title: Aggregation effects of gold nanoparticles for single-base mismatch detection in influenza A (H1N1) DNA sequences using fluorescence and Raman measurements.
abstract: Aggregation effects of gold nanoparticles (AuNPs) were examined for the discrimination of single point mutations through the hybridization of oligonucleotides (25-50 nM) modified with a fluorescent Texas red dye. The sequences of oligonucleotides were designed to detect the H1N1 virus gene. Single-base mismatch detection due to different adsorption propensities of oligonucleotides could be achieved using fluorescence quenching and surface-enhanced Raman scattering (SERS) properties of the dye. We observed that the addition of perfectly matched double stranded DNA (pmdsDNA), modified with the Texas red dye in the suspension of citrate-reduced AuNPs could increase fluorescence recovery intensities more substantially than either single-base mismatched double stranded DNA (sbmdsDNA) or single stranded DNA (ssDNA). We also tested DNA hybridization under both aggregation and near non-aggregation conditions for fluorescence measurements. A spectral difference in fluorescence intensity between pmdsDNA and sbmdsDNA appeared to be more discriminating under near non-aggregation than aggregation conditions. On the other hand, the SERS intensities of pmdsDNA and sbmdsDNA decreased more significantly than that of ssDNA under aggregation conditions, whereas we could not observe any SERS intensities under non-aggregation conditions.
authors.affiliation: Department of Chemistry, Soongsil University, Seoul 156-743, Republic of Korea.
authors.forename: Erdene-Ochir
authors.initials: EO
authors.lastname: Ganbold
authors.forename: Taegyeong
authors.initials: T
authors.lastname: Kang
authors.forename: Kangtaek
authors.initials: K
authors.lastname: Lee
authors.forename: So Yeong
authors.initials: SY
authors.lastname: Lee
authors.forename: Sang-Woo
authors.initials: SW
authors.lastname: Joo
mesh_terms: D020137:Base Pair Mismatch / Q000235:genetics; D001483:Base Sequence; D015374:Biosensing Techniques; D004247:DNA / Q000737:chemistry / Q000235:genetics; D015342:DNA Probes; D004277:DNA, Single-Stranded / Q000737:chemistry / Q000235:genetics; D004279:DNA, Viral / Q000032:analysis*; D005456:Fluorescent Dyes / Q000737:chemistry; D006046:Gold / Q000737:chemistry; D006801:Humans; D053118:Influenza A Virus, H1N1 Subtype / Q000235:genetics / Q000302:isolation & purification*; D007251:Influenza, Human / Q000175:diagnosis* / Q000821:virology; D053768:Metal Nanoparticles / Q000737:chemistry*; D009693:Nucleic Acid Hybridization / Q000379:methods; D009841:Oligonucleotides / Q000737:chemistry / Q000235:genetics; D013050:Spectrometry, Fluorescence; D013059:Spectrum Analysis, Raman; D014966:Xanthenes / Q000737:chemistry
chemical_list: D015342:DNA Probes; D004277:DNA, Single-Stranded; D004279:DNA, Viral; D005456:Fluorescent Dyes; D009841:Oligonucleotides; D014966:Xanthenes; D006046:Gold; C034657:Texas red; D004247:DNA