森林草莓MYB 家族鉴定及生物信息学分析
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江苏省农业科学院果树研究所/江苏省高效园艺作物遗传改良重点实验室,南京210014

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江苏省农业重大新品种创制项目(PZCZ201721);农业部作物种质资源保护项目(NB2018-2130135-07)


Genome-wide Identification and Bioinformatics Analysis of MYB Gene Families in Fragaria vesca
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Institute of Pomology, Jiangsu Academy of Agricultural Sciences/Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing 210014

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    摘要:

    为研究草莓MYB 基因家族,文章采用生物信息学方法检索森林草莓(Fragaria vesca)基因组中MYB 基因,并 对其基因结构、蛋白保守结构域、染色体定位、基因进化及花药发育过程中表达水平进行分析。结果表明草莓基因组中 可能含有105 个R2R3-MYB、4 个MYB3R、1 个MYB4R 基因,它们不均匀分布在7 条草莓染色体上,其中5 号染色体上 数量最多为26 个,部分基因在染色体上形成基因簇。理化分析发现这些MYB 蛋白长度和大小差异较大,但均具有保守 的R2 和R3 型结构域,R 重复单元均含有特征性的氨基酸,包括最保守的有序间隔出现的色氨酸(W)残基。通过系统 进化关系和基因结构信息,草莓MYB 基因家族被分成了34 个亚组(A1-A34),同时利用拟南芥基因功能预测草莓中 对应的直系同源基因的功能,结果表明草莓MYB 基因家族参与调控黄酮物质合成、细胞发育、生物/非生物胁迫。花药 发育过程中表达水平分析发现FvMYB2、FvMYB85、FvMYB74、FvMYB28 在花药发育的5 个时期中表达量逐渐升高,尤 其是发育后期表达量较高,表明这些基因可能调控花药发育过程。本研究结果为草莓MYB 基因家族的功能研究提供参 考。

    Abstract:

    To get insight of MYB genes in strawberry, we used bioinformatics methods to screen the MYB genes from the Fragaria vesca genome database, and further analyzed gene structure, conserved motif, chromosomal location, phylogenetic analysis and expression in the period of the development of anther. Our results showed that three types of MYB transcription factors, including 105 R2R3-MYB, 4 MYB3R, 1 MYB4R, were identified. These genes unevenly distributed on 7 chromosomes, e.g., that chromosome Fvb5 contained the largest number of 26 MYB genes. Some of MYBs formed distinct tandem duplicate gene clusters. Although the protein length of strawberry MYB genes differed, all of MYBs contained conserved R2R3 domain, with characteristic amino acids, especially orderly spaced conservative tryptophan residues (W). Phylogenetic and gene structure analysis showed that strawberry MYB genes were divided into 34 distinct groups (A1-A34). The function prediction of strawberry orthologous genes using Arabidopsis thaliana gene annotation showed strawberry MYB genes were most likely involved in flavone synthesis, cell fate, and biotic and abiotic stresses. Temporal or spatial expression trends of MYB genes during strawberry anther development indicated that FvMYB2, FvMYB85, FvMYB74, and FvMYB28 had increased expression during 5 period of the development of strawberry anther, which were mainly expressed in the later period of anther development. These results suggested that those MYB genes may play important role during strawberry anther development. Thus, this paper provided information for functional identification of strawberry MYB genes.

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袁华招,于红梅,夏瑾,等.森林草莓MYB 家族鉴定及生物信息学分析[J].植物遗传资源学报,2019,20(3):695-708.

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  • 收稿日期:2018-09-27
  • 最后修改日期:2018-10-23
  • 录用日期:2018-11-06
  • 在线发布日期: 2019-05-13
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