Genome-Wide Analysis and Expression Patterns of NAC Transcription Factor Family Under Different Developmental Stages and Abiotic Stresses in Chinese Cabbage
Genome-Wide Analysis and Expression Patterns of NAC Transcription Factor Family Under Different Developmental Stages and Abiotic Stresses in Chinese Cabbage
复制标题
大白菜不同发育阶段及非生物胁迫下NAC转录因子家族的全基因组分析及表达模式
DOI：
10.1007/s11105-014-0712-6
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发表时间：
2014-10-01
影响因子：
2.1
通讯作者：
Hou, Xilin
中科院分区：
文献类型：
--
作者：
Liu, Tongkun;Song, Xiaoming;Hou, Xilin
NAC（NAM、ATAF 1/2和CUC 2）蛋白代表主要的植物特异性转录因子（TF）家族，并且在不同发育阶段和组织中表达。本研究在大白菜基因组中鉴定了204个NAC基因，其中包括17个膜结合转录因子。获得的基因结构和基序组合物表明，BrNAC基因家族大致分为8组。预测的大白菜NAC基因分布在10条染色体上，分布密度不同，但主要分布在第3和第10染色体上（分别占14%和14%）。对大白菜、水稻和拟南芥的NAC家族基因进行了综合分析。系统发育分析表明，BrNAC与拟南芥和水稻的亲缘关系沿着，可分为两大类（A和B）和19个亚类。通过对大白菜和拟南芥的同源、旁系和直系同源搜索发现，大白菜基因组三倍体过程中存在基因丢失。最后，分析了55个BrNAC基因在不同发育阶段和非生物胁迫（热、冷、阿坝、GA和PEG）条件下的表达。根据表达谱将所选基因分为组成型表达、非表达和时期特异性表达3种类型，表明NAC基因参与了大白菜生理发育过程的各个方面。在不同的非生物胁迫条件下，几个成员的BrNACs上调各种非生物胁迫。本研究为大白菜BrNAC基因家族成员的功能分析提供了参考。
NAC (NAM, ATAF1/2 and CUC2) proteins represent a major plant-specific transcription factor (TF) family and are expressed in various developmental stages and tissues. In this study, 204 NAC genes, including 17 membrane-bound TFs, were identified in theBrassica rapa(Chinese cabbage) genome. The gene structure and motif compositions obtained suggest that the BrNAC gene family is classified broadly into eight groups. The predicted Chinese cabbage NAC genes were distributed in ten chromosomes at various densities but mainly in chromosomes 3 and 10 (14 and 14 %, respectively). A comprehensive analysis of NAC family genes in Chinese cabbage, rice andArabidopsiswas also performed. Phylogenetic analysis of BrNACs, along with theirArabidopsisand rice counterparts, divided the proteins into two major groups (A and B) and 19 subgroups. Homologous, paralogous, and orthologous searches of Chinese cabbage andArabidopsisrevealed gene loss during genome triplication in Chinese cabbage. Finally, the expression of 55 selected Chinese cabbage BrNAC genes was analyzed under different developmental stages and abiotic stress conditions (heat, cold, ABA, GA, and PEG). The selected genes were classified into three types (constitutive expression, no-expression, and period-specific expression) according to their expression profiles, which indicate that the NAC genes are involved in various aspects of the physiological and developmental processes of Chinese cabbage. Under different abiotic stress conditions, several members of BrNACs were upregulated by various abiotic stresses. Our study provides a very useful reference for functional analysis of members of BrNAC gene family in Chinese cabbage.