title: Sentinel-base DNA genotyping using multiple sequencing primers for high-risk human papillomaviruses.
abstract: Despite the various technologies in place for genotyping human papillomaviruses (HPV), clinical use and clinical research demand a method that is fast, more reliable and cost-effective. The technology described here represents a breakthrough development in that direction. By combining the method of multiple sequencing primers with DNA sequencing, we have developed a rapid assay for genotyping HPV that relies on the identification of a single, type-specific 'sentinel' base. As described here, the prototype assay has been developed to recognize the 12 most high-risk HPV types (HPV-16, 18, 31, 33, 35, 39, 45, 51, 52, 56, 58 and 59) and is capable of recognizing and simultaneously genotyping multiple HPV co-infections. By providing sequence information on multiple HPV infections, this method eliminates the need for labor- and cost-intensive PCR cloning. These proof-of-concept studies establish the assay to be accurate, reliable, rapid, flexible, and cost-effective, providing evidence of the feasibility this technique for use in clinical settings.
authors.affiliation: Stanford Genome Technology Center, Stanford University, 855 California Avenue, Palo Alto, CA 94304, USA.
authors.forename: Baback
authors.initials: B
authors.lastname: Gharizadeh
authors.forename: Biying
authors.initials: B
authors.lastname: Zheng
authors.forename: Michael
authors.initials: M
authors.lastname: Akhras
authors.forename: Mehran
authors.initials: M
authors.lastname: Ghaderi
authors.forename: Olufisayo
authors.initials: O
authors.lastname: Jejelowo
authors.forename: Björn
authors.initials: B
authors.lastname: Strander
authors.forename: Pål
authors.initials: P
authors.lastname: Nyrén
authors.forename: Keng-Ling
authors.initials: KL
authors.lastname: Wallin
authors.forename: Nader
authors.initials: N
authors.lastname: Pourmand
mesh_terms: D017931:DNA Primers / Q000096:biosynthesis / Q000235:genetics*; D015344:DNA Probes, HPV / Q000235:genetics; D004279:DNA, Viral / Q000097:blood / Q000235:genetics; D005260:Female; D005838:Genotype; D006801:Humans; D027383:Papillomaviridae / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification; D030361:Papillomavirus Infections / Q000097:blood / Q000175:diagnosis / Q000821:virology*; D016133:Polymerase Chain Reaction; D012307:Risk Factors; D012680:Sensitivity and Specificity; D002578:Uterine Cervical Dysplasia / Q000097:blood / Q000175:diagnosis / Q000821:virology*
chemical_list: D017931:DNA Primers; D015344:DNA Probes, HPV; D004279:DNA, Viral