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萝卜全基因组中SPL基因家族成员的鉴定与分析
刘婷婷, 李晓曼, 张晓辉, 王海平, 阳文龙, 宋江萍, 贾会霞, 刘同金, 李锡香
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(中国农业科学院蔬菜花卉研究所/农业农村部园艺作物生物学与遗传改良重点实验室)
摘要:
Squamosa启动子结合类蛋白(SPL)基因家族,作为一类在植物中广泛存在的转录因子,在植物生长发育、信号转导及生理生化过程等方面具有重要作用。本研究通过生物信息学方法,从萝卜基因组中鉴定出分布于8 条染色体上的26 个SPL基因,并将其按照所处染色体位置命名为RsSPL1 ~ RsSPL26。其氨基酸数目在139 aa ~ 1021 aa,蛋白分子量范围在16167.7 Da到112 219.48 Da,等电点分布在5.77 ~ 9.67,外显子数量从2到11 个不等。microRNA结合位点预测发现12 个RsSPL含有miR156的结合位点,11 个RsSPL含有miR157的结合位点。对它们在不同组织和发育时期的表达模式研究发现,该基因家族成员具有一定的时空表达差异性,且同一个亚家族的成员具有相似的表达模式。本研究为萝卜SPL基因家族的功能研究奠定了基础。
关键词:  萝卜  SPL基因家族  基因组分布  生物学特点  基因表达
DOI:10.13430/j.cnki.jpgr.20201204002
投稿时间:2020-12-04修订日期:2021-01-21
基金项目:‘十三五’国家重点研发计划(2016YFD0100204-02);国家自然科学基金(31772303);中央级公益性科研院所基本科研业务费专项(IVF-BRF2019001,IVF-BRF2020001);中国农科院创新工程项目(CAAS-ASTIP-IVFCAAS)
Genome-wide Identification and Analysis of SPL Gene Family in Radish
LIU Ting-ting, LI Xiao-man, ZHANG Xiao-hui, WANG Hai-ping, YANG Wen-long, SONG Jiang-ping, JIA Hui-xia, LIU Tong-jin, LI Xi-xiang
(Institute of Vegetables and Flowers,Chinese Academy of Agricultural Sciences/Laboratory of Biology and Genetics Improvement of Horticultural Crops, Ministry of Agriculture and Rural Affairs)
Abstract:
SQUAMOSA promoter binding protein-like(SPL)gene family, as a class of transcription factors present widely in plants, has been shown to play important biological roles in plant growth, development, signal transduction, physiological and biochemical processes. In this study, 26 SPL genes from the radish genome have been identified using bioinformatic approach, and they are designated RsSPL1-RsSPL26 according to their locations on eight chromosomes. The amino acids encoded by SPL genes are variable from 139 to 1021 aa, with the protein molecular weight ranged from 16,167.7 to 112,219.48 Da and an isoelectric point of 5.77 to 9.67. Radish SPL genes contain 2 to 11 exons. MicroRNA target prediction suggested that 12 RsSPL genes contained complementary sequence of miR156 and 11 RsSPL genes contained complementary sequence of miR157. The expression patterns of RsSPL genes in different tissues and development stages showed spatial and temporal differences, and the same subfamily members showed similar expression patterns. Thus, these results provided insights for the functional characterization of the SPL genes family in radish.
Key words:  radish  SPL gene family  genomic distribution  biological characteristics  gene expression

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