The phytocyanin gene family in rice (Oryza sativa L.): genome-wide identification, classification and transcriptional analysis.
The phytocyanin gene family in rice (Oryza sativa L.): genome-wide identification, classification and transcriptional analysis.
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水稻植物青素基因家族（Oryza sativa L.）：全基因组鉴定、分类和转录分析
DOI：
10.1371/journal.pone.0025184
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发表时间：
2011
期刊：
影响因子：
3.7
通讯作者：
Zhao J
中科院分区：
文献类型：
--
作者：
Ma H;Zhao H;Liu Z;Zhao J
植物花青素（Phytocyanins, PCs）是一种参与电子传递的植物特异性蓝铜蛋白，已知的大量PCs被认为是嵌合阿拉伯半乳聚糖蛋白（chimeric arabinogalactan protein, AGPs）。迄今为止，还没有一个全基因组的OsPC基因家族的概述。因此，作为阐明OsPCs功能的第一步和有效策略，迫切需要对该基因家族进行全面的全基因组分析。本研究通过对水稻（Oryza sativa L.）基因组的综合生物信息学分析，共鉴定出62个OsPC基因。根据系统发育和基序结构，将OsPCs家族分为3个亚类：uclacyanin-like protein （OsUCLs）、stellacyanin-like protein （OsSCLs）和早期结节样蛋白（OsENODLs）。结构和糖基化预测表明，46个OsPCs为糖基磷脂酰肌醇锚定蛋白，38个OsPCs为嵌合AGPs。基因重复分析表明，染色体片段重复和串联重复对该基因家族的扩展贡献几乎相等，复制事件主要发生在OsUCL亚家族中。分析了OsPC基因在营养发育和生殖发育不同阶段以及非生物胁迫下的表达谱。结果表明，OsPC基因在发育的各个阶段均有大量的表达。此外，17个基因在非生物胁迫下受到调控。结论/意义OsPC基因的全基因组鉴定和表达分析将有助于对该基因家族的研究，并为阐明其在高等植物中的功能提供新的思路。
Background Phytocyanins (PCs) are plant-specific blue copper proteins involved in electron transport, and a large number of known PCs are considered to be chimeric arabinogalactan proteins (AGPs). To date there has not been a genome-wide overview of the OsPC gene family. Therefore, as the first step and a useful strategy to elucidate the functions of OsPCs, there is an urgent need for a thorough genome-wide analysis of this gene family. Methodology/Principal Findings In this study, a total of 62 OsPC genes were identified through a comprehensive bioinformatics analysis of the rice (Oryza sativa L.) genome. Based on phylogeny and motif constitution, the family of OsPCs was classified into three subclasses: uclacyanin-like proteins (OsUCLs), stellacyanin-like proteins (OsSCLs) and early nodulin-like proteins (OsENODLs). Structure and glycosylation prediction indicated that 46 OsPCs were glycosylphosphatigylinositol-anchored proteins and 38 OsPCs were chimeric AGPs. Gene duplication analysis revealed that chromosomal segment and tandem duplications contributed almost equally to the expansion of this gene family, and duplication events were mostly happened in the OsUCL subfamily. The expression profiles of OsPC genes were analyzed at different stages of vegetative and reproductive development and under abiotic stresses. It revealed that a large number of OsPC genes were abundantly expressed in the various stages of development. Moreover, 17 genes were regulated under the treatments of abiotic stresses. Conclusions/Significance The genome-wide identification and expression analysis of OsPC genes should facilitate research in this gene family and give new insights toward elucidating their functions in higher plants.