[1]任国慧,上官凌飞,房经贵,等.葡萄DELLA家族成员VvRGA和VvRGL1的预测、验证及生物信息学分析[J].南京农业大学学报,2013,36(3):15-21.[doi:10.7685/j.issn.1000-2030.2013.03.003]
 REN Guohui,SHANGGUAN Lingfei,FANG Jinggui,et al.The prediction,validation and bioinformatics analysis of the grape DELLA family members about VvRGA and VvRGL1[J].Journal of Nanjing Agricultural University,2013,36(3):15-21.[doi:10.7685/j.issn.1000-2030.2013.03.003]
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葡萄DELLA家族成员VvRGA和VvRGL1的预测、验证及生物信息学分析()
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《南京农业大学学报》[ISSN:1000-2030/CN:32-1148/S]

卷:
36卷
期数:
2013年3期
页码:
15-21
栏目:
出版日期:
2013-05-30

文章信息/Info

Title:
The prediction,validation and bioinformatics analysis of the grape DELLA family members about VvRGA and VvRGL1
作者:
任国慧 上官凌飞 房经贵 慕茜 冷翔鹏 孙欣
南京农业大学园艺学院, 江苏 南京 210095
Author(s):
REN Guohui SHANGGUAN Lingfei FANG Jinggui MU Qian LENG Xiangpeng SUN Xin
College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China
关键词:
葡萄VvRGAVvRGL1基因预测验证分析
Keywords:
grapeVvRGAVvRGL1gene predictionverificationanalysis
分类号:
S663.1
DOI:
10.7685/j.issn.1000-2030.2013.03.003
摘要:
利用生物信息学工具,将拟南芥DELLA相关基因序列作为靶序列,在葡萄基因组序列预测出2条DELLA相关基因(序列号为GSVIVT00030538001和GSVIVT00032990001),并进行克隆测序验证和生物信息学分析。经比对发现,它们分别与拟南芥RGA和RGL1相似度较高,为63.59%和51.28%,故分别将其命名为VvRGAVvRGL1,并进一步对其氨基酸组成成分、理化性质及二级和三级结构进行初步分析。结果表明:VvRGAVvRGL1均具有保守的GRAS结构域和DELLA结构域;它们与拟南芥相关基因在氨基酸数目和氨基酸序列间的疏水性很相似,但存在一定的差异;两者的二级结构都主要以α-螺旋和随机卷曲为主,α-螺旋所占比例分别为47.98%和50.52%,随机卷曲所占比例分别为38.77%和35.28%;三级结构十分相似,仅α-螺旋和β-折叠数目不同。
Abstract:
In this study,bioinformatics tools were used to make the Arabidopsis DELLA gene sequence as the target sequence to predict 2 DELLA genes(the sequence number are GSVIVP00030538001 and GSVIVP00032990001)in the grape genome sequence,and they were then cloned and sequenced for validation and the bioinformatics analysis was done.After comparing the sequenced result with the related genes of Arabidopsis,they were found they have a higher similarity with Arabidopsis RGA and RGL1:percentage of 63.59% and 51.28%,and then they were named VvRGA and VvRGL1,respectively.And the bioinformatics analysis was done to know about their amino acid composition,physicochemical properties and the secondary and tertiary structure of protein.The results showed that they both have the conserved GRAS domain and the DELLA domain;they have the different number of amino acids,amino acid sequence of hydrophobic with Arabidopsis;their secondary structure is mainly α-helix and random coil,the percentages of α-helix are 47.98% and 50.52%,the percentages of random coil are 38.77% and 35.28%;their tertiary structures are very similar,and only the number of α-helix and β-sheet is different.This may make their function differently.

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备注/Memo

备注/Memo:
收稿日期:2012-7-14;改回日期:。
基金项目:江苏省现代园艺科学优势学科建设工程专项
作者简介:任国慧,硕士研究生。
通讯作者:房经贵,教授,博导,主要从事果树基因组学与分子生物学研究,E-mail:fanggg@njau.edu.cn。
更新日期/Last Update: 1900-01-01