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基于转录组的三月李及其红肉突变体Expansin基因家族鉴定及分析

方智振 林炎娟 姜翠翠 周丹蓉 潘少霖 叶新福

方智振,林炎娟,姜翠翠,等. 基于转录组的三月李及其红肉突变体 Expansin基因家族鉴定及分析 [J]. 福建农业学报,2020,35(9):919−928 doi: 10.19303/j.issn.1008-0384.2020.09.001
引用本文: 方智振,林炎娟,姜翠翠,等. 基于转录组的三月李及其红肉突变体 Expansin 基因家族鉴定及分析 [J]. 福建农业学报,2020,35(9):919−928 doi: 10.19303/j.issn.1008-0384.2020.09.001
FANG Z Z, LIN Y J, JIANG C C, et al. Identification and Analysis of Expansins in the Transcriptome of Sanyueli Plum and Its Red-flesh Mutant [J]. Fujian Journal of Agricultural Sciences,2020,35(9):919−928 doi: 10.19303/j.issn.1008-0384.2020.09.001
Citation: FANG Z Z, LIN Y J, JIANG C C, et al. Identification and Analysis of Expansins in the Transcriptome of Sanyueli Plum and Its Red-flesh Mutant [J]. Fujian Journal of Agricultural Sciences,2020,35(9):919−928 doi: 10.19303/j.issn.1008-0384.2020.09.001

基于转录组的三月李及其红肉突变体Expansin基因家族鉴定及分析

doi: 10.19303/j.issn.1008-0384.2020.09.001
基金项目: 福建省科技计划公益类专项(2018R1013-4、2018R1013-1);福建省自然科学基金项目(30471225);福建省农业科学院青年英才计划项目(YC2015-9);福建省农业科学院创新团队建设项目(STIT2017-1-4)
详细信息
    作者简介:

    方智振(1985−),男,博士,副研究员,研究方向:果树遗传育种与生物技术(E-mail:fzhzh2008@163.com

    通讯作者:

    叶新福(1967−),男,博士,研究员,研究方向:作物品质遗传育种研究(E-mail:yexinfu@126.com

  • 中图分类号: S 662.3

Identification and Analysis of Expansins in the Transcriptome of Sanyueli Plum and Its Red-flesh Mutant

  • 摘要:   目的  Expansin是广泛存在于植物中的一类细胞壁蛋白,通过调节细胞壁柔韧性在植物生长发育过程中发挥作用。本研究旨在分析Expansin基因家族特征及其在果实成熟过程中的表达模式,并比较Expansin基因在三月李及其红肉突变体之间的差异表达。  方法  基于三月李及其红肉突变体果实成熟过程的转录组数据,采用生物信息学分析方法进行Expansin家族基因鉴定与分析。  结果  鉴定出33个李Expansin基因家族成员,编码蛋白长度在176~460 aa,分子量在19.21~51.33 kD,等电点4.62~9.83,大部分为位于细胞外的稳定亲水蛋白。系统进化树分析表明李Expansin家族成员可分为4个组:22个EXPA、6个EXPB、1个EXPLA和4个EXPLB。所有李Expansin蛋白质均具有保守的DPBB_1和Pollen_allerg_1结构域。保守基序分析表明,同一组Expansin成员具有相似的基序组成。9个Expansin基因在三月李及其红肉突变体果实成熟过程中差异表达。  结论  Expansin在三月李及其红肉突变体果实成熟过程中的表达模式存在显著差异。本研究结果可为解析李Expansin家族基因在果实成熟过程中的功能奠定基础。
  • 图  1  李、桃、拟南芥和水稻Expansin家族蛋白质系统进化树

    注:李Expansin家族蛋白质以粗体表示。

    Figure  1.  Phylogenetic tree of Expansin family in plum, peach, Arabidopsis, and rice

    Note: Expansin in bold font.

    图  2  Expansin家族蛋白质进化树及保守结构域分析

    Figure  2.  Phylogenetic tree and conserved domain of Expansin family

    图  3  李Expansin家族蛋白质保守基序及结构域序列Logo

    注:A:李Expansin家族蛋白质保守元件分布;B:李Expansin家族蛋白质保守元件序列特征。

    Figure  3.  Conserved motifs and domain sequence logo of Expansin family

    Note:A:Distribution of the identified motifs in plum Expansin family proteins. B:The sequence constitution of identified motifs in plum Expansin family proteins.

