苦荞NAC基因家族的生物信息学分析
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摘要
以苦荞基因组数据库为基础,利用比对程序,经鉴定和筛选,共获得72个苦荞NAC家族基因的序列,对其进行生物信息学分析。基因结构分析表明,除FtPinG0002967400.01.T01基因外,苦荞NAC家族其余71个基因均含有内含子。蛋白质理化性质预测分析表明,72条蛋白序列具有NAC结构域。72个NAC基因共有7个保守基序,在苦荞8条染色体上均有分布。有33个NAC基因在种子发育过程中差异表达。系统进化分析表明,苦荞NAC蛋白序列与拟南芥的可以分为9个亚家族。
Based on Tartary buckwheat genome database, 72 genes of NAC family in Tartary buckwheat were identified and screened by using comparison program. Genetic structure analysis showed that all the 71 genes, except FtPinG0002967400.01.t01, contained introns. The prediction and analysis of physical and chemical properties showed that 72 protein sequences had NAC domain. There were 7 conserved motifs in 72 NAC genes, which were distributed on8 chromosomes of Tartary buckwheat. Thirty-three NAC genes were differentially expressed during seed development.Phylogenetic analysis showed that 72 NAC genes and the NAC genes of arabidopsis thaliana could be divided into 9 subfamilies.
Based on Tartary buckwheat genome database, 72 genes of NAC family in Tartary buckwheat were identified and screened by using comparison program. Genetic structure analysis showed that all the 71 genes, except FtPinG0002967400.01.t01, contained introns. The prediction and analysis of physical and chemical properties showed that 72 protein sequences had NAC domain. There were 7 conserved motifs in 72 NAC genes, which were distributed on8 chromosomes of Tartary buckwheat. Thirty-three NAC genes were differentially expressed during seed development.Phylogenetic analysis showed that 72 NAC genes and the NAC genes of arabidopsis thaliana could be divided into 9 subfamilies.
引文
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[2]BIRKENBIHL R P,JACH G,SAEDLER H,et al.Functional dissection of the plant-specific SBP-domain:overlap of the DNA-binding and nuclear localization domains[J].Journal of Molecular Biology,2005,352(3):585-596.
[3]WADA Y,MIYAMOTO K,KUSANO T,et al.Association between up-regulation of stress-responsive genes and hypomethylation of genomic DNA in tobacco plants[J].Molecular Genetics and Genomics,2004,271:658-666.
[4]PAN Y J,FU B Y,WANG D,et al.Spatial and temporal profiling of DNA methylation induced by drought stress in rice[J].Scientia Agricultura Sinica,2009,42:3009-3018.
[5]KATO H,MOTOMURA T,KOMEDA Y,et al.Overexpression of the NAC transcription factor family gene ANAC036 results in a dwarf phenotype in Arabidopsis thaliana[J].Journal of Plant Physiology,2010,167(7):571-577.
[6]SHAHNEJAT-BUSHEHRI S,MUELLER-ROEBER B,BALAZADEH S.Arabidopsis NAC transcription factor JUNGBRUNNEN1 affects thermomemory-associated genes and enhances heat stress tolerance in primed and unprimed conditions[J].Plant Signaling&Behavior,2012,7(12):1518-1521.
[7]DISTELFELD A,PEARCE S P,AVNI R,et al.Divergent functions of orthologous NAC transcription factors in wheat and rice[J].Plant Molecular Biology,2012,78(4/5):515-524.
[8]NURUZZAMAN M,MANIMEKALAI R,SHARONI AM,et al.Genome-wide analysis of NAC transcription factor family in rice[J].Gene,2010,465(1/2):30-44.
[9]ZHANG L J,LI X X,MA B,et al.The tartary buckwheat genome provides insights into rutin biosynthesis and abiotic stress tolerance[J].Molecular Plant,2017,10(9):1224-1237.
[10]KUMAR S,STECHER G,TAMURA K.MEGA7:molecular evolutionary genetics analysis version 7.0 for bigger datasets[J].Molecular Biology and Evolution,2016,33(7):1870-1874.
[11]HU B,JIN J,GUO A Y,et al.GSDS 2.0:an upgraded gene feature visualization server[J].Bioinformatics,2015,31(8):1296-1297.
[12]HUANG J,DENG J,SHI T,et al.Global transcriptome analysis and identification of genes involved in nutrients accumulation during seed development of rice tartary buckwheat(Fagopyrum Tararicum)[J].Scientific Reports,2017,7(1):11792.
[13]VOORRIPS R E.MapChart:software for the graphical presentation of linkage maps and QTLs[J].Journal of Heredity,2002,93(1):77-78.
[14]张琳.拟南芥种子发育过程转录组深度测序数据的分析[D].福州:福建农林大学,2011.
[15]刘翠芳,邹杰,陈信波.DREB转录因子与植物非生物胁迫抗性研究进展[J].生物技术通报,2010(10):26-30,48.
[16]PENG H,YU X W,CCHENG H Y,et al.A survey of functional studies of the plant-specific NAC transcription factor family[J].Chinese Bulletin of Botany,2010,45(2):236-248.
[17]FINN R D,BATEMAN A,CLEMENTS J,et al.Pfam:The protein families database[J].Nuleicds Research,2014,42:222-230.