Data on phylogenetic analyses of gazelles (genus Gazella) based on mitochondrial and nuclear intron markers

Hannes Lerp,Martin Plath,Sebastian Klaus,Torsten Wronski,Stefanie Allgöwer,Markus Pfenninger

doi:10.1016/j.dib.2016.02.062

Abstract

The data provided is related to the article “Phylogenetic analyses of gazelles reveal repeated transitions of key ecological traits and provide novel insights into the origin of the genus Gazella” [1]. The data is based on 48 tissue samples of all nine extant species of the genus Gazella, namely Gazella gazella, Gazella arabica, Gazella bennettii, Gazella cuvieri, Gazella dorcas, Gazella leptoceros, Gazella marica, Gazella spekei, and Gazella subgutturosa and four related taxa (Saiga tatarica, Antidorcas marsupialis, Antilope cervicapra and Eudorcas rufifrons). It comprises alignments of sequences of a cytochrome b data set and of six nuclear intron markers. For the latter new primers were designed based on cattle and sheep genomes. Based on these alignments phylogenetic trees were inferred using Bayesian Inference and Maximum Likelihood methods. Furthermore, ancestral character states (inferred with BayesTraits 1.0) and ancestral ranges based on a Dispersal-Extinction-Cladogenesis model were estimated and results׳ files were stored within this article.

Highlights

The version presented here may differ from the published version or from the version of the record
The data provided is related to the article “Phylogenetic analyses of gazelles reveal repeated transitions of key ecological traits and provide novel insights into the origin of the genus Gazella” [1]
The data is based on 48 tissue samples of all nine extant species of the genus Gazella, namely Gazella gazella, Gazella arabica, Gazella bennettii, Gazella cuvieri, Gazella dorcas, Gazella leptoceros, Gazella marica, Gazella spekei, and Gazella subgutturosa and four related taxa (Saiga tatarica, Antidorcas marsupialis, Antilope cervicapra and Eudorcas rufifrons)

Summary

Data accessibility

Primer sequences, sequence alignments, phylogenetic trees, ancestral character state estimation and ancestral ranges estimation. Phylogenetic trees were inferred with BEAST MC3 1.7.5 [4] and RAxML 8.0.14 [5]. Ancestral character state estimation was conducted with BayesTraits multistate 1.0 [6]. Ancestral ranges were estimated based on a Dispersal-ExtinctionCladogenesis (DEC)-model implemented in Lagrange v. Analyzed Sample types used for DNA extraction were tissue, skin, blood and hairs and were extracted using Qiagen DNeasy blood and tissue kit according to the manufacturer’s protocol. We sampled gazelle species from a wide geographic range to cover as much of the extant diversity as possible. Samples were collected in Israel, Saudi Arabia, Oman, Chad, Algeria, Sudan, Tunisia, Mongolia, Pakistan, and from captive breeding stocks Data is available within the article

Value of the data

PCR primer design

Sequence alignments

Phylogenetic analyses

Ancestral character state estimation

Biogeography