Integration of PacBio RS into Massive Parallel Sequencing and Data Analysis Pipelining at the UC Davis Genome Center

摘要

Whole genome sequencing and genomic biology has been widely adopted in many fields of biology as next-generation sequencing technology (NGS) has rapidly improved quality, read length, and throughput to make whole genome sequencing and association studies possible in a very cost effective manner. Continued improvement and development of sample preparation protocols and data analysis tools have been significant in helping to extend genome sequencing technology to genomes that were previously difficult to sequence. Recent arrival of Pacific Biosciences RS (PacBio) contributed in furthering such opportunity by providing options for single molecule long read sequencing in real time and kinetic analysis (methylation). PacBio has been employed successfully for sequencing low complexity genomic region such as extremely high GC, long repeats, rearrangement, gene fusion, etc.In this poster we present the optimization of PacBio sample preparation that was fine-tuned to meet unique challenges of sequencing through “difficult-to-sequence” template. We discuss the integration of PacBio into the wet lab equipped with other NGS platforms and data pipelining workflow including cloud computing and robotic sample preparation at the Genome Center.UC Davis Genome Center currently operates NGS technology platforms including HiSeq, MiSeq, PacBio, and has genotyping capacity using Illumina Infinium and GoldenGate technology. UC Davis Genome Center and Bioinformatics Program provides most up-to-date genome technology and informatics support tailored for specific biological goals meeting needs for more than 80 faculty members within Genome Center and more than 200 campus and off-campus researchers.