Data from: A novel method to infer the origin of polyploids from AFLP data reveals that the Alpine polyploid complex of Senecio carniolicus (Asteraceae) evolved mainly via autopolyploidy

Winkler M, Escobar García P, Gattringer A, Sonnleitner M, Hülber K, Schönswetter P, Schneeweiss GM

Date Published: December 7, 2016

DOI: http://dx.doi.org/10.5061/dryad.gf533

 

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Title ITS sequences of the Senecio carniolicus aggregate
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Description Alignment (in NEXUS format) of ITS sequences. Sample names are of the form: Taxon acronym*_population number_individual number_clone number*_ploidy level (items indicated by an asterisk are not always given). Taxon acronyms are: car - S. carniolicus; dis - S. disjunctus; ins - S. insubricus; nor - S. noricus. See Table S1 of the paper for further details.
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Title Concatenated plastid sequences of the Senecio carniolicus aggregate
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Description Alignment (in NEXUS format) of concatenated plastid sequences (1-672: psbD–trnT spacer; 673-1269: rps16–trnK spacer; 1270-2452: petL-psbE spacer; 2453-3382: rpl32–trnL spacer); multi-base pair indels coded as single base pairs for statistical parsimony analysis: see main text for details). Sample names are of the form: Taxon acronym*_population number_individual number_ploidy level (item indicated by an asterisk is not always given). Taxon acronyms are: car - S. carniolicus; dis - S. disjunctus; ins - S. insubricus; nor - S. noricus. See Table S1 of the paper for further details.
Download Senecio_carniolicus_plastid_sequences_coded.nex (2.130 Mb)
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Title AFLP data matrix of the Senecio carniolicus aggregate
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Description Taxon acronyms are: car - S. carniolicus; dis - S. disjunctus; ins - S. insubricus; nor - S. noricus. See Table S1 of the paper for further details.
Download Senecio_carniolicus_AFLP_Matrix.txt (361.9 Kb)
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Title R script for testing scenarios of polyploid origin from AFLP data using Cohen's d
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Download InSilicoHybridisation.R (3.221 Kb)
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Title Perl scripts to generate in silico AFLP profiles
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Description Note: Scripts are compressed in a single zip-file.
Download InSilicoAFLP.zip (609.6 Kb)
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When using this data, please cite the original publication:

Winkler M, Escobar García P, Gattringer A, Sonnleitner M, Hülber K, Schönswetter P, Schneeweiss GM (2016) A novel method to infer the origin of polyploids from AFLP data reveals that the Alpine polyploid complex of Senecio carniolicus (Asteraceae) evolved mainly via autopolyploidy. Molecular Ecology Resources, online in advance of print. http://dx.doi.org/10.1111/1755-0998.12641

Additionally, please cite the Dryad data package:

Winkler M, Escobar García P, Gattringer A, Sonnleitner M, Hülber K, Schönswetter P, Schneeweiss GM (2016) Data from: A novel method to infer the origin of polyploids from AFLP data reveals that the Alpine polyploid complex of Senecio carniolicus (Asteraceae) evolved mainly via autopolyploidy. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.gf533
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