title: Titration-free massively parallel pyrosequencing using trace amounts of starting material.
abstract: Continuous efforts have been made to improve next-generation sequencing methods for increased robustness and for applications on low amounts of starting material. We applied double-stranded library protocols for the Roche 454 platform to avoid the yield-reducing steps associated with single-stranded library preparation, and applied a highly sensitive Taqman MGB-probe-based quantitative polymerase chain reaction (qPCR) method. The MGB-probe qPCR, which can detect as low as 100 copies, was used to quantify the amount of effective library, i.e. molecules that form functional clones in emulsion PCR. We also demonstrate that the distribution of library molecules on capture beads follows a Poisson distribution. Combining the qPCR and Poisson statistics, the labour-intensive and costly titration can be eliminated and trace amounts of starting material such as precious clinical samples, transcriptomes of small tissue samples and metagenomics on low biomass environments is applicable.
authors.affiliation: Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden. zhengzongli@gmail.com
authors.forename: Zongli
authors.initials: Z
authors.lastname: Zheng
authors.forename: Abdolreza
authors.initials: A
authors.lastname: Advani
authors.forename: Ojar
authors.initials: O
authors.lastname: Melefors
authors.forename: Steve
authors.initials: S
authors.lastname: Glavas
authors.forename: Henrik
authors.initials: H
authors.lastname: Nordström
authors.forename: Weimin
authors.initials: W
authors.lastname: Ye
authors.forename: Lars
authors.initials: L
authors.lastname: Engstrand
authors.forename: Anders F
authors.initials: AF
authors.lastname: Andersson
mesh_terms: D015723:Gene Library; D015345:Oligonucleotide Probes; D016012:Poisson Distribution; D016133:Polymerase Chain Reaction / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000379:methods*
chemical_list: D015345:Oligonucleotide Probes