ena-STUDY-ENS Lyon-16-01-2019-12:08:01:230-44
Whole-genome re-sequencing of the reference strain N2 (Caenorhabditis elegans nematode) and one derived Mutation Accumulation Line.
This study contains whole-genome re-sequencing runs of two samples: N2 and MA516.N2 is the most widely used reference strain of the nematode Caenorhabditis elegans, a model organism in biology. The genome of this peculiar strain was chosen as the reference for the genome assembly. Genomic DNA of N2 was extracted in Nov. 2012 directly from stocks received from Charles Baer. This stock is the true progenitor line of a set of mutation accumulation lines and was kept frozen to avoid accumulation of spontaneous mutations and genetic drift (Baer CF. et. al, PNAS 2005).MA516 is a mutation accumulation line derived from N2. The stock sequenced in the present study has been passed through single-worm bottlenecks for 250 generations. Genomic DNA was extracted in March 2013 directly from stocks received from Charles Baer.Short-insert random libraries were prepared for each sample by BGI and sequenced by Illumina on a HiSeq 2000 sequencer with 100-bp paired-end reads. Each sample was sequenced at a target-depth 20X in Nov. 2013. Quality scores of these raw reads are encoded old deprecated Phred+64 ASCII socres. This must be converted on Phred+33 encoding to ensure compatibility with most softwares for downstream analysis.
This study contains whole-genome re-sequencing runs of two samples: N2 and MA516.N2 is the most widely used reference strain of the nematode Caenorhabditis elegans, a model organism in biology. The genome of this peculiar strain was chosen as the reference for the genome assembly. Genomic DNA of N2 was extracted in Nov. 2012 directly from stocks received from Charles Baer. This stock is the true progenitor line of a set of mutation accumulation lines and was kept frozen to avoid accumulation of spontaneous mutations and genetic drift (Baer CF. et. al, PNAS 2005).MA516 is a mutation accumulation line derived from N2. The stock sequenced in the present study has been passed through single-worm bottlenecks for 250 generations. Genomic DNA was extracted in March 2013 directly from stocks received from Charles Baer.Short-insert random libraries were prepared for each sample by BGI and sequenced by Illumina on a HiSeq 2000 sequencer with 100-bp paired-end reads. Each sample was sequenced at a target-depth 20X in Nov. 2013. Quality scores of these raw reads are encoded old deprecated Phred+64 ASCII socres. This must be converted on Phred+33 encoding to ensure compatibility with most softwares for downstream analysis.