Research Project: Improving Salmonid Health through Breeding, Vaccination and Microbiome Modulation

Location: Cool and Cold Water Aquaculture Research

Publications (Clicking on the reprint icon will take you to the publication reprint.)

Exposure dosage and host genetics influence the shedding kinetics of Flavobacterium psychrophilum in rainbow trout - (Peer Reviewed Journal)

Understanding the transfer and persistence of antimicrobial resistance in aquaculture using a model teleost gut system - (Pre-print Publication)
Barcan, A.S., Humble, J., Kasaragod, S., Sajib, M., Barcan, R.A., Mcginnity, P., Welch, T.J., Robertson, B., Vamanu, E., Bacigalupo, A., Llewellyn, M.S., Pedrals, F.S. 2024. Understanding the transfer and persistence of antimicrobial resistance in aquaculture using a model teleost gut system. bioRxiv. 605792. https://doi.org/10.1101/2024.07.30.605792.

Structural and genetic basis for the binding of a mouse monoclonal antibody to Flavobacterium psychrophilum lipopolysaccharide - (Peer Reviewed Journal)
Cisar, J.O., Wang, X., Woods, R.J., Cain, K.D., Wiens, G.D. 2024. Structural and genetic basis for the binding of a mouse monoclonal antibody to Flavobacterium psychrophilum lipopolysaccharide. Journal of Fish Diseases. Article e13958. https://doi.org/10.1111/jfd.13958.

Seasonal mortality of Atlantic menhaden is associated with neurologic disease caused by a virulent clone of Vibrio anguillarum: Fish kills and implications for biosecurity - (Peer Reviewed Journal)
Lovy, J., Iwanowicz, L.R., Welch, T.J., Allam, B., Getchell, R., Geraci-Yee, S., Good, C., Snyder, J., Raines, C., Das, N. 2024. Seasonal mortality of Atlantic menhaden is associated with neurologic disease caused by a virulent clone of Vibrio anguillarum: Fish kills and implications for biosecurity. Transboundary and Emerging Diseases. 18:8816604. https://doi.org/10.1155/2024/8816604.

Gliding motility proteins GldJ and SprB contribute to Flavobacterium columnare virulence - (Peer Reviewed Journal)
Thunes, N.C., Evenhuis, J., Lipscomb, R.S., Perez-Pascual, D., Stevick, R.J., Birkett, C., Ghigo, J., Mcbride, M.J. 2024. Gliding motility proteins GldJ and SprB contribute to Flavobacterium columnare virulence. Applied and Environmental Microbiology. 206(4). https://doi.org/10.1128/jb.00068-24.

Pseudomonas aphyarum sp. nov., Pseudomonas fontis sp. nov., Pseudomonas idahonensis sp. nov. and Pseudomonas rubra sp. nov., isolated from in, and around, a rainbow trout farm - (Peer Reviewed Journal)
Graf, J., Testerman, T., Varga, J., Donohue, H., Vieira Da Silva, C., Schiffer, M. 2023. Pseudomonas aphyarum sp. nov., Pseudomonas fontis sp. nov., Pseudomonas idahonensis sp. nov. and Pseudomonas rubra sp. nov., isolated from in, and around, a rainbow trout farm. International Journal of Systematic and Evolutionary Microbiology. 73(12):006201. https://doi.org/10.1099/ijsem.0.006201.

Plasma proteomic profiling of bacterial cold-water disease resistant and susceptible rainbow trout lines and biomarker discovery - (Peer Reviewed Journal)
Wiens, G.D., Marancik, D.P., Chadwick, C.C., Osbourn, K.E., Reid, R.M., Leeds, T.D. 2023. Plasma proteomic profiling of bacterial cold-water disease resistant and susceptible rainbow trout lines and biomarker discovery. Frontiers in Immunology. 14. https://doi.org/10.3389/fimmu.2023.1265386.

