last modified on 2018/10/30.
This repository contains source data for the manuscript "Patterns of selection reveal shared molecular targets over short and long evolutionary timescales". The manuscript is public on bioRxiv.
Sequence reads for the time-resolved populations have been submitted to the SRA/ENA databases under study accession number ERP003953 and the NCBI BioProject under accession number PRJEB4645. The detailed sample accession numbers are listed in the text file "sequence_reads_download.txt".
In the folder of "phenotyping", it contains the doubling time of:
(1) populations evolved in hydroxyurea (HU) and rapamycin (RM) at each transfer during the experimental evolution;
(2) isolates from the initial and HU and RM evolved final populations;
(3) the TOR1 and TOR2 constructs in various nitrogen limited conditions;
(4) the constructs with all the possible genotype combinations of TOR1 wildtype/mutated and 2-4 copies of chrIX in the SA/SA genetic background.
In the folder of "allele_frequency", it contains the allele frequency of all the ancestral and evolved four-parent populations across multiple time points, which is used to identify QTLs.
In the folder of "gene_sequences_1002G", it contains the alignments of RNR4, TOR1, TOR2 and FPR1 sequeces from "The 1002 Yeast Genome Project". If you are interested in the 1002 yeast genome project, please go to 1002G for more details.