小麦CBL4基因密码子使用特征分析
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摘要
采用Codon W和Usage Codon软件分析小麦CBL4基因密码子偏好性,并将其与其他17种不同目植物CBL4基因密码子偏好性进行比较,利用最小进化法分析多种植物的亲缘关系,以期为小麦CBL4基因改良以提高对干旱、低温和盐胁迫等逆境的抗性提供理论依据。结果表明,GC含量对小麦CBL4基因密码子偏好性具有重要的影响,小麦的G+C所占比例达58.0%,其中以第3位GC含量为主,而马铃薯对密码子的使用特征与小麦差异最大,形成鲜明的对比。小麦偏好使用CUC、AGG、UAA、AUC、GUG、GCG、ACG、UGC和GGC密码子,小麦等植物密码子偏好性结果与系统发育分析得出的亲缘关系结果一致。
Codon W and Usage Codon softwares were used to analyze the codon bias of wheat,the codon bias of other 17 plant species were compared with that of wheat,and the genetic relationships of 18 plant species were analyzed by the minimum evolution method,so as to provide theoretical basis for improvement of resistance to drought,cold,salt through improvement of CBL4 gene of wheat. The results showed that GC content had important influence on the codon bias of CBL4 gene in wheat,GC content was58. 0% in wheat,GC content of the third codon position was main. The difference between the use of the codon in Solanum tuberosum and Triticum aestivum was the greatest. The wheat had bias for CUC,AGG,UAA,AUC,GUG,GCG,ACG,UGC and GGC. The result of phylogenetic relationship of multiple plants was consistent with the result of codon bias.
Codon W and Usage Codon softwares were used to analyze the codon bias of wheat,the codon bias of other 17 plant species were compared with that of wheat,and the genetic relationships of 18 plant species were analyzed by the minimum evolution method,so as to provide theoretical basis for improvement of resistance to drought,cold,salt through improvement of CBL4 gene of wheat. The results showed that GC content had important influence on the codon bias of CBL4 gene in wheat,GC content was58. 0% in wheat,GC content of the third codon position was main. The difference between the use of the codon in Solanum tuberosum and Triticum aestivum was the greatest. The wheat had bias for CUC,AGG,UAA,AUC,GUG,GCG,ACG,UGC and GGC. The result of phylogenetic relationship of multiple plants was consistent with the result of codon bias.
引文
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[19]赵晋锋,余爱丽,田岗,等.谷子CBL基因鉴定及其在干旱、高盐胁迫下的表达分析[J].作物学报,2013,39(2):360-367.
[20]曹齐卫,刘明毓,陈伟,等.黄瓜CBL基因的鉴定和特征分析[J].核农学报,2016,30(11):2127-2132.
[21]董连红,史素娟,Nuruzzaman Manik S M,等.植物CBL基因家族的研究进展[J].核农学报,2015,29(5):892-898.
[22]刘明毓,纪复勤,马强,等.甜瓜CBL基因的鉴定和特征分析[J].山东农业科学,2015,47(10):17-21.
[23]余义和,李秀珍,郭大龙,等.葡萄类钙调磷酸酶B亚基蛋白基因Vv CBL4的克隆与表达分析[J].果树学报,2016,33(4):385-392.
[24]董凤丽,刘杰,黄河,等.甘菊CBL基因的克隆与表达分析[J].草业科学,2014,31(7):1283-1289.
[25]Sun J,Chen M,Xu J,et al.Relationships among stop codon usage bias,its context,isochores,and gene expression level in various eukaryotes[J].J Mol Evol,2005,61(4):437-444.
[26]Belver A,Olías R,Huertas R,et al.Involvement of SlSOS2 in tomato salt tolerance[J].Bioengineered,2012,3(5):298-302.
[27]Wang M,Gu D,Liu T,et al.Overexpression of a putative maize calcineurin B-like protein in Arabidopsis confers salt tolerance[J].Plant Mol Biol,2007,65(6):733-746.
[2]蔡晓锋,胡体旭,叶杰,等.植物盐胁迫抗性的分子机制研究进展[J].华中农业大学学报,2015,34(3):134-141.
[3]刘淑梅,王施慧,刘明毓,等.番茄CBL家族基因的鉴定和遗传进化分析[J].分子植物育种,2015,13(10):2268-2273.
