The phylogenetic utility of the nuclear protein-coding gene EF-1α for resolving recent divergences in Opiliones, emphasizing intron evolution
The phylogenetic utility of the nuclear protein-coding gene EF-1α for resolving recent divergences in Opiliones, emphasizing intron evolution
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核蛋白编码基因 EF-1α 的系统发育实用性可解决阿皮利酮近期的分歧，强调内含子进化
DOI：
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发表时间：
2010
期刊：
影响因子：
--
通讯作者：
J. Shultz
中科院分区：
文献类型：
--
作者：
M. Hedin;Shahan Derkarabetian;Maureen McCormack;C. Richart;J. Shultz
我们的重点是设计针对核蛋白编码基因延伸因子-1α (EF-1α)的内含子和外显子的收获特异性PCR引物。我们在代表蛇毛属所有主要谱系的10个属上测试了该引物集，包括近系统发育亲属组（即几个同系物组），以专门评估浅层系统发育水平的效用。我们的研究还包括收集同源组的平行线粒体蛋白质编码DNA序列数据集，以比较EF-1α与线粒体数据的相对进化率和基因树一致性。收割机引物成功扩增了十个被测属中的九个。这9个属的外显子序列与先前报道的用RT-PCR方法生成的EF-1α Opiliones序列同源。新产生的外显子序列被三个独立的剪接体内含子打断；两个内含子局限于一个或两个属，但第三个内含子在所有调查属的位置上是保守的。同源组EF-1α核苷酸数据的系统发育分析结果表明，基因树通常与线粒体基因树一致，EF-1α系统发育信号来自内含子和外显子位点，并解决了明显的近期分歧（例如，最近的100万年前）。总的来说，基因同源性、保守的内含子位置和基因树在浅层水平上的一致性表明，该基因区域将被证明在系统地理和物种水平的系统发育分析中都是有用的，补充了已经记录的在更高分类水平上的效用。
Abstract Our focus was to design harvestmen-specific PCR primers to target both introns and exons of the nuclear protein-coding gene Elongation Factor -1 alpha (EF-1α). We tested this primer set on ten genera representing all primary lineages of Opiliones, with sets of close phylogenetic relatives (i.e., sets of several congeners) included to specifically assess utility at shallow phylogenetic levels. Our research also included the collection of parallel mitochondrial protein-coding DNA sequence datasets for the congeneric sets to compare relative rates of evolution and gene tree congruence for EF-1α versus mitochondrial data. The harvestmen primers resulted in successful amplification for nine of ten tested genera. Exon sequences for these nine genera appear orthologous to previously-reported EF-1α Opiliones sequences, which were generated using RT-PCR methods. Newly-generated exon sequences are interrupted by three separate spliceosomal introns; two introns are restricted to one or two genera, but a third intron is conserved in position across all surveyed genera. Phylogenetic analyses of EF-1α nucleotide data for congeneric sets result in gene trees that are generally congruent with mitochondrial gene trees, with EF-1α phylogenetic signal coming from both intron and exon sites, and resolving apparently recent divergences (e.g., as recent as one million years ago). Overall, the combination of gene orthology, conserved intron position, and gene tree congruence at shallow levels suggest that this gene region will prove generally useful for both phylogeographic and species-level phylogenetic analyses in Opiliones, complementing already-documented utility at higher taxonomic levels.
测试 Dicamptodon copei 和 Dicamptodon aterrimus（有尾目：Dicamptodontidae）的物种形成时间假设。
DOI：
10.1016/j.ympev.2004.12.001
发表时间：
2005
期刊：
Molecular phylogenetics and evolution.
影响因子：
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作者：
Steele,CraigA;Carstens,BryanC;Storfer,Andrew;Sullivan,Jack
通讯作者：
Sullivan,Jack
影响因子：
14.9
作者：
MOUNT, SM;BURKS, C;FIELDS, C
通讯作者：
FIELDS, C