    图  4  李Expansin家族蛋白质的多重序列比对

    注: Expansin蛋白质的保守结构域用黑色横线标出,上方的红色字表示保守的氨基酸残基。

    Figure  4.  Multiple sequence alignment analysis on Expansin family

    Note: Conserved domains in Expansin indicated by horizontal black lines, and conserved amino acid residues by red letters.

    图  5  Expansin家族基因在三月李及其红肉突变体果实成熟过程中的表达模式

    注:上图基于三月李及其红肉突变体果实成熟过程的转录组数据计算得出。所有基因的FPKM值采用每个基因的最大FPKM值进行均一化处理。基因的表达水平由不同大小和颜色的实心圆表示,实心圆越大,表达量越高。右侧的数值为每个基因的最大FPKM值。

    Figure  5.  Expression pattern of Expansins in Sanyueli plum and its red-flesh mutant during fruit ripening

    Note:Based on the transcriptome data of Sanyueli and the red-fleshed mutant fruits during ripening. All FPKM values of all genes were normalized with maximum FPKM values of each gene. The expression level of genes was indicated using filled circle with different size and colour. The larger the circle, the higher the expression. The values on the right indicates the highest FPKM value of each gene.

    表  1  三月李及其红肉突变体Expansin蛋白质的理化性质和亚细胞定位

    Table  1.   Physicochemical properties and subcellular localization of Expansins in Sanyueli plum and its red-flesh mutant

    序列编号
    Sequnce ID
    蛋白质长度
    Protein length/aa
    分子量
    Molecular weight/kD
    等电点
    pI
    不稳定系数
    Instability index
    脂肪系数
    Aliphatic index
    平均亲水系数
    Grand average of hydropathicity
    细胞定位
    Cell location
    EVM001161525226.789.3635.764.29−0.100Extracellular
    EVM001578525226.746.9231.3266.23−0.108Extracellular
    EVM000446125427.278.4330.2663.43−0.194Extracellular
    EVM002797725427.278.4330.2663.43−0.194Extracellular
    EVM000951525727.478.7935.4674.47−0.039Extracellular
    EVM000846825727.508.9334.9474.47−0.042Extracellular
    EVM000992325727.749.1432.8867.24−0.095Extracellular
    EVM001071025827.948.5927.9164.69−0.066Extracellular
    EVM002541525928.398.8922.273.9−0.118Extracellular
    EVM001951725928.398.8922.273.9−0.118Extracellular
    EVM002220225927.849.4133.2371.2−0.010Extracellular
    EVM000239026027.999.4734.7168.65−0.007Extracellular
    EVM001735726028.748.0717.3866.81−0.226Extracellular
    EVM001862726129.249.3533.3669.12−0.338Extracellular
    EVM001664626328.999.2235.7165.320.006Extracellular
    EVM002618326529.189.8345.1773.21−0.057Extracellular
    EVM001677726628.748.433.5286.540.065Extracellular
    EVM001088128231.129.0929.3862.27−0.388Extracellular
    EVM002837129131.895.7739.0872.03−0.337Extracellular
    EVM001855735337.159.2445.0376.26−0.001Extracellular
    EVM000165136740.659.5348.2883.41−0.018Extracellular
    EVM002035646051.338.6746.3175.07−0.258Plasma membrane, Extracellular
    EVM001421717619.214.9836.0877.1−0.137Extracellular
    EVM001607826628.478.9528.9182.44−0.032Extracellular
    EVM000054827228.584.6243.4776.4−0.027Extracellular
    EVM000685128030.105.9436.9270.07−0.168Extracellular
    EVM002259628230.337.5235.1872.02−0.142Extracellular
    EVM002654529631.928.6241.7967.64−0.269Extracellular
    EVM002499626028.168.7337.2685.620.035Extracellular
    EVM002606225228.006.8730.369.33−0.309Extracellular
    EVM002834025228.006.8730.369.33−0.309Extracellular
    EVM000380525228.006.8730.369.33−0.309Extracellular
    EVM001316025527.744.7838.3875.33−0.170Extracellular
    下载: 导出CSV
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  • 收稿日期:  2020-04-26
  • 修回日期:  2020-07-24
  • 刊出日期:  2020-09-28

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