Capturing native long-range contiguity by in situ library construction and optical sequencing.

ABSTRACT: The relatively short read lengths associated with the most cost-effective DNA sequencing technologies have limited their use in de novo genome assembly, structural variation detection, and haplotype-resolved genome sequencing. Consequently, there is a strong need for methods that capture various scales of contiguity information at a throughput commensurate with the current scale of massively parallel sequencing. We propose in situ library construction and optical sequencing on the flow cells of currently available massively parallel sequencing platforms as an efficient means of capturing both contiguity information and primary sequence with a single technology. In this proof-of-concept study, we demonstrate basic feasibility by generating >30,000 Escherichia coli paired-end reads separated

SUBMITTER: Schwartz JJ 

PROVIDER: S-EPMC3503199 | biostudies-literature | 2012 Nov

REPOSITORIES: biostudies-literature