Comparing Potential COI and SSU rDNA Barcodes for Assessing the Diversity and Phylogenetic Relationships of Cyphoderiid Testate Amoebae (Rhizaria: Euglyphida)
Comparing Potential COI and SSU rDNA Barcodes for Assessing the Diversity and Phylogenetic Relationships of Cyphoderiid Testate Amoebae (Rhizaria: Euglyphida)
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DOI：
10.1016/j.protis.2010.05.002
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发表时间：
2011-01-01
期刊：
影响因子：
2.5
通讯作者：
Mitchell, Edward A. D.
中科院分区：
文献类型：
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作者：
Heger, Thierry J.;Pawlowski, Jan;Mitchell, Edward A. D.
线粒体细胞色素氧化酶亚基1基因（COI）已被推广为动物物种和其他真核生物群体的理想“DNA条形码”。然而，COI标记的物种水平的歧视和系统发育分析的效用还有待测试内的根瘤菌。因此，我们分析了线粒体COI基因序列和核小亚基rDNA（SSU）序列从几个形态种的裸蚜有壳变形虫（尾虫，Rhizaria），以评估这些DNA标记的实用程序的物种歧视和系统发育重建。从11个种群属于6 Cyphoderia morphospecies，从北美和欧洲的现场样品中分离得到的序列。平均种群间COI序列差异平均为SSU的2.9倍，而种群内序列差异在SSU（0-0.95%）中高于COI（0%）;这表明COI片段对区分Cyphoderiidae分离株有价值。我们的研究还表明，COI序列是有用的推断Cyphoderiidae菌株之间的系统发育关系。COI和SSU树拓扑结构非常相似，即使在这些分析中使用的COI片段（500 bp）比SSU序列（1600 bp）短得多。总而言之，这些结果表明，作为一个潜在的分类学DNA条形码评估cyphoderid物种多样性和推断组内的系统发育关系的COI的效用。(C)2010年Elsevier GmbH。All rights reserved.
The mitochondrial Cytochrome Oxidase Subunit 1 gene (COI) has been promoted as an ideal "DNA barcode" for animal species and other groups of eukaryotes. However, the utility of the COI marker for species level discrimination and for phylogenetic analyses has yet to be tested within the Rhizaria. Accordingly, we analysed mitochondrial COI gene sequences and nuclear small subunit rDNA (SSU) sequences from several morphospecies of euglyphid testate amoebae (Cercozoa, Rhizaria) in order to evaluate the utility of these DNA markers for species discrimination and phylogenetic reconstructions. Sequences were obtained from eleven populations belonging to six Cyphoderia morphospecies that were isolated from field samples in North America and Europe. Mean inter-population COI sequence dissimilarities were on average 2.9 times greater than in the SSU, while the intra-population sequence dissimilarities were higher in the SSU (0-0.95%) than in the COI (0%); this suggests that the COI fragment is valuable for discriminating Cyphoderiidae isolates. Our study also demonstrated that COI sequences are useful for inferring phylogenetic relationships among Cyphoderiidae isolates. COI and SSU tree topologies were very similar even though the COI fragment used in these analyses (500 bp) was much shorter than the SSU sequences (1600 bp). Altogether, these results demonstrate the utility of the COI as a potential taxonomic DNA barcode for assessing cyphoderiid species diversity and for inferring phylogenetic relationships within the group. (C) 2010 Elsevier GmbH. All rights reserved.