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主管单位 工业和信息化部 主办单位 哈尔滨工业大学 主编 任南琪 国际刊号ISSN 1672-5565 国内刊号CN 23-1513/Q

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引用本文:李新然,张智俊,喻珮瑶,陈家璐,马瑞芳,刘笑雨.毛竹SWEET基因家族的全基因组鉴定与分析[J].生物信息学,2020,18(4):236-246.
LI Xinran,ZHANG Zhijun,YU Peiyao,CHEN Jialu,MA Ruifang,LIU Xiaoyu.Genomic identification and expression analysis of SWEETgene family in moso bamboo (Phyllostachys edulis)[J].Chinese Journal of Bioinformatics,2020,18(4):236-246.
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毛竹SWEET基因家族的全基因组鉴定与分析
李新然1,2,张智俊1,2,喻珮瑶1,2,陈家璐1,2,马瑞芳1,2,刘笑雨1,2
(1.浙江农林大学 省部共建亚热带森林培育国家重点实验室,杭州 311300; 2.浙江农林大学 林业与生物技术学院,杭州 311300)
摘要:
糖外排转运蛋白(Sugars will eventually be exported transporters, SWEETs)在植物生理活动和发育过程中起重要作用。为探究SWEET基因家族在毛竹(Phyllostachys edulis)的生长发育过程中起的作用,基于毛竹基因组数据,通过生物信息学方法对SWEET基因家族成员进行鉴定,并对其编码的蛋白质理化性质、系统进化及共线性关系、基因结构、启动子元件及表达模式、蛋白互作网路分析、GO注释等进行细致分析。研究结果表明:该家族基因结构、基序和结构域相对保守,所有成员均含有MtN3_slv结构域。上游启动子序列中含有多个同非生物胁迫以及生长发育相关元件,结合转录组表达量分析显示,多个家族成员在毛竹不同组织器官均有表达。共线性分析揭示毛竹SWEET家族在演化过程中存在全基因组多倍化事件。蛋白互作网路分析挖掘出2个重要核心家族成员,GO注释分析进一步证实毛竹SWEET主要负责体内糖类物质的转运。以上结果为毛竹SWEET基因功能鉴定提供了重要参考,对于毛竹快速生长分子机制研究打下了基础。
关键词:  毛竹  SWEET基因家族  基因分析  功能鉴定
DOI:10.12113/202002003
分类号:Q343.1
文献标识码:A
基金项目:国家自然科学基金项目(No.31770721).
Genomic identification and expression analysis of SWEETgene family in moso bamboo (Phyllostachys edulis)
LI Xinran1,2,ZHANG Zhijun1,2,YU Peiyao1,2,CHEN Jialu1,2, MA Ruifang1,2, LIU Xiaoyu1,2
(1.State Key Laboratory of Subtropical Forest Cultivation, Zhejiang A & F University,Hangzhou 311300,China2.College of Forestry and Biotechnology, Zhejiang A & F University, Hangzhou 311300,China)
Abstract:
Sugars will eventually be exported transporters (SWEETs) play an important role in plant growth and development. In order to explore the function of SWEETgene family in the growth and development of moso bamboo (Phyllostachys edulis), the physicochemical properties, phylogenetic relationship, genes structure and expression pattern protein-protein interaction, and GO annotation of the SWEETfamily were analyzed in detail by bioinformatics methods based on genome and related transcriptome data from moso bamboo (Phyllostachys edulis). Results show that the gene structure, motif, and domain of this family were relatively conserved, and all members contained the MtN3_slv domain. The upstream promoter sequences contained multiple cis-acting elements related to growth and development. Multiple SWEETfamily members were expressed in different tissues and organs of moso bamboo by transcriptome expression analysis.Collinear analysis shows that there were genome-wide polyploidy events in the SWEETfamily of bamboo.Two important core family members were disclosed by protein-protein interaction(PPI)network analysis. The analysis of GO annotation further proves that SWEETwas mainly responsible for the transport of carbohydrate in the body. The results of this study will help to reveal the biological functions of the SWEETgene family and lay a foundation for the study of the molecular mechanism of the rapid growth of moso bamboo.
Key words:  Phyllostachys edulis  SWEET  Gene analysis  Functional identification

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