Genome wide identification of Dof transcription factor gene family in sorghum and its comparative phylogenetic analysis with rice and Arabidopsis
Genome wide identification of Dof transcription factor gene family in sorghum and its comparative phylogenetic analysis with rice and Arabidopsis
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DOI：
10.1007/s11033-010-0650-9
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发表时间：
2011-11-01
影响因子：
2.8
通讯作者：
Yadav, Dinesh
中科院分区：
文献类型：
--
作者：
Kushwaha, Hariom;Gupta, Shubhra;Yadav, Dinesh
Dof（DNA binding with One Finger）家族是一类典型的锌指转录因子家族，在植物中具有广泛的功能。在不同作物中观察到的Dof基因的数量存在很大差异。在本研究中，共28个推定的Dof基因已预测从最近可用的全基因组鸟枪序列的两色Sorcumbicolor（L.）Moench（指定登录号TPA：BK 006983-BK 007006和TPA：BK 007079-BK 007082）。预测的SbDof基因分布在高粱的10条染色体中的9条上，并且大多数这些基因缺乏基于典型内含子/外显子结构的内含子。28 SbDof蛋白质的系统发育分析导致四个亚组构成六个集群。这些Dof蛋白沿着30种水稻和36种拟南芥Dof蛋白的比较系统发育分析揭示了6个主要群体，与先前在水稻和拟南芥中观察到的相似。模体分析表明，高粱Dof蛋白中含有50-52个氨基酸的保守结构域，这些结构域均匀分布在高粱的28个Dof蛋白中。这些SbDof基因的顺式调控元件的计算机分析表明，其功能与光响应，胚乳特异性基因表达，激素响应，分生组织特异性表达和胁迫响应。
The Dof (DNA binding with One Finger) family represents a classic zinc-finger transcription factors involved with multifarious roles exclusively in plants. There exists great diversity in terms of number of Dof genes observed in different crops. In current study, a total of 28 putative Dof genes have been predicted in silico from the recently available whole genome shotgun sequence of Sorghum bicolor (L.) Moench (with assigned accession numbers TPA:BK006983-BK007006 and TPA:BK007079-BK007082). The predicted SbDof genes are distributed on nine out of ten chromosomes of sorghum and most of these genes lack introns based on canonical intron/exon structure. Phylogenetic analysis of 28 SbDof proteins resulted in four subgroups constituting six clusters. The comparative phylogenetic analysis of these Dof proteins along with 30 rice and 36 Arabidopsis Dof proteins revealed six major groups similar to what has been observed earlier for rice and Arabidopsis. Motif analysis revealed the presence of conserved 50-52 amino acids Dof domain uniformly distributed across all the 28 Dof proteins of sorghum. The in silico cis-regulatory elements analysis of these SbDof genes suggested its diverse functions associated with light responsiveness, endosperm specific gene expression, hormone responsiveness, meristem specific expression and stress responsiveness.