SRX4334475: WGS of the Dead Sea Scrolls: NewScroll-39
1 ILLUMINA (HiSeq X Ten) run: 52.7M spots, 15.9G bases, 5.9Gb downloads
Design: DNA libraries were prepared using 20l of extract, with blunt-end ligation coupled with P5 and P7 adapters and indexes described in Meyer & Kircher, 2010, with modifications as in Gnther et al, 2015. From each extract one to five double strand libraries were built. Since ancient DNA is already fragmented the shearing step was omitted from the protocol. Library blank controls including water as well as extraction blanks were carried along during every step of library preparation. Each blunt-end library was amplified in 4 to 12 replicates with one negative PCR control per index-PCR. The amplification reactions had a total volume of 25 l, with 3 l of DNA library, and the following in final concentrations; 1X AmpliTaq Gold Buffer, 2.5mM MgCl2, 250nM of each dNTP, 2.5U AmpliTaq Gold (Thermofisher), and 200nM each of the IS4 primer and P7-index primer. The optimal number of cycles was determined by qPCR. The negative controls were also run on qPCR in order to try to obtain amplification. Libraries were amplified between 14-22 cycles using conditions as in Meyer & Kircher, 2010. For each library four amplifications with the same indexing primer were pooled and purified with AMPure XP beads (Agencourt). Libraries were quantified on Tapestation using the High Sensitivity Kit (Agilent Technologies).
Submitted by: Tel-Aviv University
Study:
Illuminating Genetic Mysteries of the Dead Sea Scrollsshow Abstracthide AbstractStudying the genomic contents of the Dead Sea Scrolls and other ancient artifacts and piecing together the different fragments.
Library:
Name: dss039-l1p1
Instrument: HiSeq X Ten
Strategy: WGS
Source: GENOMIC
Selection: RANDOM
Layout: PAIRED
Runs:
1 run, 52.7M spots, 15.9G bases, 5.9Gb