Early Users Weigh in on PacBio RS; Report on Strobe Sequencing, Hybrid Assembly with Illumina May 17, 2011
By Monica Heger
This story was originally published on May 13.
COLD SPRING HARBOR, NY — Early users of the Pacific Biosciences RS machine last week reported on their initial experiences with the system, including whole-genome sequencing of the C. elegans worm, strobe sequencing to improve assembly, and the hybrid assembly of the Rhodobacter genome with Illumina reads.
In a presentation at the Biology of Genomes meeting at Cold Spring Harbor Laboratory, Vincent Magrini, senior group leader of technology development at Washington University's Genome Institute, said that his group used two different sequencing methods on the RS — long-insert library prep and strobe sequencing in combination with Illumina sequencing to improve genome assembly. In another presentation, David Jaffe at the Broad Institute discussed how his team used the PacBio to fill gaps between Illumina-generated scaffolds of the Rhodobacter genome.
While the Wash U team found that PacBio's long-insert sequencing method produced the expected results, further work is needed to optimize the strobe sequencing method, which is still under development. Jaffe, meantime, said the Broad's work so far indicates that "it makes sense to marry the Illumina and PacBio."