Whole genome sequences for 13 natural Poecilia reticulata populations

This data is NERC-funded but not held by the EIDC. This data is archived in the European Nucleotide Archive (ENA) under accession number PRJEB36347. The dataset contains whole-genome sequencing from 13 natural populations of the Trinidadian guppy (Poecillia reticulata) (n=272) sampled across a range of colour and predation schemes. Data were collected to investigate the ecological genomics of Negative Frequency Dependent Selection (NFDS). Guppy males are colourful, displaying a mosaic of complex and varied colouration patterns; in comparison, females are drab and inconspicuous. Females prefer rare males and rare males show higher reproductive fitness. Rare males also have a significantly higher survival advantage. This project used genome scans to identify the evolutionary signatures of NFDS.

Provenance & quality

Total genomic DNA was extracted using the Qiagen DNeasy Blood and Tissue protocol (QIAGEN). DNA concentrations ≥ 35ng/μl were normalised to 500ng in 50μl and were prepared as Low Input Transposase Enabled (LITE) DNA libraries at The Earlham Institute, Norwich UK. LITE libraries were sequenced on an Illumina HiSeq4000 with a 150bp paired-end metric and a target insert size of 300bp, and were pooled across several lanes so as to avoid technical bias with a sequencing coverage target of ≥10x per sample. Data from three of the rivers (6 populations) were generated in a previous project. Quality control of the sequencing data was undertaken following standard pipelines (FastQC, qualimap).

Correspondence/contact details

Fraser, B.
University of Exeter

Other contacts

European Nucleotide Archive
European Nucleotide Archive

Additional metadata

Topic categories
colour,  guppy,  mate choice,  negative-frequency dependent selection (NFDS,  predation
Last updated
23 June 2021 12:38