Genome-wide identification and comparative evolutionary analysis of the Dof transcription factor family in physic nut and castor bean
Genome-wide identification and comparative evolutionary analysis of the Dof transcription factor family in physic nut and castor bean
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物理坚果和蓖麻子中Dof转录因子家族的全基因组鉴定和比较进化分析
DOI：
10.7717/peerj.6354
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发表时间：
2019-02
期刊：
影响因子：
2.7
通讯作者：
Zhang Xicai
中科院分区：
文献类型：
--
作者：
Zou Zhi;Zhang Xicai
单指DNA结合蛋白（Dof）是一类植物特异性转录因子家族，参与植物的生长、发育和胁迫反应。这项研究提出了一个全基因组的比较Dof家族基因在麻风树（麻风树curcas）和蓖麻子（蓖麻），两个大戟科植物，没有经历过任何最近的全基因组重复。分别从蓖麻和蓖麻基因组中鉴定出总共25或24个Dof基因，其中JcDof基因分布在11条染色体中的9条上。系统发育分析将这些基因划分为9个类群，分别代表4个亚科，并根据对拟南芥、蓖麻、拟南芥和水稻Dofs基因的比较，提出了24个直向进化类群。保守的微同线性之间观察到的坚果和蓖麻Dof编码支架，这使得锚定的23 RcDof基因9坚果染色体。与蓖麻中没有最近的重复相反，在蓖麻的Dof基因家族中发现了两个串联重复和一个基因丢失。全球转录组分析揭示了不同组织中Jc/RcDof基因的不同模式，并且还确定了参与花发育和胁迫反应的关键Dof基因。这些结果为进一步研究蓖麻和蓖麻的Dof基因提供了有价值的信息。
DNA-binding with one finger (Dof) proteins comprise a plant-specific transcription factor family involved in plant growth, development and stress responses. This study presents a genome-wide comparison of Dof family genes in physic nut (Jatropha curcas) and castor bean (Ricinus communis), two Euphorbiaceae plants that have not experienced any recent whole-genome duplication. A total of 25 or 24 Dof genes were identified from physic nut and castor genomes, respectively, where JcDof genes are distributed across nine out of 11 chromosomes. Phylogenetic analysis assigned these genes into nine groups representing four subfamilies, and 24 orthologous groups were also proposed based on comparison of physic nut, castor, Arabidopsis and rice Dofs. Conserved microsynteny was observed between physic nut and castor Dof-coding scaffolds, which allowed anchoring of 23 RcDof genes to nine physic nut chromosomes. In contrast to how no recent duplicate was present in castor, two tandem duplications and one gene loss were found in the Dof gene family of physic nut. Global transcriptome profiling revealed diverse patterns of Jc/RcDof genes over various tissues, and key Dof genes involved in flower development and stress response were also identified in physic nut. These findings provide valuable information for further studies of Dof genes in physic nut and castor.
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影响因子：
48
作者：
Langmead, Ben;Salzberg, Steven L.
通讯作者：
Salzberg, Steven L.
麻风树水通道蛋白基因的全基因组鉴定和比较分析为巴西橡胶树基因家族的扩展和进化提供了见解
影响因子：
5.6
作者：
Zou Z;Yang L;Gong J;Mo Y;Wang J;Cao J;An F;Xie G
通讯作者：
Xie G
影响因子：
9.2
作者：
Negi, Juntaro;Moriwaki, Kosuke;Konishi, Mineko;Yokoyama, Ryusuke;Nakano, Toshiaki;Kusumi, Kensuke;Hashimoto-Sugimoto, Mimi;Schroeder, Julian I.;Nishitani, Kazuhiko;Yanagisawa, Shuichi;Iba, Koh
通讯作者：
Iba, Koh
影响因子：
7
作者：
Qian W;Zhang J
通讯作者：
Zhang J
影响因子：
8.7
作者：
da Silva, Danielle Costenaro;Falavigna, Vitor da Silveira;Fasoli, Marianna;Buffon, Vanessa;Porto, Diogo Denardi;Pappas, Georgios Joannis, Jr.;Pezzotti, Mario;Pasquali, Giancarlo;Revers, Luis Fernando
通讯作者：
Revers, Luis Fernando