Ancient introgression explains mitochondrial genome capture and mitonuclear discordance among South American collared Tropidurus lizards

Here we provide the datasets, input and output files used and/or produced during the realization of the work “Ancient introgression explains mitochondrial genome capture and mitonuclear discordance among South American collared Tropidurus lizards”. In this study, we investigated the evolutionary causes of a clear case of mitonuclear discordance in the Tropidurus spinulosus species group. We analyzed mitochondrial genomes and nuclear ultraconserved elements (UCEs) sequences, and thousands of single nucleotide polymorphisms (SNPs) derived from UCEs across different species within the group. The READ-ME.txt file contains a brief description of each of the files in the folders provided here. Authors: Matheus M. A. Salles*, André L. G. Carvalho, Adam D. Leaché, Nicolas Martinez, Frederick Bauer, Martha Motte, Viviana Espínola, Miguel T. Rodrigues, Carla Piantoni, Marcio R. Pie, André Olivotto, Guarino R. Colli, Erik L. Choueri, Fernanda P. Werneck, Fabricius M. C. B. Domingos*Author for Correspondence: Matheus Salles, Zoology Graduate Program, Federal University of Paraná, Brazil, [e-mail]. Reference: Salles, M. M. A., et al. (2025). Ancient introgression explains mitochondrial genome capture and mitonuclear discordance among South American collared Tropidurus lizards. Molecular Ecology, https://doi.org/10.1111/mec.70130.本研究谨随文提供论文《Ancient introgression explains mitochondrial genome capture and mitonuclear discordance among South American collared Tropidurus lizards》（《古老渐渗解释南美领蜥Tropidurus属的线粒体基因组捕获与核质冲突》）开展过程中所使用及生成的数据集、输入文件与输出文件。本研究针对Tropidurus spinulosus物种群中典型的核质冲突（mitonuclear discordance）现象，解析其演化成因；研究分析了该类群内不同物种的线粒体基因组、核超保守元件（UCEs）序列，以及源自UCEs的数千个单核苷酸多态性（SNPs）位点。 文件夹内各文件的简要说明详见README.txt文件。 作者列表：Matheus M. A. Salles*、André L. G. Carvalho、Adam D. Leaché、Nicolas Martinez、Frederick Bauer、Martha Motte、Viviana Espínola、Miguel T. Rodrigues、Carla Piantoni、Marcio R. Pie、André Olivotto、Guarino R. Colli、Erik L. Choueri、Fernanda P. Werneck、Fabricius M. C. B. Domingos；*通讯作者：Matheus Salles，巴西巴拉那联邦大学动物学研究生项目，电子邮箱：[e-mail]。 参考文献：Salles, M. M. A. 等. (2025). 古老渐渗解释南美领蜥Tropidurus属的线粒体基因组捕获与核质冲突. 分子生态学, https://doi.org/10.1111/mec.70130.