Complete mitochondrial genomes reveal robust phylogenetic signals and evidence of positive selection in horseshoe bats.
Complete mitochondrial genomes reveal robust phylogenetic signals and evidence of positive selection in horseshoe bats.
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完整的线粒体基因组揭示了马蹄蝠强大的系统发育信号和正选择的证据
DOI：
10.1186/s12862-021-01926-2
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发表时间：
2021-11-03
影响因子：
2.2
通讯作者：
Feng J
中科院分区：
文献类型：
--
作者：
Zhang L;Sun K;Csorba G;Hughes AC;Jin L;Xiao Y;Feng J
研究背景菊头蝠属Rhinolophus philippinensis和R.巨形组的独特之处在于，与其他体型相似的马蹄形蝙蝠相比，这些组中的马蹄形蝙蝠具有相对较低的回声定位频率和飞行速度。蝙蝠物种之间的不同特征表明，在这个属中可能发生了特定的进化过程。为了研究自适应的证据在线粒体基因组（mitogenomes）中的的tagolophids，特别是低回声定位频率的物种的mitogenomes，我们测序了8个mitogenomes，并使用它们的比较研究的分子生物学和适应evolution.ResultsSystemogenetic分析使用整个mitogenomes序列产生强大的结果，并提供系统发育的信号，比那些使用单基因。这一结果支持了最近建立的分离型肌群。对在菊头蝠中发现的适应性进化信号进行了检测，以确定编码氧化磷酸化系统复合物I中NADH脱氢酶的两个基因（ND2和ND6）中的某些密码子。这些基因有着广泛的净化选择的背景。基于密码子模型和氨基酸置换的物理化学特征，在ND2和ND6中分别发现了放松纯化选择和正选择信号。然而，没有明显的重叠，发现在所有物种的低回声定位频率的有丝分裂基因组的非同义位点。在分枝位点模型中，当R.结论有丝分裂基因组提供了比单个线粒体基因更可靠的系统发育信号。两个编码氧化磷酸化系统蛋白质的线粒体基因在菊头蝠属中表现出一定的适应性进化证据，ND5inR检测到正选择信号。菲律宾。这些结果表明，线粒体蛋白编码基因是菊头蝠物种进化过程中适应性进化的靶基因，这可能是菊头蝠物种适应性进化的基础。
BackgroundIn genusRhinolophus, species in theRhinolophus philippinensisandR. macrotisgroups are unique because the horseshoe bats in these group have relatively low echolocation frequencies and flight speeds compared with other horseshoe bats with similar body size. The different characteristics among bat species suggest particular evolutionary processes may have occurred in this genus. To study the adaptive evidence in the mitochondrial genomes (mitogenomes) of rhinolophids, especially the mitogenomes of the species with low echolocation frequencies, we sequenced eight mitogenomes and used them for comparative studies of molecular phylogeny and adaptive evolution.ResultsPhylogenetic analysis using whole mitogenome sequences produced robust results and provided phylogenetic signals that were better than those obtained using single genes. The results supported the recent establishment of the separatemacrotisgroup. The signals of adaptive evolution discovered in theRhinolophusspecies were tested for some of the codons in two genes (ND2andND6) that encode NADH dehydrogenases in oxidative phosphorylation system complex I. These genes have a background of widespread purifying selection. Signals of relaxed purifying selection and positive selection were found inND2andND6, respectively, based on codon models and physicochemical profiles of amino acid replacements. However, no pronounced overlap was found for non-synonymous sites in the mitogenomes of all the species with low echolocation frequencies. A signal of positive selection forND5was found in the branch-site model whenR. philippinensiswas set as the foreground branch.ConclusionsThe mitogenomes provided robust phylogenetic signals that were much more informative than the signals obtained using single mitochondrial genes. Two mitochondrial genes that encoding proteins in the oxidative phosphorylation system showed some evidence of adaptive evolution in genusRhinolophusand the positive selection signals were tested forND5inR. philippinensis. These results indicate that mitochondrial protein-coding genes were targets of adaptive evolution during the evolution ofRhinolophusspecies, which might have contributed to a diverse range of acoustic adaptations in this genus.
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DOI：
10.1098/rspb.2009.0752
发表时间：
2009-10-07
期刊：
Proceedings. Biological sciences
影响因子：
--
作者：
Balloux F;Handley LJ;Jombart T;Liu H;Manica A
通讯作者：
Manica A
影响因子：
6.5
作者：
Esquerre, Damien;Donnellan, Stephen;Keogh, J. Scott
通讯作者：
Keogh, J. Scott
影响因子：
4.9
作者：
Lamb, Annika Mae;Gan, Han Ming;Pavlova, Alexandra
通讯作者：
Pavlova, Alexandra
DOI：
10.1186/s12711-015-0138-0
发表时间：
2015-07-03
期刊：
Genetics, selection, evolution : GSE
影响因子：
--
作者：
Consuegra S;John E;Verspoor E;de Leaniz CG
通讯作者：
de Leaniz CG
影响因子：
4.6
作者：
Ramos EKDS;Freitas L;Nery MF
通讯作者：
Nery MF