Files for phylogenetic analyses and molecular diagnosis between Diplomystidae catfish species

Diplomystidae is an early-diverged family of freshwater catfish endemic to southern South America. We have recently collected five juvenile specimens belonging to this family from the Bueno River Basin, a basin which the only previous record was a single juvenile specimen collected in 1996. This finding confirms the distribution of the family further South in northern Patagonia, but poses new questions about the origin of this population in an area with a strong glacial history. We used phylogenetic analyses to evaluate three different hypotheses that could explain the origin of this population in the basin. First, the population could have originated in Atlantic basins (East of the Andes) and dispersed to the Bueno Basin after the Last Glacial Maximum (LGM) via river reversals, as it has been proposed for other population of Diplomystes as well as for other freshwater species from Patagonia. Second, the population could have originated in the geographically close Valdivia Basin (West o..., 2. MATERIAL AND METHODS
2.1 Sampling
A total of eight individuals from the Bueno Basin were collected during the summer 2019 (n= 3) and 2021 (n= 5) from two different sections of the Bueno River (-40,2528 -72,6178 and -40.2561 -72.5942, respectively) near the outlet of Ranco Lake (figure 1). Specimens from 2019 were released alive after collecting a small piece of the adipose fin by clipping. Specimens from 2021 were kept as vouchers. All the vouchers show a long and continuous lateral line typical of the genus Diplomystes, so they were assigned to this genus following Arratia & Quezada-Romegialli (2017). Additionally, three individuals from the coastal basins Laraquete and Carampangue (Muñoz-Ramírez et al., 2020), genetically close to populations from the Biobío Basin, were included to increase data from the Biobío lineage for the species delimitation analysis and were considered for all purposes as part of the Biobío Basin, due to their close geographical and genetic proximity. 
2..., These data contain different types of files:

Sequence alignments for molecular diagnosis
script with functions to conduct phylogenetic diversity analysis
XML files to run starBeast analysis

Here is a brief description of each file included in this data:
cr_cb_gh_s7_monophyly_prior.xml: Input file to run beast, using the starBEAST3 package to estimate a dated species tree. The file is set to force the monophyly of a pair of populations (Baker and Chubut) (monophyly prior).
cr_cb_gh_s7_no_monophyly_prior.xml: Input file to run beast, using the starBEAST3 package to estimate a dated species tree. The monophyly of a pair of populations (Baker and Chubut) is not constrained (no monophyly prior).
211_Diplos_RC.fas: Alignment file with 211 sequences of a portion of the mitochondrial control region representing individuals of the catfish family Diplomystidae from 15 river basins. This file is used for the molecular diagnosis analysis, called from the R script file Diagnostic_nucleotides.R.
21..., # Files for phylogenetics analyses and molecular diagnosis between Diplomystidae catfish species

This data contain files to conduct species tree analyses with starBEAST, a prerequisite for the DELINEATE analyses and to conduct the molecular diagnostic analyses.
The results of these analyses are presented in figures and tables in a manuscript

## Description of the data and file structure

These are several files used to conduct different types of analyses.

cr_cb_gh_s7_monophyly_prior.xml:
Input file to run beast, using the starBEAST3 package to estimate a dated species tree. The file is set to force the monophyly of a pair of populations (Baker and Chubut) (monophyly prior).

cr_cb_gh_s7_no_monophyly_prior.xml:
Input file to run beast, using the starBEAST3 package to estimate a dated species tree. The monophyly of a pair of populations (Baker and Chubut) is not constrained (no monophyly prior).

211_Diplos_RC.fas:
Alignment file with 211 sequences of a portion of the mitochondrial con...