Characterization of the definitive classical calpain family of vertebrates using phylogenetic, evolutionary and expression analyses.
Characterization of the definitive classical calpain family of vertebrates using phylogenetic, evolutionary and expression analyses.
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使用系统发育，进化和表达分析的确定性经典钙蛋白酶家族的表征。
DOI：
10.1098/rsob.130219
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发表时间：
2014-04-09
期刊：
影响因子：
5.8
通讯作者：
Wilcox AH
中科院分区：
文献类型：
--
作者：
Macqueen DJ;Wilcox AH
钙蛋白酶是与人类健康和福利广泛相关的蛋白酶超家族。大量的研究关注脊椎动物的“经典”亚科，令人惊讶的是，这些基因的进化起源，分布和关系的特点很差。因此，存在着不确定性的保护基因家族的结构，功能和表达，已主要从工作与哺乳动物定义。在这里，超过200种脊椎动物的经典钙蛋白酶被纳入系统发育分析，涵盖了前所未有的类群，包括无颌和软骨鱼。我们证明，共同的脊椎动物祖先至少有六个经典的钙蛋白酶，包括一个单一的基因，引起CAPN11，1，2和8在早期的有颌鱼类血统，加上CAPN3，9，12，13和一个新的钙蛋白酶基因，下文命名为CAPN17。我们发现，虽然所有的脊椎动物的经典钙蛋白酶已受到持续的净化选择在进化过程中，选择压力的程度和性质往往是依赖于血统。在代表性硬骨鱼、两栖动物、爬行动物和哺乳动物中评估完整的经典钙蛋白酶家族的组织表达。这突出了在脊椎动物类群中表达的系统性差异，其中来自鱼类和两栖动物的大多数经典钙蛋白酶基因具有比脊椎动物更广泛的组织分布。我们的数据表明，经典的钙蛋白酶功能经常在脊椎动物进化过程中出现分歧，并挑战了现有的钙蛋白酶表达分类系统的价值。
The calpains are a superfamily of proteases with extensive relevance to human health and welfare. Vast research attention is given to the vertebrate ‘classical’ subfamily, making it surprising that the evolutionary origins, distribution and relationships of these genes is poorly characterized. Consequently, there exists uncertainty about the conservation of gene family structure, function and expression that has been principally defined from work with mammals. Here, more than 200 vertebrate classical calpains were incorporated in phylogenetic analyses spanning an unprecedented range of taxa, including jawless and cartilaginous fish. We demonstrate that the common vertebrate ancestor had at least six classical calpains, including a single gene that gave rise to CAPN11, 1, 2 and 8 in the early jawed fish lineage, plus CAPN3, 9, 12, 13 and a novel calpain gene, hereafter named CAPN17. We reveal that while all vertebrate classical calpains have been subject to persistent purifying selection during evolution, the degree and nature of selective pressure has often been lineage-dependent. The tissue expression of the complete classic calpain family was assessed in representative teleost fish, amphibians, reptiles and mammals. This highlighted systematic divergence in expression across vertebrate taxa, with most classic calpain genes from fish and amphibians having more extensive tissue distribution than in amniotes. Our data suggest that classical calpain functions have frequently diverged during vertebrate evolution and challenge the ongoing value of the established system of classifying calpains by expression.
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DOI：
10.1093/bioinformatics/8.3.275
发表时间：
1992-06-01
期刊：
COMPUTER APPLICATIONS IN THE BIOSCIENCES
影响因子：
--
作者：
JONES, DT;TAYLOR, WR;THORNTON, JM
通讯作者：
THORNTON, JM
影响因子：
2.5
作者：
Lepage, Stephanie E.;Bruce, Ashley E. E.
通讯作者：
Bruce, Ashley E. E.
影响因子：
14.9
作者：
Dereeper A;Guignon V;Blanc G;Audic S;Buffet S;Chevenet F;Dufayard JF;Guindon S;Lefort V;Lescot M;Claverie JM;Gascuel O
通讯作者：
Gascuel O
影响因子：
9.8
作者：
Drummond AJ;Ho SY;Phillips MJ;Rambaut A
通讯作者：
Rambaut A
影响因子：
10.7
作者：
Katoh K;Standley DM
通讯作者：
Standley DM