Genomic analysis of the TRIM family reveals two groups of genes with distinct evolutionary properties.
Genomic analysis of the TRIM family reveals two groups of genes with distinct evolutionary properties.
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DOI：
10.1186/1471-2148-8-225
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发表时间：
2008-08-01
影响因子：
3.4
通讯作者：
Meroni G
中科院分区：
文献类型：
--
作者：
Sardiello M;Cairo S;Fontanella B;Ballabio A;Meroni G
TRIM家族由多结构域蛋白组成，其显示可以与C-末端结构域相关联的三分基序（RING、B-box和卷曲螺旋）。TRIM基因参与泛素化，并与从孟德尔遗传性疾病到癌症的多种人类病理学有关，还参与对病毒感染的细胞应答。在这里，我们定义了整个人类TRIM家族，并确定了其他脊椎动物（小鼠，大鼠，狗，牛，鸡，tetraodon和斑马鱼）和无脊椎动物物种（果蝇，蠕虫和ciona）的TRIM集。通过比较分析，我们发现，组装后的三方基序在早期后生动物的祖先，几种类型的C-末端结构域已与此模块在进化过程中，并在脊椎动物物种中发生的TRIM数量的重要增加伴随着SPRY结构域的加入。我们发现，人类TRIM家族分为两组，不同的结构域结构，基因组组织和进化特性。组1成员呈现多种C-末端结构域，在脊椎动物物种中高度保守，并且在无脊椎动物中有代表性。相反，第2组在无脊椎动物中不存在，其特征在于存在C-末端SPRY结构域，并且在所检查的每种哺乳动物中呈现独特的基因组。第2组基因的独立组的产生在其他脊椎动物物种中也是明显的。比较小鼠和人类TRIM集，我们发现，第1组和第2组基因以不同的速度进化，并受到不同的选择压力。我们发现TRIM家族由两组具有不同进化特性的基因组成。组2是年轻的，高度动态的，并可能作为一个水库，开发新的TRIM功能。由于一些第2组基因与先天免疫反应有关，因此它们的进化特征可能解释了针对病毒感染的物种特异性斗争。
The TRIM family is composed of multi-domain proteins that display the Tripartite Motif (RING, B-box and Coiled-coil) that can be associated with a C-terminal domain. TRIM genes are involved in ubiquitylation and are implicated in a variety of human pathologies, from Mendelian inherited disorders to cancer, and are also involved in cellular response to viral infection. Here we defined the entire human TRIM family and also identified the TRIM sets of other vertebrate (mouse, rat, dog, cow, chicken, tetraodon, and zebrafish) and invertebrate species (fruitfly, worm, and ciona). By means of comparative analyses we found that, after assembly of the tripartite motif in an early metazoan ancestor, few types of C-terminal domains have been associated with this module during evolution and that an important increase in TRIM number occurred in vertebrate species concomitantly with the addition of the SPRY domain. We showed that the human TRIM family is split into two groups that differ in domain structure, genomic organization and evolutionary properties. Group 1 members present a variety of C-terminal domains, are highly conserved among vertebrate species, and are represented in invertebrates. Conversely, group 2 is absent in invertebrates, is characterized by the presence of a C-terminal SPRY domain and presents unique sets of genes in each mammal examined. The generation of independent sets of group 2 genes is also evident in the other vertebrate species. Comparing the murine and human TRIM sets, we found that group 1 and 2 genes evolve at different speeds and are subject to different selective pressures. We found that the TRIM family is composed of two groups of genes with distinct evolutionary properties. Group 2 is younger, highly dynamic, and might act as a reservoir to develop novel TRIM functions. Since some group 2 genes are implicated in innate immune response, their evolutionary features may account for species-specific battles against viral infection.
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影响因子：
3.7
作者：
Li W;Bengtson MH;Ulbrich A;Matsuda A;Reddy VA;Orth A;Chanda SK;Batalov S;Joazeiro CA
通讯作者：
Joazeiro CA
DOI：
10.1073/pnas.0600158103
发表时间：
2006-04-18
影响因子：
11.1
作者：
Chiang, AP;Beck, JS;Sheffield, VC
通讯作者：
Sheffield, VC
影响因子：
--
作者：
HARLEY, JB;ALEXANDER, EL;ARNETT, FC
通讯作者：
ARNETT, FC
影响因子：
9.2
作者：
Freemont, PS
通讯作者：
Freemont, PS
DOI：
10.1006/bbrc.1997.6751
发表时间：
1997-06-09
影响因子：
3.1
作者：
Henry, J;Ribouchon, MT;Pontarotti, P
通讯作者：
Pontarotti, P