Detection Of Lactococcus spp. in environmental samples and wild fish from Four Lakes in Southern California - (Peer Reviewed Journal)
Abraham, T., Yazdi, Z., Littman, E., Shahin, K., Heckman, T.I., Quijano Cardé, E., Nguyen, D., Hua, R., Soto, E., Adkison, M., Veek, T., Mukkatira, K., Richey, C., Kwak, K., Mohammed, H., Ortega, C., Avendaño-Herrera, R., Hyatt, M.W., Keleher, W., Welch, T.J. 2023. Detection Of Lactococcus spp. in environmental samples and wild fish from Four Lakes in Southern California. Journal of Aquatic Animal Health. 35(3):129-198. https://doi.org/10.1002/aah.10188.

Pan-genome survey of the fish pathogen Yersinia ruckeri links accessory- and amplified genes to virulence - (Peer Reviewed Journal)
Riborg, A., Gulla, S., Colquhoun, D.J., Zeyl Fiskebeck, E., Ryder, D., Verner-Jeffreys, D., Welch, T.J. 2023. Pan-genome survey of the fish pathogen Yersinia ruckeri links accessory- and amplified genes to virulence. PLoS Pathogens. (18)5:e0285257. https://doi.org/10.1371/journal.pone.0285257.

Comparative evaluation of booster vaccine efficacy by intracoelomic injection and immersion with a whole-cell killed vaccine against Lactococcus petauri infection in rainbow trout (Oncorhynchus mykiss) - (Peer Reviewed Journal)
De Ruyter, T., Littman, E., Yazdi, Z., Adkison, M., Camus, A., Yun, S., Welch, T.J., Keleher, W.R., Soto, E. 2023. Comparative evaluation of booster vaccine efficacy by intracoelomic injection and immersion with a whole-cell killed vaccine against Lactococcus petauri infection in rainbow trout (Oncorhynchus mykiss). Pathogens. (12)5:632. https://doi.org/10.3390/pathogens12050632.

Secreted peptidases contribute to virulence of fish pathogen Flavobacterium columnare - (Peer Reviewed Journal)
Thunes, N.C., Mohammed, H.H., Evenhuis, J., Lipscomb, R.S., Perez-Pascual, D., Stevick, R.J., Birkett, C., Conrad, R.A., Ghigo, J., Mcbride, M.J. 2023. Secreted peptidases contribute to virulence of fish pathogen Flavobacterium columnare. Frontiers in Cellular and Infection Microbiology. 13. Article:1093393. https://doi.org/10.3389/fcimb.2023.1093393.

Plasma proteomic profiling of bacterial cold-water disease resistant and susceptible rainbow trout lines and identification of a novel disease biomarker - (Abstract Only)
Wiens, G.D., Marancik, D.P., Chadwick, C.C., Reid, R.M., Osbourn, K.E., Leeds, T.D. 2022. Plasma proteomic profiling of bacterial cold-water disease resistant and susceptible rainbow trout lines and identification of a novel disease biomarker. Fish and Shellfish Immunology. 131(2022)1297. https://doi.org/10.1016/j.fsi.2022.10.042.

A large-scale, multi-year microbial community survey of a freshwater trout aquaculture facility - (Peer Reviewed Journal)
Graf, J., Testerman, T., Beka, L., Reichley, S.R., King, S., Welch, T.J., Wiens, G.D. 2022. A large-scale, multi-year microbial community survey of a freshwater trout aquaculture facility. FEMS Microbiology Ecology. 98:1-15. https://doi.org/10.1101/2022.05.03.490559.

qPCR screening for Yersinia ruckeri clonal complex 1 against a background of putatively avirulent strains in Norwegian aquaculture - (Peer Reviewed Journal)
Riborg, A., Gulla, S., Strand, D., Wiik-Nielsen, J., Ronneseth, A., Welch, T.J., Spilsberg, B., Colquhoun, D.J. 2022. qPCR screening for Yersinia ruckeri clonal complex 1 against a background of putatively avirulent strains in Norwegian aquaculture. Journal of Fish Diseases. https://doi.org/10.1111/jfd.13656.

