Rapid and highly informative diagnostic assay for H5N1 influenza viruses
Nader Pourmand¹*, Lisa Diamond¹, Rebecca Garten², Julianna P. Erickson¹, Jochen Kumm¹, Ruben Donis², Ronald W. Davis¹
1Stanford Genome Technology Center, Stanford University, 855 California Avenue, Palo Alto, CA 94304
2Influenza Branch, Div. of Viral & Rickettsial Diseases,
Centers for Disease Control and Prevention, 1600 Clifton Road MS-G16, Atlanta,
GA 30333
Corresponding Author: Nader Pourmand (Email: pourmand (at) stanford (dot) edu)
Figure 1:
Raw data for CDC H5N1 Avian Influenza samples. The nucleotide sequence of this strain, obtained from GenBank, appears in (A). PCR primers are labeled in purple text, forward pyrosequencing primers in green, and reverse pyrosequencing primers in blue. Clade markers are illustrated in yellow, active sites in red (overlap with sequencing primer is italicized). Pyrograms obtained on the PSQ HS96A System with primer F-H5N1-site1CM (B), R-H5N1-site1CM (C), F-H5N1-site2AS (D), F-H5N1-site3CM (E), R-H5N1-site4AS (F), F-H5N1-site5CM (G), F-H5N1-site6AS (H), and R-H5N1-site6AS (I) appear sequentially below. Peaks appearing above a given nucleotide indicate the incorporation of that nucleotide during the pyrosequencing reaction; peak height corresponds to the number of inserted nucleotides. Reverse-primed reactions must be read as reverse complements, and in opposite order, to check data correspondence.