Diversification pattern of the HMG and SOX family members during evolution
Diversification pattern of the HMG and SOX family members during evolution
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DOI：
10.1007/pl00006495
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发表时间：
1999-05-01
影响因子：
3.9
通讯作者：
Laudet, V
中科院分区：
文献类型：
--
作者：
Soullier, S;Jay, P;Laudet, V
从一个数据库中包含已公布的HMG蛋白质序列，我们构建了一个基于序列同一性的HMG盒功能结构域的比对。由于大量的序列（超过250个）和该结构域的短尺寸，使用了几个数据集。该分析表明，HMG盒超家族可以分为两个明确定义的亚家族：（i）SOX/MATA/TCF家族，其聚集能够结合特异性DNA序列的蛋白质;和（ii）HMG/UBF家族，其聚集非特异性结合DNA的成员。这些亚家族的出现和多样化在很大程度上早于酵母和后生动物谱系之间的分裂。特别强调了SOX亚家族的分析。我们的分析第一次清楚地确定了SOX亚家族的结构，分为六组基因，分别命名为SOX 5/6、SRY、SOX 2/3、SOX 14、SOX 4/22和SOX 9/18。这些基因簇的有效性通过它们的功能特征和它们在HMG盒之外的序列来证实。与之形成鲜明对比的是，UBF/HMG家族内部只有少数几个强大的分支模式，这可能是因为这个家族的多元化比SOX家族的多元化要古老得多。通过我们的分析可以检测到的唯一一致的组是HMG盒1、脊椎动物HMG盒2、昆虫SSRP和植物HMG。各种UBF盒不能聚集在一起，它们的多样化似乎是非常古老的，可能在后生动物出现之前。
From a database containing the published HMG protein sequences, we constructed an alignment of the HMG box functional domain based on sequence identity. Due to the large number of sequences (more than 250) and the short size of this domain, several data sets were used. This analysis reveals that the HMG box superfamily can be separated into two clearly defined subfamilies: (i) the SOX/MATA/TCF family, which clusters proteins able to bind to specific DNA sequences; and (ii) the HMG/UBF family, which clusters members which bind non specifically to DNA, The appearance and diversification of these subfamilies largely predate the split between the yeast and the metazoan lineages. Particular emphasis was placed on the analysis of the SOX subfamily. For the first time our analysis clearly identified the SOX subfamily as structured in six groups of genes named SOX5/6, SRY, SOX2/3, SOX14, SOX4/22, and SOX9/18. The validity of these gene clusters is confirmed by their functional characteristics and their sequences outside the HMG box. In sharp contrast, there are only a few robust branching patterns inside the UBF/HMG family, probably because of the much more ancient diversification of this family than the diversification of the SOX family. The only consistent groups that can be detected by our analysis are HMG box 1, vertebrate HMG box 2, insect SSRP, and plant HMG. The various UBF boxes cannot be clustered together and their diversification appears to be extremely ancient, probably before the appearance of metazoans.