Data from: A universal probe set for targeted sequencing of 353 nuclear genes from any flowering plant designed using k-medoids clustering

Johnson MG, Pokorny L, Dodsworth S, Botigue LR, Cowan RS, Devault A, Eiserhardt WL, Epitawalage N, Forest F, Kim JT, Leebens-Mack J, Leitch IJ, Maurin O, Soltis D, Soltis PS, Ka-Shu Wong G, Baker WJ, Wickett N

Date Published: December 4, 2018

DOI: https://doi.org/10.5061/dryad.s3h9r6j

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Title Supplemental Table 1: Variable Sites in Selected Genera
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Description Variable sites in Angiosperms353 genes within the genera Oenothera, Linum, Neurachne, and Portulaca
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Title Voucher_table
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Description Voucher table for samples used to test Angiosperm353 dataset.
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Title onekp_only_angios_degapped
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Description Multiple sequence alignments for genes used in Angiosperms353 probe design (FASTA format). Original alignments contained up to 1400 sequences, which have been reduced to remove non-angiosperms. All gap-only sites have been removed.
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Title onekp_only_angios_pdistance
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Description Pairwise matrices of sequence dissimilarity for angiosperm sequences used to design the Angiosperms353 probe set.
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Title Angiosperms353_extracted_seqeuences.tar
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Description Sequences extracted from Angiosperms353 via HybPiper for 42 species of angiosperms. Includes: coding sequences ("exon"), non-coding ("intron") sequences and concatenated coding/non-coding ("supercontig") sequences.
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Title SuppFig1_RecoveryVSGenomeSize
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Description Supplemental figure showing the relationship between genome size and gene recovery rate using the Angiosperms353 target capture set on 42 angiosperm species.
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Title Angiosperms353 Gene Annotations
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Description All genes in the Angiosperms353 target capture set annotated using Arabidopsis orthologs.
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When using this data, please cite the original publication:

Johnson MG, Pokorny L, Dodsworth S, Botigué LR, Cowan RS, Devault A, Eiserhardt WL, Epitawalage N, Forest F, Kim JT, Leebens-Mack JH, Leitch IJ, Maurin O, Soltis DE, Soltis PS, Ka-Shu Wong G, Baker WJ, Wickett NJ (2018) A universal probe set for targeted sequencing of 353 nuclear genes from any flowering plant designed using k-medoids clustering. Systematic Biology, online in advance of print. https://doi.org/10.1093/sysbio/syy086

Additionally, please cite the Dryad data package:

Johnson MG, Pokorny L, Dodsworth S, Botigue LR, Cowan RS, Devault A, Eiserhardt WL, Epitawalage N, Forest F, Kim JT, Leebens-Mack J, Leitch IJ, Maurin O, Soltis D, Soltis PS, Ka-Shu Wong G, Baker WJ, Wickett N (2018) Data from: A universal probe set for targeted sequencing of 353 nuclear genes from any flowering plant designed using k-medoids clustering. Dryad Digital Repository. https://doi.org/10.5061/dryad.s3h9r6j
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