谷子生长调节因子互作因子基因家族生物信息学分析  

Bioinformatics of Growth-interacting Factor Genes in Foxtail Millet

作　　者：张立全[1] 张浩林 李丛丛 魏建华[1] 张杰伟[1] ZHANG Liquan;ZHANG Haolin;LI Congcong;WEI Jianhua;ZHANG Jiewei(Agro-Biotechnology Research Institute,Beijing Academy of Agriculture and Forestry Sciences/Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology,Beijing 100097,China;College of Life Science,Shanghai Normal University,Shanghai 200234,China)

机构地区：[1]北京市农林科学院农业生物技术研究所/农业基因资源与生物技术北京市重点实验室,北京100097 [2]上海师范大学生命科学学院,上海200234

出　　处：《福建农业学报》2021年第8期878-883,共6页Fujian Journal of Agricultural Sciences

基　　金：国家重点研发计划项目(2019YFD1000700、2019YFD1000703);北京市农林科学院科技创新能力建设专项(KJCX20200205、KJCX20210101)。

摘　　要：【目的】生长调节因子互作因子(GRF-interacting factor,GIF)是植物体内一类转录共激活因子,在植物生长发育和逆境胁迫中起重要作用。通过系统分析谷子GIF基因家族的组成、各成员的结构以及进化关系,为GIF基因调节机制研究提供参考。【方法】利用谷子基因组数据库,采用生物信息学的方法,鉴定谷子GIF基因家族的基因结构、染色体定位,编码蛋白相似性、二级结构、跨膜区和磷酸化位点预测,通过序列比对进行进化和分类分析。【结果】谷子含有3个GIF基因,均含有4个外显子,分布于第3、8和9号染色体上。编码SiGIF1蛋白和SiGIF2蛋白相似性最高,为72.04%,SiGIF1蛋白和SiGIF3蛋白相似性最低,为37.08%。二级结构分析显示,谷子GIF蛋白无规则卷曲占比最高(41.56%~56.60%),其次为α-螺旋(34.43%~35.50%),再次为β-转角(5.19%~11.69%),β-折叠最低(3.23%~11.26%)。TMHMM跨膜区进行分析显示,谷子GIF蛋白均不含有跨膜区。MEME保守基序分析显示,谷子GIF蛋白均含有保守的SSXT(PF05030)结构域。磷酸化位点预测分析表明谷子GIF蛋白均含有潜在磷酸化位点。【结论】谷子GIF基因家族的基因结构、磷酸化位点预测等生物信息学分析结果将为揭示谷子GIF基因家族在谷子生长发育过程中的功能提供重要的线索。【Objective】The composition,structure,and evolution of each member of the growth-interacting factors(GIF)of the growth-regulating factors(GRF)and the transcription cofactors that closely associate with the growth,development,and stress response of plants in Setaria italica were analyzed.【Method】Based on the S.italica genome database and bioinformatics,the structure,characteristics,position on the chromosome,proteins similarity,secondary structure,transmembrane domain,and phosphorylation sites of the GIF genes were obtained.【Result】The 3 SiGIFs in S.italica genome contained 4 exons locating on the 3,8,and 9 chromosomes.The greatest similarity between SiGIF1 and SiGIF2 was 72.04%,while the lowest was 37.08%between SiGIF1 and SiGIF3.The secondary structure consisted of 41.56%~56.60%random coils,34.43%~35.50%alpha helix,5.19%~11.69%beta turns and 3.23%~11.26%extended strands.The TMHMM transmembrane domain analysis showed no transmembrane domain in SiGIFs.MEME indicated that all SiGIFs contained conserved SSXT(PF05030)domain.And potential phosphorylation sites in the GIFs were predicted by analysis.【Conclusion】The bioinformatics revealed information on the structure,phosphorylation sites of SiGIF gene family provided crucial insights for the studies on the growth and development of plants.

关 键 词：谷子 生长调节因子互作因子 基因家族 进化分析 

分 类 号：S515[农业科学—作物学]