Genome-wide analysis of the RING finger gene family in apple
Genome-wide analysis of the RING finger gene family in apple
复制标题
苹果环指基因家族的全基因组分析
DOI：
10.1007/s00438-011-0625-0
复制
发表时间：
2011-07-01
影响因子：
3.1
通讯作者：
Zheng, Chengchao
中科院分区：
文献类型：
--
作者：
Li, Yanze;Wu, Bingjiang;Zheng, Chengchao
环指蛋白家族在植物的生长发育以及对生物和非生物胁迫的响应中起着至关重要的作用。然而，由于有关苹果全基因组序列的信息有限，目前还没有关于该家族的详细信息。在本研究中，我们在苹果中鉴定了663个预测蛋白中的688个环状结构域。根据金属配体之间的间距或一个或多个金属配体位置上的取代位，共鉴定出9种环型：环-H2、环-HC、环-C2、环-V、环-D、环-S/T、环-G、环-MH2和环-MHC，其中前7种类型在拟南芥中已被描述，后两种类型在苹果中为新发现。根据环状结构域外已知或未知结构域的不同，将含有环指结构域的蛋白质进一步划分为57个类群。总共643个回收的蛋白质似乎以不同的密度分布在所有17个连锁基上。基因芯片和表达序列标签数据显示，这些环指蛋白中只有几个可能与果实发育有关。作为苹果含环基因全基因组分析的第一步，我们的结果为了解高等植物中环指基因家族的分类和可能的功能提供了有价值的信息。
The RING finger protein family plays a crucial role in plant growth and development and in response to biotic and abiotic stresses. However, no detailed information concerning this family is available for apple (Malus x domestica L. Borkh) due to the limited information on whole genome sequences. In this study, 688 RING domains in 663 predicted proteins were identified in apple. Based on the spacing between metal ligands or substitutions at one or more of the metal ligand positions, nine RING types were identified: RING-H2, RING-HC, RING-C2, RING-v, RING-D, RING-S/T, RING-G, RING-mH2, and RING-mHC, in which the first seven types were described previously in Arabidopsis, while the latter two were newly identified in apple. Proteins containing RING finger motifs were further classified into 57 groups according to the different known or unknown domains outside the RING domains. A total of 643 retrieved proteins appear to be distributed over all 17 linkage groups with different densities. Microarray and expressed sequence tag data revealed that only a few of these RING finger proteins may be involved in fruit development. As a first step towards genome-wide analyses of the RING-containing genes in apple, our results provide valuable information for understanding the classification and putative functions of the RING finger gene family in higher plants.