic interactions by MicroRNA 398b in common bean[J].PLoS One,2014,9(1):e84416.
[24] CHEN Y,JIANG J,SONG A,et al.Ambient temperature enhanced freezing tolerance of Chrysanthemum dichrum CdICE1Arabidopsis via miR398[J].BMC biology,2013,11:121.
[25] JUSZCZAK I,BAIER M.The strength of the miR398-Csd2-CCS1 regulon is subject to naturalvariation in Arabidopsis thaliana[J].FEBS letters,2012,586(19):3385-3390.
[26] LIANG G,AI Q,YU D q.Uncovering miRNAs involved in crosstalk between nutrient deficiencies in Arabidopsis[J].Scientific reports,2015,5:11813.
[27] CHEN T T,ZHANG H,JIANG C,et al.Deep sequencing of maize small RNAs reveals a diverse set of MicroRNA in dry and imbibed seeds[J].PLoS One,2013,8(1):e55107.
[2] EAMENS A L,AGIUS C,SMITH N A,et al. Efficient silencing of endogenous microRNAs using artificial microRNAs in Arabidopsis thaliana[J].Mol Plant,2011,4(1):157-170.
[3]刘萌,周晓阳.miRNA在调节植物抗逆等生理功能中的作用[J].山东林业科技,2011(2):102-105.
[4]马圣运,白玉,韩凝,等.miRNA生物合成及其功能研究的新发现[J].遗传,2012,34(4):383-388.
[5]曾幼玲,杨瑞瑞.植物miRNA的生物学特性及在环境胁迫中的作用[J].中国农业科学,2016,49(19):3671-3682.
[6]丁艳菲,王光钺,傅亚萍,等.miR398在植物逆境胁迫应答中的作用[J].遗传,2010,32(2):129-134.
[7]李躬军.MiR398在人参高盐、高铜胁迫中的调控作用[D].长春:吉林大学,2016.
[8]杜驰,廖茂森,张霞,等.盐胁迫下花花柴miR398对Cu/Zn超氧化物歧化酶基因的调控研究[J].西北植物学报,2014,34(4):682-688.
[9] RAJA R,SRIDHAR M D,SAFIUR R M,et al.Deep sequencing of wheat sRNA transcriptome reveals distinct temporal expression pattern of miRNAs in response to heat,light and UV[J].Scientific reports,2016,6(39373):1-15.
[10] VALDS-LPEZ O,YANG S S,APARICIO-FABRE R,et al.MicroRNA expression profile in common bean(Phaseolus vulgaris)undernutrient deficiency stresses and manganese toxicity[J].New phytologist,2010,187(3):805-818.
[11] VALLABHI G,KETAN P,NGLE S,et al.Analysis of biochemical variations and microRNA expression in wild(Ipomoea campanulata)and cultivated(Jacquemontia pentantha)species exposed to in vivo water stress[J].Physiol Mol Biol Plants,2014,20(1):57-67.
[12] AMANDEEP K,OM PRAKESH G,NAND L M,et al. Comparative temporal expression analysis of MicroRNAs and their target genes in contrasting wheat genotypes during osmotic stress[J].Appl Biochem Biotechnol,2017,181(2):613-626.
[13]梅琳.冬小麦抗寒相关4种miRNAs的克隆及表达特征分析[D].哈尔滨:东北农业大学,2016.
[14]贺晓丽,刘萍,栾雨时.番茄MIR398基因的克隆及其在烟草中的表达分析[J].植物生理学报,2015, 51(12):2163-2168.
[15] LU X,GUAN Q,ZHU J. Downregulation of CSD2 by a heatinducible miR398 is required for thertnotolerance in Arabidopsis[J].Plant signaling&behavior,2013,8(8):e24952.
[16]颜秦峰,李科友,石振楠,等.过表达miR398对烟草抗旱性的影响[J].北方园艺,2013(13):111-116.
[17] GUO R,CHEN X,LIN Y,et al.Identification of novel and conserved miRNAs in leaves of in vitro grown citrus reticulata"Lugan"plantlets by solexa sequencing[J].Front Plant Sci,2015,6:1212.
[18] GUAN Q,LU X,ZENG H,et al.Heat stress induction of miR398triggers a regulatory loop that iscritical for thermo tolerance in Arabidopsis[J].The plant journal,2013,74(5):840-851.
[19] LIANG G,HE H,YU D Q.Identification of nitrogen starvationresponsive MicroRNAs in Arabidopsis thaliana[J].PLoS One,2012,7(11):e48951.
[20] WANG X,ZHANG H,GAO Y,et al.Characterization of Cu/Zn-SOD enzyme activities and gene expression in soybean under low nitrogen stress[J].J Sci Food Agric,2016,96(8):2692-2697.
[21] XU J,DUAN X G,YANG J,et al.Coupled expression of Cu/Zn-superoxide dismutase and catalase in cassava improves tolerance against cold and drought stresses[J].Plant signaling&behavior,2013,8(6):e24525.
[22] JOVANOVI C,STANISAVLJEVI C N,MIKI C A,et al.Water deficit down-regulates miR398 and miR408 in pea(Pisum sativum L.)[J].Physiol Biochem,2014,83:26-31.
[23] NAYA L,PAUL S,VALDS-LPEZ O,et al.Regulation of copper homeostasis and biotic interactions by MicroRNA 398b in common bean[J].PLoS One,2014,9(1):e84416.
[24] CHEN Y,JIANG J,SONG A,et al.Ambient temperature enhanced freezing tolerance of Chrysanthemum dichrum CdICE1Arabidopsis via miR398[J].BMC biology,2013,11:121.
[25] JUSZCZAK I,BAIER M.The strength of the miR398-Csd2-CCS1 regulon is subject to naturalvariation in Arabidopsis thaliana[J].FEBS letters,2012,586(19):3385-3390.
[26] LIANG G,AI Q,YU D q.Uncovering miRNAs involved in crosstalk between nutrient deficiencies in Arabidopsis[J].Scientific reports,2015,5:11813.
[27] CHEN T T,ZHANG H,JIANG C,et al.Deep sequencing of maize small RNAs reveals a diverse set of MicroRNA in dry and imbibed seeds[J].PLoS One,2013,8(1):e55107.
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