DOI: 10.57760/sciencedb.12607
title: Phylogeography and phylogenetics of Gymnura.
title: Phylogeography and phylogenetics of Gymnura.

description: All the files necessary to generate the analyzes of this study are available here. The estimated phylogenies reinforce the need for an ample review of the systematics of the family, in particular the amply-distributed species that are considered to be valid taxa, but may in fact represent a number of different cryptic species.Table S1: Codes, species, origin and genbank accession codes for the sequences utilized in the present study. In bold, all sequences generated in the present study. The sequences in red were used for the TMRCA of COI dataset.Table S2: Gene portions, primers pairs, references and amplification protocols from each marker used for the study.Fig. S1: Bayesian inference (Bi) trees of Cytb (A) and RAG1 (B) of Gymnuridae family utilized in the present study. For both trees, only support values above 85% for Maximum likelihood and above 0.9 for a posteriori values are shown. Grey filled circles indicate a posteriori probabilities ≥ 0.90, yellow circles denote Red circles indicating bootstrap values 100% and black circles indicate a posteriori probabilities of 1. The species codes of nexus files are described in Table S1 and are divided in different approaches that are used in the manuscript that are describe here:The files for phylogeny used to construct Figures 2A and Fig. S1 A and B. The files with the delimitation _speciestrees were used to construct the Fig. 2B of the manuscript.  COI_TMRCA delimitation was used to construct the results provided in Fig. 3.The files with TMRCA_concat delimitation were used to the results provided in Fig. 4.The files coi_geneland delimitation were used to the results provided in Fig. 5.
description: All the files necessary to generate the analyzes of this study are available here. The estimated phylogenies reinforce the need for an ample review of the systematics of the family, in particular the amply-distributed species that are considered to be valid taxa, but may in fact represent a number of different cryptic species.Table S1: Codes, species, origin and genbank accession codes for the sequences utilized in the present study. In bold, all sequences generated in the present study. The sequences in red were used for the TMRCA of COI dataset.Table S2: Gene portions, primers pairs, references and amplification protocols from each marker used for the study.Fig. S1: Bayesian inference (Bi) trees of Cytb (A) and RAG1 (B) of Gymnuridae family utilized in the present study. For both trees, only support values above 85% for Maximum likelihood and above 0.9 for a posteriori values are shown. Grey filled circles indicate a posteriori probabilities ≥ 0.90, yellow circles denote Red circles indicating bootstrap values 100% and black circles indicate a posteriori probabilities of 1. The species codes of nexus files are described in Table S1 and are divided in different approaches that are used in the manuscript that are describe here:The files for phylogeny used to construct Figures 2A and Fig. S1 A and B. The files with the delimitation _speciestrees were used to construct the Fig. 2B of the manuscript.  COI_TMRCA delimitation was used to construct the results provided in Fig. 3.The files with TMRCA_concat delimitation were used to the results provided in Fig. 4.The files coi_geneland delimitation were used to the results provided in Fig. 5.