菠萝TCP基因家族的鉴定及成花诱导阶段的表达谱分析  

Genome-wide identification of pineapple TCP gene family and analysis of expression profile in flower induction stage

作　　者：阮城城 胡福初[1] 罗志文[1] 王祥和[1] 郭利军[1] 李玉静 范鸿雁[1] 韩冰[1] 陈哲[1] 张治礼[1] RUAN Chengcheng;HU Fuchu;LUO Zhiwen;WANG Xianghe;GUO Lijun;LI Yujing;FAN Hongyan;HAN Bing;CHEN Zhe;ZHANG Zhili(Institute of Tropical Fruit Trees,Hainan Academy of Agricultural Sciences/Key Laboratory of Tropical Fruit Tree Biology of Hainan Province/Investigation Station of Tropical Fruit Trees of Ministry of Agriculture,Haikou 571100,Hainan,China;Institute of Tropical Crops,Hainan University,Haikou 570228,Hainan,China)

机构地区：[1]海南省农业科学院热带果树研究所·海南省热带果树生物学重点实验室·农业部海口热带果树科学观测实验站,海口571100 [2]海南大学热带作物学院,海口570228

出　　处：《果树学报》2020年第11期1623-1635,共13页Journal of Fruit Science

基　　金：国家自然科学基金(31960589);海南省科协青年科技英才学术创新计划(QCXM201803);海南省属科研院所技术开发专项(KYYS-2018-02)。

摘　　要：【目的】筛选并分析菠萝TCP(Teosinte branched 1/Cycloidea/Proliferating)基因家族,为菠萝TCP基因在乙烯利诱花过程中的功能研究提供参考。【方法】以‘台农16号’菠萝为材料,通过生物信息学软件系统地分析该基因家族的蛋白质理化性质、染色体定位、基因共线性、系统进化、基因结构、启动子顺式作用元件及RNA-Seq数据,并通过qRTPCR分析该基因家族在成花诱导阶段的表达情况。【结果】共鉴定出9个菠萝TCP基因,均含有TCP结构域,系统进化将其划分为PCF、CIN和CYC/TB1三个亚家族。菠萝TCP基因家族的扩增与全基因组倍增事件无关,不存在片段复制和串联复制事件。启动子顺式作用元件分析发现,AcTCP2、AcTCP5~AcTCP9均含有乙烯响应元件。表达谱分析表明,AcTCP对乙烯利均有不同程度的响应,在花芽分化时期,AcTCP1、AcTCP3、AcTCP7和AcTCP8在茎尖中的表达水平均有显著上调,分别约为0时期的8.15、18.0、14.6和7.91倍。【结论】鉴定并分析了AcTCP基因家族成员信息,发现AcTCP1、AcTCP3、AcTCP7和AcTCP8在花芽分化时期高度表达,AcTCP3在乙烯利处理1 h后显著上调,表明其可能与乙烯利诱导菠萝成花过程密切相关。【Objective】TCP(Teosinte branched 1/Cycloidea/Proliferating) is a unique family of transcription factors in plants which participate in a variety of growth and development processes, such as stem, leaf and flower development. The genome-wide analyses of TCP gene family in pineapple haven’t been reported and it’s unknown whether TCP genes are related to ethylene response and flower induction. In this study, we did comprehensive analysis of AcTCP gene family in order to provide a reference for the function research of AcTCP genes in the process of ethephon induced flower formation.【Methods】Two methods were used to identify the TCP genes in pineapple. Firstly, the whole genome protein sequence was downloaded from the pineapple genome database PGD(http://pingeapple.angiosperms.org/pingeapple/html/index.html), and then 50 sequences of the TCP domain(PF03634) in different species were downloaded from Pfam(pfam.xfam.org), which was searched by the local blast(e < 1-10). Secondly, the HMM(hidden Markov model) matrix of TCP domain was downloaded from Pfam, and then the TCP genes were retrieved through Hmmer 3.0 software. All sequences were guaranteed to contain TCP domains via CD search(https://www.ncbi.nlm.nih.gov/structure/cdd/wrpsb.cgi) and smart(http://smart.embl-heidelberg. de). Nine sequences were found by both methods. The physical and chemical properties of proteins were predicted by protparam(http://web.expasy.org/protparam/). The secondary structures of proteins were predicted by GOV IV(http://npsa-prabi.ibcp.fr). Subcellular localization was predicted by WoLF PSORT(http://www. genscript.com/wolf-psort.html) and CELLO(http://cell.life.nctu.edu.tw/). Mapchart 2.2 software was employed for chromosome location analysis, McScanX software for collinearity analysis, PhyML 3.0 for maximum likelihood method for building evolutionary tree, MEME(http://meme-suite.org/tools/meme) for motif analysis, and TBtools for gene structure analysis. PlantCARE(http://bioinformatics.psb.ugent.be/webtools/plantcare/html/) wa

关 键 词：菠萝 TCP基因 基因家族 表达分析 

分 类 号：S668.3[农业科学—果树学]