Journal of Nuclear Agricultural Sciences ›› 2018, Vol. 32 ›› Issue (8): 1513-1527.DOI: 10.11869/j.issn.100-8551.2018.08.1513

• Induced Mutations for Plant Breeding·Agricultural Biotechnology • Previous Articles     Next Articles

Genome-wide Identification and Expression Analysis of the NF-Y Family Genes in Phyllostachys edulis

WANG Siyu1, FU Ying1, ZHOU Mingbing1, 2,*   

  1. 1The State Key Laboratory of Subtropical Silviculture, Zhejiang A & F University, Hangzhou, Zhejiang 311300;
    2Zhejiang Provincial Collaborative Innovation Center for Bamboo Resources and High-efficiency Utilization, Hangzhou, Zhejiang 311300
  • Received:2017-04-19 Online:2018-08-10 Published:2018-06-30

毛竹NF-Y家族基因的鉴定与表达分析

王思雨1, 傅鹰1, 周明兵1, 2, *   

  1. 1 浙江农林大学亚热带森林培育国家重点实验室,浙江 杭州 311300;
    2 浙江省竹资源与高效 利用协同创新中心,浙江 杭州 311300
  • 通讯作者: 周明兵,男,副教授,主要从事毛竹生长发育研究。E-mail:zhoumingbing@zafu.edu.cn
  • 作者简介:王思雨,女,主要从事生物学研究。E-mail:1770334864@qq.com
  • 基金资助:
    国家自然科学基金项目(31500542、31470615),浙江自然科学基金杰出青年项目(LR12C16001)

Abstract: In order to analysis the structure, evolution pattern, and expression pattern of Phyllostachys edulis NF-Y family genes, in this study, 33 NF-Y family genes were identified in Phyllostachys edulis by blast (basic local alignment search tool) with Oryza sativa and Arabidopsis thaliana NF-Y protein sequences as query. All 33 members are divided into three subfamilies, PhNF-YA, PhNF-YB and PhNF-YC by reference to the characteristics of three NF-Y subfamily sequences. The phylogenetic trees constructed by NF-Y family members of Ph. edulis, Brachypodium distachyon, Setaria italica, O. sativa and A. thaliana, show that NF-Y family members of Ph. edulis have different evolution trends. PhNF-YB and PhNF-YC subfamily are more conservative in evolution, compared with PhNF-YA subfamily. And PhNF-YA subfamily may be amplified, while in PhNF-YB and PhNF-YC subfamily members may be lost. Transcription sequencing data of seven tissues of Ph. edulis was downloaded and analyzed using Cufflinks software. The results show that some NF-Y family genes are expressed in all seven tissues, e. g. PhNF-YA7,PhNF-YA3 and PhNF-YB8 were expressed in the roots, stems and leaves; and others were expressed in specific organs e. g. PhNF-YA1, PhNF-Y2, PhNF-YA4 and PhNF-YA10 were expressed only in the roots. In order to analyze the contribution of NF-Y family genes to bamboo shoot development, the mRNA from different Ph. edulis shoot internode tissues were extracted and RT-qPCR results showed that the Ph. edulis NF-Y family genes were diversely expressed in different internode tissues. All in all, we systematically investigated the structure of NF-Y family genes of Ph. edulis, phylogenetic relationship and the expression pattern of these genes, which lays a base for the comprehensive study of Ph. edulis NF-Y family gene function in the future.

Key words: Phyllostachys edulis, NF-Y family, gene structure, phylogenetic trees, expression pattern

摘要: 为阐明毛竹NF-Y家族基因的结构、进化关系和表达情况,本研究利用水稻和拟南芥NF-Y家族的蛋白序列,通过Blast比对分析,鉴定出33个毛竹NF-Y家族基因。基于植物NF-Y亚家族成员的氨基酸序列特征,毛竹33个NF-Y家族成员分为3个亚家族,分别命名为PhNF-YA、PhNF-YB和PhNF-YC。构建毛竹、二穗短柄草、粟、水稻和拟南芥NF-Y家族系统发育树,结果表明,毛竹各NF-Y亚家族成员的进化趋势不同,与PhNF-YA亚家族相比,PhNF-YB和PhNF-YC在进化上较为保守,毛竹在NF-YA亚家族上可能出现了扩增,而在NF-YB和NF-YC两个亚家族上可能出现了成员丢失现象。通过Cufflinks等软件对毛竹7个组织材料的转录本深度测序数据分析,发现有些NF-Y家族基因在各器官中普遍表达,如PhNF-YA7、PhNF-YA3PhNF-YB8在根茎叶中均有表达;有些NF-Y家族基因则在特定器官表达,如PhNF-YA1PhNF-Y2PhNF-YA4PhNF-YA10在竹笋幼根表达。实时荧光定量RT-PCR分析毛竹NF-Y家族基因在毛竹笋各个组织的表达情况,结果表明,毛竹NF-Y家族基因在不同的节间组织中差异表达。本研究结果为进一步深入探究毛竹NF-Y家族基因功能奠定了理论基础。

关键词: 毛竹, NF-Y家族, 基因结构, 系统发育树, 表达谱