![]() ![]() To reduce turnaround time on the PacBio instrument, Dewar's group used a library prep method originally developed by researchers at the Wellcome Trust Sanger Institute ( IS ). "We just pull off the first 150 bases during the run," Dewar said. ![]() Dewar's team replaced the TruSeq chemistry with Nextera for library prep on the MiSeq, and instead of running 250 by 250 base reads, he reduced reads to 150 bases, which reduced sequencing time to 12 to 14 hours. The result are "rapid response" protocols that each operate in roughly one day. So, his group began working on tweaking those protocols to reduce the turnaround time. "We wanted the long reads of PacBio to put together long contiguous stretches and the accuracy of the MiSeq," Dewar said.Īfter evaluating each of the company's protocols - the MiSeq run with the TruSeq chemistry and paired 250 base reads, and the RS run with its standard SMRTbell library preparation - Dewar said that the turnaround time for each was still three to four days, rather than the desired 24 hours. And in the context of an urgent response to a single bacteria, this is very difficult."Īs such, the team zeroed in on two sequencing technologies - Ilumina's MiSeq and PacBio's RS. "But the low cost is derived from pooling many samples together. "A lot of systems could offer genomes, theoretically, at a very low cost," said Dewar. Reporting at the BGI-sponsored International Conference on Genomics in Americas conference in Sacramento, Calif., last week, Ken Dewar a professor at McGill University in Montreal, presented methods his laboratory has developed on both the Illumina MiSeq and Pacific Biosciences RS machines.ĭewar said that around two years ago the lab began investigating the possibility of sequencing and assembling a bacterial genome in less than a day for under $1,000. Researchers at McGill University have developed two different protocols for sequencing bacterial genomes in under 24 hours to monitor outbreaks. Advances in Clinical Genomics Profiling.
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