The fish intestinal mucosa is among the main sites through which environmental microorganisms interact with the host. Therefore, this tissue not only constitutes the first line of defense against pathogenic microorganisms but also plays a crucial role in commensal colonization. The interaction between the mucosal immune system, commensal microbiota, and viral pathogens has been extensively described in the mammalian intestine. However, very few studies have characterized these interactions in early vertebrates such as teleosts. In this study, rainbow trout (Oncorhynchus mykiss) was infected with infectious hematopoietic necrosis virus (IHNV) via a recently developed immersion method to explore the effects of viral infection on gut immunity and microbial community structure. IHNV successfully invaded the gut mucosa of trout, resulting in severe tissue damage, inflammation, and an increase in gut mucus. Moreover, viral infection triggered a strong innate and adaptive immune response in the gut, and RNA−seq analysis indicated that both antiviral and antibacterial immune pathways were induced, suggesting that the viral infection was accompanied by secondary bacterial infection. Furthermore, 16S rRNA sequencing also revealed that IHNV infection induced severe dysbiosis, which was characterized by large increases in the abundance of Bacteroidetes and pathobiont proliferation. Moreover, the fish that survived viral infection exhibited a reversal of tissue damage and inflammation, and their microbiome was restored to its pre−infection state. Our findings thus demonstrated that the relationships between the microbiota and gut immune system are highly sensitive to the physiological changes triggered by viral infection. Therefore, opportunistic bacterial infection must also be considered when developing strategies to control viral infection.

Wind vector estimation method with high accuracy in the low signal-to-noise ratio region improves the performance of pulsed coherent Doppler lidar. The key to improving accuracy is to process the incorrect radial wind estimates or the distorted power spectra better. The smoothed accumulated spectra based weighted sine wave fitting method proposed here minimizes the effects of bad radial wind estimates by considering both signal intensity and wind spatial continuity. Leveraging spatial continuity from smoothed accumulated spectra, the weight coefficients and real-time wind vector profiles can be quickly determined with non-looped operations. Simulations and field experiments showed that the proposed method provides comparable or even slightly better quality and more available wind vector estimates than the filtered sine wave fitting method.

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The gain ratio is a critical parameter in a polarization Mie lidar. Calibrating the gain ratio is essential in aerosol classification studies. We developed a ray-tracing-based simulation method to investigate the impact of mounting errors on the gain ratio. In this method, a computational model for each element of the lidar was built, and Zemax was used to simulate the lidar receiver to obtain the optical gain ratio by theoretical calculations. This method can analyze the influence of each element’s mounting errors and offer a theoretical foundation for the machining and mounting accuracy of the lidar design. The correctness of the model was verified by applying it to a single-wavelength polarization Mie Raman lidar.

With all my heart, I thank my major professor, Prof. Daniela Dimitrova, for her great patience and support during my studies, as well as her help with my future plans. I would also like to thank my committee members, Prof. Dennis Chamberlin and Prof. Jonathan Hassid, for their suggestions and encouragement throughout this research and my daily life. In addition, I wish to thank Prof. Tracy Lucht, Prof. Gang Han, and Prof. Michael Dahlstrom for their help with my research. I would like to also offer my sincere appreciation to Greenlee faculty and staff for making my time at Iowa State University a wonderful experience. Without any single piece of knowledge and skills that I have obtained in Greenlee School of Journalism and Communication, I could not complete this research. Finally, thanks to my family and friends for their help and support, who bring me everlasting hope and love.