Genomic organization and transcripts of the zebrafish Protocadherin genes
Genomic organization and transcripts of the zebrafish Protocadherin genes
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DOI：
10.1016/j.gene.2004.07.014
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发表时间：
2004-10-13
期刊：
影响因子：
3.5
通讯作者：
Yagi, T
中科院分区：
文献类型：
--
作者：
Tada, MN;Senzaki, K;Yagi, T
我们研究了斑马鱼（Danio rerio）的原钙粘蛋白（Pcdh）基因簇。在斑马鱼基因组中发现了至少三组Pcdh基因簇。在这里，我们描述了完整的组织的DrPcdh 2基因簇。通过系统发育和转录本分析的分类揭示了7个DrPcdh 2，20个DrPcdh 2 α a，12个DrPcdh 2 α b和1个DrPcdh 2 α c可变外显子上游的DrPcdh 2 α恒定区外显子在DrPcdh 2基因簇中。斑马鱼的DrPcdh1alpha和DrPcdh2alpha基因的恒定区是哺乳动物Pcdhalpha基因的直向同源物。这些外显子在胞质尾区均编码多个PXXP基序。可变外显子的序列在每个家族中高度保守：DrPcdh2、DrPcdh2alphaa和DrPcdh2alphab。转录分析显示，斑马鱼Pcdhs在恒定区有选择性剪接变异体，这在哺乳动物中没有发现。在斑马鱼中发现了比哺乳动物更多的基因簇、更多的可变外显子和更多的选择性剪接变体。因此，虽然Pcdhalpha家庭是常见的不同的脊椎动物，其基因的数量，结构和转录本之间的硬骨鱼和哺乳动物是不同的。(C)2004 Elsevier B.V.保留所有权利。
We have examined the protocadherin (Pcdh) gene clusters of the zebrafish (Danio rerio). At least three sets of the Pcdh gene cluster were found in the zebrafish genome. Here, we describe the complete organization of the DrPcdh2 gene clusters. Classification by phylogenetic and transcript analyses revealed 7 DrPcdh2, 20 DrPcdh2alphaa, 12 DrPcdh2alphab, and 1 DrPcdh2alphac variable exons upstream of the DrPcdh2alpha constant region exons in the DrPcdh2 gene cluster. The constant regions of the DrPcdh1alpha and DrPcdh2alpha genes in zebrafish were orthologs of those of the mammalian Pcdhalpha. These exons all encoded plural PXXP motifs in their cytoplasmic tails. The sequences of the variable exons were highly conserved within each family: DrPcdh2, DrPcdh2alphaa, and DrPcdh2alphab. Transcript analysis revealed that zebrafish Pcdhs had alternatively spliced variants in the constant region that were not found in mammals. More gene clusters, more variable exons, and more alternative splicing variants were found in zebrafish than in mammals. Thus, although the Pcdhalpha families were common to diverse vertebrates, their gene number, structure, and transcripts were different between teleosts and mammals. (C) 2004 Elsevier B.V. All rights reserved.