植物学报 ›› 2016, Vol. 51 ›› Issue (5): 620-630.doi: 10.11983/CBB16006

• • 上一篇    下一篇

甘蓝型油菜BnMYB80基因的生物信息学分析

贾乐东, 李施蒙, 许代香, 曲存民, 李加纳, 王瑞*()   

  1. 西南大学农学与生物科技学院, 重庆 400716
  • 收稿日期:2016-01-11 接受日期:2016-04-26 出版日期:2016-09-01 发布日期:2018-08-10
  • 通讯作者: 王瑞 E-mail:ruiwang71@163.com
  • 作者简介:# 共同第一作者
  • 基金资助:
    国家重点研发计划“七大农作物育种”专项(No.2016YFD0101300)和国家自然科学基金(No.U1302266)

Bioinformatics Analysis of BnMYB80 Genes in Brassica napus

Jia Ledong, Li Shimeng, Xu Daixiang, Qu Cunmin, Li Jiana, Wang Rui*()   

  1. College of Agronomy and Biotechnology, Southwest University, Chongqing 400716, China
  • Received:2016-01-11 Accepted:2016-04-26 Online:2016-09-01 Published:2018-08-10
  • Contact: Wang Rui E-mail:ruiwang71@163.com
  • About author:# Co-first authors

摘要:

在高等植物花药发育和花粉形成中, MYB转录因子起着非常重要的作用, 其中MYB80是参与绒毡层发育及引起雄性不育的重要转录因子。该研究以拟南芥(Arabidopsis thaliana) AtMYB80为参考序列, 通过BLAST比对分析, 在白菜(Brassica rapa)、甘蓝(B. oleracea)和甘蓝型油菜(B. napus)中分别获得MYB80基因的2、2和6个同源序列, 运用生物信息学方法对其核苷酸序列及编码的氨基酸序列进行组成成分、亚细胞定位、磷酸化位点、疏水性/亲水性、蛋白质二级、三级结构和功能域分析。结果表明, MYB80转录因子亚细胞定位于细胞核, 具有多个不同的磷酸化位点, 肽链表现为亲水性; 二级、三级结构预测显示, MYB80蛋白以α-螺旋和无规则卷曲为主要结构元件; 保守结构域分析表明, 其N端具有2个串联的SANT功能域, 属于R2R3型MYB转录因子。多重序列比对和进化树分析结果表明, 甘蓝型油菜与白菜、甘蓝的序列相似性大于92%, 且MYB80转录因子的功能结构域具有较高的同源性和较强的序列保守性。该研究结果对深入解析甘蓝型油菜MYB80的生物学功能及育性调控的分子机理具有重要意义, 为甘蓝型油菜杂种优势利用提供了依据。

Abstract:

MYB transcription factors play a key role in anther development and pollen formation in higher plants, and MYB80 is an important transcription factor involved in the development of tapetum and initiation of male sterility. In this study, we performed BLASTN and TBLASTX searches of the Arabidopsis thaliana MYB80 (AtMYB80) amino acid sequences against the published database and identified 2, 2 and 6 homologous sequences of MYB80 gene in Brassica rapa, B. oleracea and B. napus, respectively. The composition of nucleic acid sequence and amino acid sequences, subcellular localization, phosphorylation sites, hydrophilicity and hydrophobicity, secondary and tertiary structure of protein, conserved domains of the MYB80 were predicted and analyzed by bioinformatics tools and resources from the Internet. The results showed that the MYB80 transcription factors are located in the nucleus by analyzing subcellular localization, with a number of different phosphorylation sites, and the peptide chains are hydrophilia. The predicted secondary structure and tertiary structure showed that the main structural elements of the MYB80 protein were α helix and random coil. Conserved domain analysis indicated that the MYB80 transcription factor belongs to the MYB-R2R3 type transcription factor, with 2 tandem SANT domains in the N-terminal sequence. The multiple sequence ratio and phylogenetic tree were constructed with MYB80 proteins from different plants; similarity among B. napus and B. rapa, and B. oleracea was more than 92%, and the conserved functional domains had high homology and strong sequence conservation. These results are helpful for resolving the biological functions of MYB80 and the molecular mechanism of sterility regulation and lay a foundation for the heterosis utilization in B. napus.

表1

MYB80转录因子的理化性质"

Gene name Gene ID Chromosome Length (aa) MW (kDa) pI Instability Aliphatic index Gravy
BrMYB80A02 103851848 A02 320 36.1054 6.95 35.89 65.88 -0.808
BrMYB80A10 103845046 A10 320 35.8452 7.24 33.15 69.81 -0.721
BolMYB80C02 106327859 C02 324 36.5430 7.75 37.04 66.57 -0.790
BolMYB80C09 106317148 C09 320 35.9113 7.22 31.94 68.56 -0.740
BnMYB80A02 106389601 A02 322 36.3678 6.95 35.55 65.47 -0.792
BnMYB80A10 674915774 A10 320 35.8232 7.24 34.62 68.59 -0.712
BnMYB80C02 106379735 C02 320 35.9113 7.22 31.94 68.56 -0.740
BnMYB80C03 106385056 C03 320 35.9113 7.22 31.94 68.56 -0.740
BnMYB80C05 106400365 C05 319 35.7842 6.90 33.76 68.50 -0.738
BnMYB80Cnn 106389601 Cnn 324 36.5490 6.93 35.65 66.57 -0.771

表2

MYB80转录因子的保守结构域分析"

Gene name CDS (bp) Exon MYB80 conserved domain (aa)
SANT SANT IRO KNOX1 Cir_N
BrMYB80A02 1772 3 13-63 66-114 - - -
BrMYB80A10 1631 3 13-63 66-114 - - -
BolMYB80C02 1891 4 13-63 66-114 123-140 130-173 246-282
BolMYB80C09 1573 3 13-63 66-114 123-140 130-173 -
BnMYB80A02 1653 3 13-63 66-114 123-140 130-173 244-280
BnMYB80A10 1471 3 13-63 66-114 123-140 130-173 -
BnMYB80C02 1471 3 13-63 66-114 123-140 130-173 -
BnMYB80C03 1471 3 13-63 66-144 123-140 130-173 -
BnMYB80C05 1461 3 13-63 66-144 123-140 130-173 -
BnMYB80Cnn 1668 3 13-63 66-144 123-140 130-173 246-282

图1

MYB80转录因子的磷酸化位点"

表3

MYB80蛋白的二级结构预测"

Gene name α helix (%) Extend strand (%) β turn (%) Random coil (%)
BrMYB80A02 41.25 11.56 10.00 37.19
BrMYB80A10 37.81 14.06 10.00 38.12
BolMYB80C02 44.14 10.19 8.64 37.04
BolMYB80C09 35.94 15.31 10.94 37.81
BnMYB80A02 42.55 11.18 9.63 36.65
BnMYB80A10 37.19 15.00 10.31 37.50
BnMYB80C02 35.94 15.31 10.94 37.81
BnMYB80C03 35.94 15.31 10.94 37.81
BnMYB80C05 36.68 14.73 10.03 38.56
BnMYB80Cnn 44.14 10.49 9.57 35.80

图2

BnMYB80蛋白的三级结构预测"

图3

MYB80蛋白的多序列比对"

图4

十字花科MYB80蛋白的系统进化树"

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