Molecular homology assessment and phylogeny in the lizard family opluridae (Squamata: Iguania).
Molecular homology assessment and phylogeny in the lizard family opluridae (Squamata: Iguania).
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蜥蜴科（Squamata：Iguania）的分子同源性评估和系统发育。
DOI：
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发表时间：
1996
影响因子：
4.1
通讯作者：
D. Frost
中科院分区：
文献类型：
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作者：
T. Titus;D. Frost
研究了利用二级结构对蜥蜴科线粒体12S核糖体RNA和缬氨酸转移RNA基因的多重比对和系统发育重建的影响。计算机生成的多重对齐在使用缺口成本1-10的情况下进行，包括参考和不参考二级结构。在没有二级结构的情况下进行的比对导致一些茎的位置同源性在所有间隙成本中被破坏。不对准阀杆位置的数量随着间隙成本的增加而增加。对无二级结构的多组比对进行系统发育分析，得到了一个具有5个间隙成本的形态树，这是仅有1个间隙成本时最节省的树。计算机生成的利用二级结构来维持茎中位置同源性的多重比对恢复了所有间隙成本的形态树，这是10个间隙成本中8个最节省的树。结合形态学和分子数据产生了一个最简约的oplurid树，该树与形态学树在所有间隙成本上一致。Chalaradon magcariensis是Oplurus的姐妹分类群，Oplurus本身包含两个分支：一个是树栖Oplurus cuvieri和Oplurus cyclurus，另一个是沙栖Oplurus gridieri， Oplurus fierinensis， Oplurus quadrimaculatus和Oplurus saxicola。
The effect of utilizing secondary structure on multiple alignment and phylogeny reconstruction was examined for the mitochondrial 12S ribosomal RNA and valine transfer RNA genes in the lizard family Opluridae. Computer-generated multiple alignments were performed under parsimony using gap costs of 1-10 both with and without reference to secondary structure. Alignments performed without secondary structure resulted in disruption of positional homology in some stems at all gap costs. Number of misaligned stem positions increased with gap cost. Phylogenetic analyses of multiple alignments without secondary structure recovered a well-supported morphological tree for five gap costs, and this was the single most parsimonious tree only for a gap cost of 1. Computer-generated multiple alignments using secondary structure to maintain positional homologs in stems recovered the morphological tree over all gap costs, and this was the single most parsimonious tree for 8 of 10 gap costs. The combined morphological and molecular data produced a single most parsimonious oplurid tree that was congruent with the morphological tree over all gap costs. Chalaradon madagascariensis is the sister taxon of Oplurus, which itself contains two clades: one with the arboreal Oplurus cuvieri and Oplurus cyclurus and the other with the saxicolous Oplurus grandidieri, Oplurus fierinensis, Oplurus quadrimaculatus, and Oplurus saxicola.