葡萄SAUR基因家族鉴定与生物信息学分析
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南京农业大学园艺学院,南京农业大学园艺学院,南京农业大学园艺学院,南京农业大学园艺学院,南京农业大学园艺学院,南京农业大学园艺学院

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江苏省科技支撑计划(NO.BE2013431);南京农业大学校青年基金(KJ2013013)


Identification and bioinformatics analysis of the SAUR gene family in grape
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College of Horticulture,Nanjing Agricultural University,College of Horticulture,Nanjing Agricultural University,College of Horticulture,Nanjing Agricultural University,College of Horticulture,Nanjing Agricultural University,College of Horticulture,Nanjing Agricultural University,College of Horticulture,Nanjing Agricultural University

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    摘要:

    为了研究葡萄早期应答生长素基因SAUR (Small auxin-up RNA)家族,本文利用全基因组信息鉴定了葡萄64个SAUR家族成员,并对SAUR家族成员进行基因结构、氨基酸特性分析、染色体定位、基因进化,功能分析,以及组织表达分析。结果表明,葡萄全基因组上64个SAUR家族成员在19条染色体中的8条染色体上呈现簇状分布,主要分布在3、4号染色体上,其中3号染色体上数量最多为37个;葡萄SAUR家族基因长度较短,有59个基因是无内含子基因;蛋白理化特征分析显示, 多数SAUR蛋白呈碱性, 结构稳定性较差, 蛋白脂溶指数高, 呈亲水性;基因功能预测结果表明,葡萄SAUR基因主要担当生长因子,结构蛋白,转录,转录调控以及响应胁迫应答和免疫应答6种功能,其中更多参与生长调节功能;根据系统进化分析将其分为10个分支,另外不同组织表达谱的分析结果表明SAUR基因家族成员具有不同的组织表达模式,对于非生物胁迫具有一定的调节作用。这些信息为葡萄SAUR基因家族功能分析奠定了一定的工作基础。

    Abstract:

    Abstract: The phytohormone auxin exerts a pleiotropic effect on various aspects of plant growth and development, including cell elongation, cell division, differentiation, root initiation, apical dominance, and tropic responses. Auxin mediates these effects at the molecular level by altering the expression of numerous genes. Most early auxin response genes are classified into three families: AUX/ IAAs, GRETCHEN HAGEN3s (GH3s), and Small Auxin-Up RNA (SAUR). AUX/IAA (PF02309) family genes achieve transcript due to the induction of plant hormone auxin and part of them have an N-terminal DNA binding domain. It is a transcriptional repressor that has proved to play a very vital role in auxin signaling pathway. GH3 (PF03321) was first found in soybean later, some GH3 genes were reported and divided into three groups: one combine JA-amino acid conjugates, the others were used to produce IAA conjugates and catalyze the 30 conjugation of amino acids and 4-substituted benzoic acid. GH3 plays an important role in auxin signaling pathways, optical signaling pathways and plant defense responses; Previous reports indicated that SAUR protein contains a central domain (PF02519), and it is highly conserved. The SAUR domain mainly contains hydrophobic amino acids, short, highly conserved, charged patches and a nearly invariant cysteine residue. Around the SAUR domain, SAUR 35 proteins have lowly conservative length N- and C-terminal extensions. Small auxin-up RNAs (SAURs) are the early auxin-responsive genes represented by a large multigene family in plants. In order to recognize the SAUR (Small auxin-up RNA) gene from the whole genome of the grape, the gene of SAUR gene was identified from the whole genome of the grape, and the gene structure, amino acid characterization, chromosome localization, gene evolution,functional analysis and tissue expression analysis of the SAUR gene family were carried out. A total of 64 members of the SAUR gene family were identified and showed cluster distribution on 8 chromosomes among 19 chromosomes. The genes were mainly distributed in Chr3 and Chr4. Chr3, exist the highest number of genes, 37 were distributed in it. the length of Grape SAUR family genes is shorter, where 59 genes are intronless. Analysis of protein physical and chemical characteristics showed that most SAUR protein was alkaline, the structure stability was poor, the protein fat soluble index was high, and it was hydrophilic. The function prediction of genes showed that the SAUR gene mainly functioned as growth factors, structural proteins, transcription, transcriptional regulation and responded to stress and immunization response and immune response. Most of them were involved in growth regulation. According to the phylogenetic analysis, it was divided into 10 branches. Analysis of different tissue expression profiles showed that SAUR gene family members had different tissue expression patterns and had some regulation effect on abiotic stress. This information has laid a foundation for the functional analysis of SAUR gene family. This work will pave a a new era of applying genetic information to a deeper understanding of strawberries and used to enhance the agricultural production. Making genetic information and genomics applied in many aspects of grape production, which means that the era of application of genetic information in crop production has arrived.

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李傲,崔梦杰,陈珂,等.葡萄SAUR基因家族鉴定与生物信息学分析[J].植物遗传资源学报,2018,19(2):326-337.

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  • 收稿日期:2017-08-14
  • 最后修改日期:2018-01-25
  • 录用日期:2017-12-14
  • 在线发布日期: 2018-03-19
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