We have various bits of code available for playing with Genbank files and Next Gen (Illumina) data for population genomics
How to sample plants in the field for DNA Extraction: YouTube link
Amplified Fragment Length Polymorphisms (AFLPs)
Genotyping-by-Sequencing (GBS) – This is based on Elshire et al (2011) and we have since switched to the protocol of Gompert et al (2014) and Parchman et al (2012). You can download GBS_Template files at bottom of page.Data in Digital Commons – from 2017 publications onwards
Wolf, PG, Robison TA, Johnson MG, Sundue MA, Testo WL, Rothfels CJ. 2018. Target Sequence Capture of Nuclear-Encoded Genes for Phylogenetic Analysis in Ferns. Applications in Plant Sciences 6(5): e1148. https://doi.org/10.15142/T3MG95
Schilling MP, Gompert Z, Li F-W, Windham MD, Wolf PG. 2018. Admixture, evolution, and variation in reproductive isolation in the Boechera puberula clade. BMC Evolutionary Biology 18: 61. https://doi.org/10.1186/s12862-018-1173-6
Rowe, CA, Hauber, DP, Wolf PG. 2018. Genomic variation of introduced Salvinia minima in southeastern United States. Aquatic Botany In Press: https://doi.org/10.15142/T3VK80
Lemon JB and PG Wolf. 2018. Genetic differentiation between endemic Eriogonum soredium and its common relative E. shockleyi (Polygonaceae). Systematic Botany: In Press. https://doi.org/10.15142/T3K63T
I have low coverage (1X – 2X) Illumina genomic sequences from six fern species. Files can be downloaded from Digital Commons. Data presented at 2014 meeting of Botanical Society of America (Boise, ID, USA)
List of fern chloroplast genomes (plastomes) – link
Wolf, P. G., C. A. Rowe, M. Hasebe. 2004. High levels of RNA editing in a vascular plant chloroplast genome: analysis of transcripts from the fern Adiantum capillus-veneris. Gene 339: 89-97
Adiantum cDNA Sequences Ipomopsis (1991, 1992, 1995)