[304] - cpDNA alignments and R-skript for Historical Biogeography of Zygophyllaceae in the Atacama Desert

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Böhnert, T., Weigend, M., Merklinger, F. F., Quandt, D., Luebert, F., 2019. cpDNA alignments and R-skript for Historical Biogeography of Zygophyllaceae in the Atacama Desert. CRC1211 Database (CRC1211DB). DOI: 10.5880/CRC1211DB.32.
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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.
Identifier(s):DOI: 10.5880/CRC1211DB.32
Responsible Party
Creator(s):Author: Tim Böhnert
Author: Maximilian Weigend
Author: Felix F. Merklinger
Author: Dietmar Quandt
Author: Federico Luebert
Funding Reference(s):Deutsche Forschungsgemeinschaft (DFG): CRC 1211: Earth - Evolution at the Dry Limit
Publisher:CRC1211 Database (CRC1211DB)
CRC1211 Topic:Biology
Related Sub-project(s):B1
Subject(s):CRC1211 Keywords: Biogeography, Arid Zone, Molecular Biology, Phylogeny, Evolution
File Details
File Name:Boehnert_etal_Zygo_SuppMaterial.zip
Data Type:Dataset
File Size:73 kB (0.071 MB)
Date(s):Created: 2019-11-04
Mime Type:application/zip
Data Format:ZIP
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Download Permission:Free
General Access and Use Conditions:According to the CRC1211DB data policy agreement.
Access Limitations:According to the CRC1211DB data policy agreement.
Licence:Creative Commons Attribution-ShareAlike 4.0 International (CC BY-SA 4.0)
Measurement Region:Chile
Measurement Location:--Chile--
Specific Informations - Data
Temporal Extent:2019/07/03 - 2019/12/02
Metadata Details
Metadata Creator:Tim Böhnert
Metadata Created:2019-12-12
Metadata Last Updated:2019-12-12
Funding Phase:1
Metadata Language:English
Metadata Version:V42
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