Data Description of DOI 10.5880/CRC1211DB.32

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Citation:Böhnert, Tim; Weigend, Maximilian; Merklinger, Felix F.; Quandt, Dietmar; Luebert, Federico (2019): cpDNA alignments and R-skript for Historical Biogeography of Zygophyllaceae in the Atacama Desert. CRC1211 Database (CRC1211DB). DOI: 10.5880/CRC1211DB.32
Title(s):Main Title: cpDNA alignments and R-skript for Historical Biogeography of Zygophyllaceae in the Atacama Desert
Description(s):Abstract: The dataset contains sequence information of the historical biogeographic study of the plant family Zygophyllaceae in the Atacama Desert. We provide three nexus files containing chloroplast sequence data used for all phylogenetic divergence time estimation analysis of the paper. The first nexus file (Zygophyllales_CP_Master.nex) contains the concatenated sequence alignment with character set annotations for the three-chloroplast marker (rbcL, trnL-trnF, trnS-trnG) as well as for hotspot regions and sequence inversions which were excluded and reverse complemented for analysis. The second nexus file (Zygophyllales_CP_Master_HSEX_INVREV_BEAST.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 the dating analyses. The third nexus file (Zygophyllales_CP_Master_HSEX_INVREV_RAxML.nex) was used for the phylogenetic reconstruction using a Maximum Likelihood approach. Finally, we provide the R-skript used to plot the time calibrated trees and the ancestral area reconstruction.
Funding(s):Deutsche Forschungsgemeinschaft/Earth - Evolution at the Dry Limit, CRC 1211
Subject(s):CRC1211 Keywords: Biogeography, Arid Zone, Molecular Biology, Phylogeny, Evolution
Date(s):Created: 2019-11-04
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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