Supplementary Files (Mitochondrial Genome Rearrangement in Amphibians)

Additional file 1: Table S1. Amphibian species with mt gene duplication or loss in this study. (XLSX 12 kb) Additional file 2: Figure S1. Phylogenetic tree of all amphibians studied using ML method based on the nucleotide dataset of 13 mt PCGs. The number of species sampled for each lineage is shown in brackets. We marked the branches of the species with mt gene rearrangements and the names of species only involved with PCGs rearrangements in dark red, and a pale red background was set on the branch of neobatrachians, the group with the most intensive rearrangements. (PDF 542 kb) Additional file 3: Figure S2. Mitogenomic rearrangement patterns of all amphibian species investigated. The numbers in first column indicated the occurrence frequencies of patterns(a number less than three is defined as a rare rearrangement in this study). (PDF 119 kb) Additional file 4: Word S1. Amplification scheme and primers sequences for sequencing four mitochondrial genomes in this study.(DOCX 14.2kb) Additional file 5: Text S1. Multiple sequence alignment file (fasta format, an input file for constructing phylogenetic trees) based on nucleic acid sequences of 13 protein-coding genes from 233 species mitogenomes. (TXT 2899kb) Additional file 6: Table S2. List of best models for performing phylogenetic tree based on BI method in this study. (XLSX 10 kb)

附加文件1：表S1。本研究中存在线粒体基因重复或丢失事件的两栖动物物种列表（XLSX格式，12 KB）。
附加文件2：图S1。基于13个线粒体蛋白编码基因（mitochondrial protein-coding genes，mt PCGs）的核苷酸数据集，采用最大似然（Maximum Likelihood，ML）法构建的所有本研究涉及的两栖动物的系统发育树。各支系的采样物种数标注于括号内。本研究将存在线粒体基因重排的物种分支、仅发生蛋白编码基因重排的物种名称标记为深红色，并在重排事件最为频发的新蛙亚目分支设置浅红色背景。（PDF格式，542 KB）
附加文件3：图S2。本研究涉及的全部两栖动物线粒体基因组重排模式。第一列的数字代表各重排模式的发生频次（本研究中将频次小于3的重排定义为稀有重排）。（PDF格式，119 KB）
附加文件4：文档S1。本研究中4个线粒体基因组测序所用的扩增方案与引物序列（DOCX格式，14.2 KB）。
附加文件5：文本S1。基于233个物种线粒体基因组的13个蛋白编码基因核酸序列构建的多序列比对文件（fasta格式，系统发育树构建的输入文件），文件大小为2899 KB。（TXT格式，2899 KB）
附加文件6：表S2。本研究中基于贝叶斯推断（Bayesian Inference，BI）法构建系统发育树所用的最优模型列表（XLSX格式，10 KB）。