Análisis genético de Xerocrassa montserratensis con datos reales, Ejercicios de Genética

¡Descarga Análisis genético de Xerocrassa montserratensis con datos reales y más Ejercicios en PDF de Genética solo en Docsity! Population differentiation in endangered species with mtDNA Objective: Analyze the population genetic structure of an endangered species using as model real data sets of the endemic land snail Xerocrassa montserratensis (Català et al. 2021). We will use data of a partial sequence of the COI from 152 individuals sampled in 8 populations (JE, MU, CA, LA, GA, SE, MA, EM) plus haplotype sequences of 2 other species that will be used as outgroups (X. chiae; Xc and X. ripacurcia; RI, Xrr, Xrm). For X. montserratensis, each sequence is identified with the name of the population and the number of the individual, and all the sequences have been aligned in the file “Xerocrassa_montserratensis.fas”. All resulting haplotypes have been listed in the file haplo_xerocrassa.fas, including the outgroup species. Software: DnaSP, Arlequin, PopART, MEGA, Genalex. DnaSP, http://www.ub.edu/dnasp/ Arlequin, http://cmpg.unibe.ch/software/arlequin35/Arl35Downloads.html Notepad++, https://notepad-plus-plus.org/ PopART, http://popart.otago.ac.nz/index.shtml MEGA, https://www.megasoftware.net/ GenAlex, https://biology-assets.anu.edu.au/GenAlEx/Welcome.html Procedure: 1. Open Xerocrassa_montserratensis.fas file with DnaSP. 2. Define the sequence sets of each population (Data>Define sequence sets>Update all entries) and save in Nexus format (to be used in DnaSP). Save the file also in Arlequin format. a). Quantify genetic diversity per population and pairwise genetic distances. - DnaSP: o File > Send All Output to File o Analysis > Gene Flow and Genetic differentiation o Export Genetic Distances > Fst > OK