Genome-wide analysis of the auxin response factors (ARF) gene family in rice (Oryza sativa)
Genome-wide analysis of the auxin response factors (ARF) gene family in rice (Oryza sativa)
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水稻生长素反应因子 (ARF) 基因家族的全基因组分析（Oryza sativa）
DOI：
10.1016/j.gene.2007.01.006
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发表时间：
2007-06-01
期刊：
影响因子：
3.5
通讯作者：
Tao, Yuezhi
中科院分区：
文献类型：
--
作者：
Wang, Dekai;Pei, Kemei;Tao, Yuezhi
生长素反应因子（ARF）是一类转录因子，其特异性结合存在于初级/早期生长素反应基因启动子中的含TGTCTC的生长素反应元件（AGREs），并介导对植物激素生长素的反应。ARF基因在植物中以一个大的多基因家族为代表。在这项研究中进行了全面的全基因组分析，以找到所有的ARF在拟南芥（拟南芥）和水稻（水稻亚种）。在日本粳稻中，分别鉴定出23个和25个ARF基因，命名为AtARF和OsARF。所有OsARFs的染色体定位，发现OsARFs的重复只与染色体块重复，而不是局部串联重复。通过对25个OsARF和23个AtARF的全长蛋白质序列进行比对，构建系统发育树，分析水稻和拟南芥ARF蛋白的系统发育关系。所有48个ARF基因家族成员可分为3大类，共形成13对姐妹对，包括9对OsARF-OsARF、2对AtARF-AtARF和2对AtARF-OsARF姐妹对，表明AtARF和OsARF之间存在不同的亲缘关系。EST分析和RT-PCR检测结果表明，25个OsARF基因中有24个具有活性，部分OsARF基因的转录丰度受生长素处理或光照和黑暗生长条件的影响。本研究结果为水稻ARF基因家族提供了基本的基因组信息，并为阐明OsARF在植物生长发育中的确切作用奠定了基础。(C)2007 Elsevier B. V.保留所有权利。
Auxin response factors (ARFs) are transcription factors that bind with specificity to TGTCTC-containing auxin response elements (AuxREs) found in promoters of primary/early auxin response genes and mediate responses to the plant hormone auxin. The ARF genes are represented by a large multigene family in plants. A comprehensive genome-wide analysis was carried out in this study to find all ARFs in Arabidopsis (Arabidopsis thaliana) and rice (Oryza sativa subsp. japonica), 23 and 25 ARF genes, named as AtARFs and OsARFs, were identified, respectively. Chromosomal locations of all OsARFs were presented and it was found that the duplication of OsARFs was associated with only the chromosomal block duplications but not local tandem duplications. A phylogenetic tree was generated from alignments of the full-length protein sequences of 25 OsARFs and 23 AtARFs to examine the phylogenetic relationships of rice and Arabidopsis ARF proteins. All 48 members of ARF gene families fell into three major classes, a total of 13 sister pairs, including 9 OsARF-OsARF, 2 AtARF AtARF and 2 AtARF-OsARF sister pairs were formed, showing different orthologous relationships between AtARFs and OsARFs. EST analysis and RT-PCR assays demonstrated that 24 of all 25 OsARF genes were active and the transcript abundance of some OsARF genes was affected by auxin treatment or light- and dark-grown conditions. The outcome of the present study provides basic genomic information for the rice ARF gene family and will pave the way for elucidating the precise role of OsARFs in plant growth and development in the future. (C) 2007 Elsevier B.V. All rights reserved.