Evolutionary implications of intron-exon distribution and the properties and sequences of the RPL10A gene in eukaryotes
Evolutionary implications of intron-exon distribution and the properties and sequences of the RPL10A gene in eukaryotes
复制标题
DOI：
10.1016/j.ympev.2012.11.013
复制
发表时间：
2013-03-01
影响因子：
4.1
通讯作者：
Barreno, Eva
中科院分区：
文献类型：
--
作者：
del Campo, Eva M.;Casano, Leonardo M.;Barreno, Eva
RPL 10A基因编码RPL 10蛋白，该蛋白是将40 S和60 S亚基连接成功能性80 S核糖体所需的。这种高度保守的基因，普遍存在于所有真核生物的超组，其特征在于可变数目的剪接体内含子，存在于大多数生物体中。这些特性有利于远缘类群之间的直系同源物的识别，从而比较序列的研究，以及在分类学上远缘真核生物群中内含子的分布和性质。本研究探讨了RPL 10A保守性与基因序列变化在进化过程中的多种方式，包括外显子，内含子和编码的蛋白质，可用于不同分类学水平的进化分析。在不同的分类群，包括动物，植物，真菌，和肺泡内的RPL 10A基因的至少25个不同的位置窝藏内含子确定。一般来说，内含子的位置被发现是很好的保守，即使在不同的王国。然而，某些内含子似乎仅限于特定的生物群体。内含子的几个属性，包括插入位点，相位和长度，沿着与外显子和内含子的GC含量和外显子-内含子边界的分析，表明在不同的生物群体的偏见。利用标准引物对绿藻门12个属的绿色藻类RPL 10 A基因的一部分内含子序列进行了分析，为中低分类水平内含子的进化分析提供了一个案例。我们的研究表明，在不同深度的系统发育重建可以实现使用RPL 10A的外显子和内含子的核苷酸序列，以及编码的蛋白质的氨基酸序列。(C)2012 Elsevier Inc. All rights reserved.
The RPL10A gene encodes the RPL10 protein, required for joining 40S and 60S subunits into a functional 80S ribosome. This highly conserved gene, ubiquitous across all eukaryotic super-groups, is characterized by a variable number of spliceosomal introns, present in most organisms. These properties facilitate the recognition of orthologs among distant taxa and thus comparative studies of sequences as well as the distribution and properties of introns in taxonomically distant groups of eukaryotes. The present study examined the multiple ways in which RPL10A conservation vs. sequence changes in the gene over the course of evolution, including in exons, introns, and the encoded proteins, can be exploited for evolutionary analysis at different taxonomic levels. At least 25 different positions harboring introns within the RPL10A gene were determined in different taxa, including animals, plants, fungi, and alveolates. Generally, intron positions were found to be well conserved even across different kingdoms. However, certain introns seemed to be restricted to specific groups of organisms. Analyses of several properties of introns, including insertion site, phase, and length, along with exon and intron GC content and exon-intron boundaries, suggested biases within different groups of organisms. The use of a standard primer pair to analyze a portion of the intron-containing RPL10A gene in 12 genera of green algae within Chlorophyta is presented as a case study for evolutionary analyses of introns at intermediate and low taxonomic levels. Our study shows that phylogenetic reconstructions at different depths can be achieved using RPL10A nucleotide sequences from both exons and introns as well as the amino acid sequences of the encoded protein. (C) 2012 Elsevier Inc. All rights reserved.