Genome size estimation of liver fluke Opisthorchis viverrini by real-time polymerase chain reaction based method

The human liver fluke, Opisthorchis viverrini, has been categorized as a class one carcinogenic organism according to its strong association with cholangiocarcinoma, bile duct cancer which has high incidence in the northeast of Thailand. The lack of genome database of this parasite limited the studies aimed to understand the basic molecular biology of this carcinogenic liver fluke. The determination of the genome size is an initial step prior to the full genome sequencing. In this study, we applied an absolute quantitative real-time polymerase chain reaction for this aspect. Our results indicated the genome size of O. viverrini is 75.95 Mb or C value 0.083. The information of O. viverrini genome size is useful for estimation of sequence coverage and the cost of the parasite's whole genome sequencing using next-generation sequencing technologies.

Graphical abstractFigure optionsDownload full-size imageDownload as PowerPoint slideHighlights► Genome size is needed for assuming the sequence coverage during sequencing. ► We determine the Opisthorchis viverrini genome size by real-time PCR approach. ► The method is reasonably accurate using human genome size as the reference. ► The genome of Opisthorchis viverrini is estimated to be 75.95 Mb or C value 0.083.