Target enrichment for plant/animal systematics - methodological workshop
9^th - 17^th June 2025

Roswitha Schmickl, Tomáš Fér, Vojta Zeisek, Soňa Píšová

Department of Botany, Charles University, Prague
Contact, registration: roswitha.schmickl@natur.cuni.cz

Course schedule (detailed) will be here

This schedule is preliminary only and might slightly change as we are preparing the course...

Day 1
General introduction, wet lab (library preparation) - presentation
Independent/group work - preparing presentation of Ufimov et al. (2021) paper - create shared presentation here

Day 2
Paper discussion - Ufimov et al. 2021
Wet lab work demonstration - basic protocol, NEBNext Ultra II protocol, video, SPRI beads size selection protocol

Theory - target enrichment principle & discussion - presentation
Theory - approaches for data analysis - presentation
Independent work on paper of choice about target enrichment in plant/animal systematics - create shared presentation here

Day 3
Computer work with the data (HybPiper etc.) - presentation
Gene trees vs. species tree - presentation

Day 4
Gene trees vs. species tree - presentation (continue)
Computer work with the data - R code

Day 5
Computer work with the data - HybPhyloMaker - presentation, rapid instruction (PDF or txt)

Day 6
Student presentations - papers of their choice - put your presentation here
Group work/discussion - internet search for recent target enrichment papers (applications & approaches) - create shared presentation here

Day 7
Plastome assembly - presentation, HybPhyloMaker with chloroplast data (instructions), how to run FastPlast on MetaCentrum (txt)
Phylogenetic discordance - paper for discussion
Optional - wrap up, varia, hands-on session with own data

Thank you for participating ...