Data from: Intraspecific haplotype diversity in Cherleria sedoides L. (Caryophyllaceae) is best explained by chloroplast capture from an extinct species

Moore AJ, Valtueña FJ, Dillenberger MS, Kadereit JW, Preston CD

Date Published: July 13, 2017

DOI: http://dx.doi.org/10.5061/dryad.sm95d

 

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Title Caryophyllaceae_matK_Aligment
Downloaded 5 times
Description The Caryophyllaceae-wide matK alignment, used to produce the trees in Fig. 2 and Online Resource 2. The names correspond to those in Voucher_Table.txt. For our sequences, DNA numbers follow the names, while for sequences downloaded from GenBank, GB follows the names.
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Title Caryophyllaceae_matK-ConT_Fig_2
Downloaded 3 times
Description The consensus tree from the BEAST analysis of matK data, shown in Fig. 2 and Online Resource 2. The names correspond to those in Voucher_Table.txt. For our sequences, DNA numbers follow the names, while for sequences downloaded from GenBank, GB follows the names.
Download Caryophyllaceae_matK-ConT_Fig_2.tree (100.1 Kb)
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Title Cherleria_cpDNA_Matrix
Downloaded 1 time
Description The Cherleria-wide alignment from the chloroplast trnQ-rps16 and psbD-trnT regions, used to produce the tree in Fig. 3. The names correspond to those in Voucher_Table.txt. DNA numbers follow the names.
Download Cherleria_cpDNA_Matrix.nex (158.8 Kb)
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Title Cherleria_cpDNA_Gaps
Downloaded 3 times
Description The coded indels from the Cherleria-wide alignment from the chloroplast trnQ-rps16 and psbD-trnT regions, used to produce the tree in Fig. 3. The names correspond to those in Voucher_Table.txt. DNA numbers follow the names.
Download Cherleria_cpDNA_Gaps.nex (5.557 Kb)
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Title Cherleria_cpDNA+Indels_ConT_Fig_3
Downloaded 5 times
Description The consensus tree from the BEAST analysis of the trnQ-rps16 and psbD-trnT data, shown in Fig. 3. The names correspond to those in Voucher_Table.txt. DNA numbers follow the names.
Download Cherleria_cpDNA+Indels_ConT_Fig_3.tree (86.95 Kb)
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Title Cherleria_cpDNA_SNPs+Gaps_TCS.nex
Downloaded 3 times
Description The Cherleria-wide alignment from the chloroplast trnQ-rps16 and psbD-trnT regions for the TCS analysis shown in Fig. 4. The names correspond to those in Voucher_Table.txt. DNA numbers follow the names.
Download Cherleria_cpDNA_SNPs+Gaps_TCS.nex (76.63 Kb)
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Title Voucher_Table
Downloaded 3 times
Description The voucher table as a tab-delimitted text file including the full species name with authorities, the name in the tree, the DNA number (when we extracted the DNA sample), the voucher and country where it was collected (again, only for our samples), and the GenBank numbers for the sequences that are included in these alignments.
Download Voucher_Table.txt (23.35 Kb)
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When using this data, please cite the original publication:

Moore AJ, Valtueña FJ, Dillenberger MS, Kadereit JW, Preston CD (2017) Intraspecific haplotype diversity in Cherleria sedoides L. (Caryophyllaceae) is best explained by chloroplast capture from an extinct species. Alpine Botany 1-13. http://dx.doi.org/10.1007/s00035-017-0190-1

Additionally, please cite the Dryad data package:

Moore AJ, Valtueña FJ, Dillenberger MS, Kadereit JW, Preston CD (2017) Data from: Intraspecific haplotype diversity in Cherleria sedoides L. (Caryophyllaceae) is best explained by chloroplast capture from an extinct species. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.sm95d
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