Data Description of DOI 10.5880/CRC1211DB.26

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Citation:Böhnert, Tim; Luebert, Federico; Ritter, Benedikt; Merklinger, Felix F.; Stoll, Alexandra; Schneider, Julio; Quandt, Dietmar; Weigend, Maximilian (2019): cpDNA alignments and phylogenetic trees of Cristaria (Malvaceae) from the Atacama Desert. CRC1211 Database (CRC1211DB). DOI: 10.5880/CRC1211DB.26
Title(s):Main Title: cpDNA alignments and phylogenetic trees of Cristaria (Malvaceae) from the Atacama Desert
Description(s):Abstract: The dataset contains material of the historical biogeographic study of the plant genus Cristaria (Malvacae) in the Atacama Desert. We provide here (1) the time calibrated phylogeny of the family Malvaceae in .tre data format (Cristaria_cp_4Foss_BeastTree.tre). Further (2) we provide two nexus files used for all phylogenetic analysis of the paper. The first nexus file (Cristaria_cp_Master.nex) is the concatenated sequence alignment with character set annotations for the three chloroplast marker (trnK/matK, rpl16, ndhF) as well as for hotspot regions and sequence inversions which were excluded and reverse complemented for analysis. The second nexus file (Cristaria_cp_Master_HSEX_INVREV.nex) is identical to the first one except from the fact that all hotspot regions were excluded and the inversions reverse complemented. This dataset was used for all phylogenetic studies as it is presented here. Finally (3), we provide a combined tree file (Cristaria_cp_RAxML-tree_BS_PP.xtg) including the phylogenetic tree of the Maximum Likelihood analysis (RAxML) with additional posterior probability values from the Bayesian Inference analysis (MrBayes). The tree file can be loaded with the program TreeGraph2 (Ströve & Müller (2010) DOI: 10.1186/1471-2105-11-7). The program is freely available here:
Funding(s):Deutsche Forschungsgemeinschaft/Earth - Evolution at the Dry Limit, CRC 1211
Subject(s):CRC1211 Keywords: Evolution, Biogeography, Arid Zone, Molecular Biology, Phylogeny
Date(s):Available: 2019-07-03
Related Identifier(s):Is Cited By: DOI: 10.1016/j.gloplacha.2019.102992, related data type: Text
Resource Type:Dataset
Licence:Creative Commons Attribution-ShareAlike 4.0 International (CC BY-SA 4.0)
Measurement Region:Chile
Measurement Location:--Chile--
Contact:Tim Böhnert

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