A Rapid Detection Method for H3 Avian Influenza Viruses Based on RT-RAA

Simple Summary The continuous evolution of the H3 subtype of avian influenza virus (AIV) poses a constant threat to the poultry industry and human health. This study successfully established a highly specific and rapid detection method for H3 AIV using real-time reverse transcription recombinase-aided isothermal amplification (RT-RAA). This method achieves accurate detection of H3 AIV by designing specific primers and probes without cross-reactivity with other viruses. The results show that the method exhibits high sensitivity and specificity and is highly consistent with the results of real-time quantitative PCR (RT-qPCR). In addition, RT-RAA amplification products can be visually observed by a portable blue light instrument, which is suitable for rapid detection in resource-constrained settings.Abstract The continued evolution of H3 subtype avian influenza virus (AIV)-which crosses the interspecific barrier to infect humans-and the potential risk of genetic recombination with other subtypes pose serious threats to the poultry industry and human health. Therefore, rapid and accurate detection of H3 virus is highly important for preventing its spread. In this study, a method based on real-time reverse transcription recombinase-aided isothermal amplification (RT-RAA) was successfully developed for the rapid detection of H3 AIV. Specific primers and probes were designed to target the hemagglutinin (HA) gene of H3 AIV, ensuring highly specific detection of H3 AIV without cross-reactivity with other important avian respiratory viruses. The results showed that the detection limit of the RT-RAA fluorescence reading method was 224 copies/response within the 95% confidence interval, while the detection limit of the RT-RAA visualization method was 1527 copies/response within the same confidence interval. In addition, 68 clinical samples were examined and the results were compared with those of real-time quantitative PCR (RT-qPCR). The results showed that the real-time fluorescence RT-RAA and RT-qPCR results were completely consistent, and the kappa value reached 1, indicating excellent correlation. For visual detection, the sensitivity was 91.43%, the specificity was 100%, and the kappa value was 0.91, which also indicated good correlation. In addition, the amplified products of RT-RAA can be visualized with a portable blue light instrument, which enables rapid detection of H3 AIV even in resource-constrained environments. The H3 AIV RT-RAA rapid detection method established in this study can meet the requirements of basic laboratories and provide a valuable reference for the early diagnosis of H3 AIV.