[4]Kim K N.Stress responses mediated by the CBL calcium sensors in plants[J].Plant Biotechnology Reports,2013,7(1):1-8.
[5]Sánchez-Barrena M J,Martínez-Ripoll M,Albert A.Structural biology of a major signaling network that regulates plant abiotic stress:The CBL-CIPK mediated pathway[J].Int J Mol Sci,2013,14(3):5734-5749.
[6]李刚波,李慧,丛郁,等.非生物胁迫下杜梨Pb CBL4基因的表达[J].江苏农业学报,2014,30(5):1132-1138.
[7]Martínez-Atienza J,Jiang X,Garciadeblas B,et al.Conservation of the salt overly sensitive pathway in rice[J].Plant Physiol,2007,143(2):1001-1012.
[8]李丽莎,李祥龙,周荣艳,等.山羊酪氨酸相关蛋白1(TYRP1)基因密码子偏好性分析[J].贵州农业科学,2016,44(3):113-119.
[9]Ghosh T C,Gupta S K,Majumdar S.Studies on codon usage in Entamoeba histolytica[J].International Journal for Parasitology,2000,30(6):715-722.
[10]Karlin S,Mrázek J.What drives codon choices in human genes?[J].Journal of Molecular Biology,1996,262(4):459-472.
[11]赵翔,李至,陆身枫,等.酵母Yarrowia lipolytica的密码子用法分析[J].复旦大学学报(自然科学版),1999,38(5):510-516.
[12]程丽,李宜奎,李晓丹,等.植物CPR基因密码子偏好性及聚类分析[J].分子植物育种,2017,15(5):1672-1682.
[13]张太奎,起国海,叶红莲,等.石榴转录密码子使用偏向性[J].园艺学报,2017,44(4):675-690.
[14]De La Torre F,Gutiérrez-Beltrán E,Pareja-Jaime Y,et al.The tomato calcium sensor Cbl10 and its interacting protein kinase Cipk6 define a signaling pathway in plant immunity[J].The Plant Cell,2013,25(7):2748-2764.
[15]贾霖,刘雨萌,范伟,等.水稻类钙调磷酸酶亚基B蛋白质在逆境胁迫下的表达[J].中国农业科学,2013,46(1):1-8.
[16]李利斌,王殿峰,刘立锋,等.大白菜CBL家族基因的鉴定和遗传进化分析[J].山东农业科学,2009,41(5):4-7.
[17]李利斌,刘开昌,王殿峰,等.玉米CBL家族基因的生物信息学分析[J].玉米科学,2010,18(1):6-11.
[18]许园园,蔺经,李晓刚,等.梨CBL基因家族全基因组序列的鉴定及非生物胁迫下的表达分析[J].中国农业科学,2015,48(4):735-747.
[19]赵晋锋,余爱丽,田岗,等.谷子CBL基因鉴定及其在干旱、高盐胁迫下的表达分析[J].作物学报,2013,39(2):360-367.
[20]曹齐卫,刘明毓,陈伟,等.黄瓜CBL基因的鉴定和特征分析[J].核农学报,2016,30(11):2127-2132.
[21]董连红,史素娟,Nuruzzaman Manik S M,等.植物CBL基因家族的研究进展[J].核农学报,2015,29(5):892-898.
[22]刘明毓,纪复勤,马强,等.甜瓜CBL基因的鉴定和特征分析[J].山东农业科学,2015,47(10):17-21.
[23]余义和,李秀珍,郭大龙,等.葡萄类钙调磷酸酶B亚基蛋白基因Vv CBL4的克隆与表达分析[J].果树学报,2016,33(4):385-392.
[24]董凤丽,刘杰,黄河,等.甘菊CBL基因的克隆与表达分析[J].草业科学,2014,31(7):1283-1289.
[25]Sun J,Chen M,Xu J,et al.Relationships among stop codon usage bias,its context,isochores,and gene expression level in various eukaryotes[J].J Mol Evol,2005,61(4):437-444.
[26]Belver A,Olías R,Huertas R,et al.Involvement of SlSOS2 in tomato salt tolerance[J].Bioengineered,2012,3(5):298-302.
[27]Wang M,Gu D,Liu T,et al.Overexpression of a putative maize calcineurin B-like protein in Arabidopsis confers salt tolerance[J].Plant Mol Biol,2007,65(6):733-746.