Aquaculture reuse water, genetic line and vaccination affect Rainbow trout (Oncorhynchus mykiss) disease susceptibility and infection dynamics - (Peer Reviewed Journal)
Everson, J.L., Jones, D., Taylor, A., Rutan, B., Leeds, T.D., Langwig, K., Wargo, A.R., Wiens, G.D. 2021. Aquaculture reuse water, genetic line and vaccination affect Rainbow trout (Oncorhynchus mykiss) disease susceptibility and infection dynamics. Frontiers in Immunology. 12: Article 721048. https://doi.org/10.3389/fimmu.2021.721048.

Genetic characterization of heterologous Edwardsiella piscicida isolates from diverse fish hosts and virulence assessment in a Chinook salmon Oncorhynchus tshawytscha model - (Peer Reviewed Journal)
Nguyen, D., López-Porras, A., Marancik, D., Hawkins, L., Welch, T.J., Petty, B., Ware, C., Griffin, M.J., Soto, E. 2021. Genetic characterization of heterologous Edwardsiella piscicida isolates from diverse fish hosts and virulence assessment in a Chinook salmon Oncorhynchus tshawytscha model. Journal of Fish Diseases. 44(12):1959-1970. https://doi.org/10.1111/jfd.13509.

Isolation and characterization of Lactococcus garvieae from rainbow trout, Onchorhyncus mykiss, from California, USA. - (Peer Reviewed Journal)
Shahin, K., Veek, T., Heckman, T.I., Littman, E., Mukkatira, K., Adkinson, M., Welch, T.J., Imai, D.M., Pastenkos, G., Camus, A., Soto, E. 2021. Isolation and characterization of Lactococcus garvieae from rainbow trout, Onchorhyncus mykiss, from California, USA. Transboundary and Emerging Diseases. https://doi.org/10.1111/tbed.14250.

Draft Genome of Aeromonas popoffii ID682, isolated from a natural water source in Idaho - (Database / Dataset)
Testman, T., Reichley, S., King, S., Graf, J. 2021. Draft Genome of Aeromonas popoffii ID682, isolated from a natural water source in Idaho. Microbiology Resource Announcements. 10(29): e00445-21. https://doi.org/10.1128/MRA.00445-21.

Draft Genome of Janthinobacterium lividum ID1246, isolated from a rainbow trout hatchery biofilm - (Database / Dataset)
Testman, T., Reichley, S., King, S., Graf, J. 2021. Draft Genome of Janthinobacterium lividum ID1246, isolated from a rainbow trout hatchery biofilm. Microbiology Resource Announcements. 10:e00444-21. https://doi.org/10.1128/MRA.00444-21.

Detecting Flavobacterial Fish Pathogens in the Environment Using High-Throughput 2 Community Analysis - (Peer Reviewed Journal)
Testerman, T., Beka, L., Mcclure, E.A., Reichley, S., King, S., Welch, T.J., Graf, J. 2021. Detecting flavobacterial fish pathogens in the environment using high-throughput 2 community analysis. Applied and Environmental Microbiology. 6(21):447745. https://doi.org/10.1101/2021.06.21.447745.

Growth of flavobacterium columnare in TYE with or without supplemented cations - (Peer Reviewed Journal)
Evenhuis, J., Lipscomb, R.S., Birkett, C. 2021. Growth of flavobacterium columnare in TYE with or without supplemented cations. Current Microbiology. 78: 2474–2480. https://doi.org/10.1007/s00284-021-02507-8.

Systematic Detection of Large-Scale Multigene Horizontal Transfer in Prokaryotes - (Peer Reviewed Journal)
Kloub, L., Gosselin, S., Fullmer, M., Graf, J., Gogarten, J., Bansal, M. 2021. Systematic detection of large-scale multigene horizontal transfer in prokaryotes. Molecular Biology and Evolution. 38(6):2639-2659. https://doi.org/10.1093/molbev/msab043.

Virulence variations of flavobacterium columnare in rainbow trout (Oncorhynchus mykiss) eyed eggs and alevin - (Peer Reviewed Journal)
Evenhuis, J., Lipscomb, R.S., Birkett, C. 2021. Virulence variations of flavobacterium columnare in rainbow trout (Oncorhynchus mykiss) eyed eggs and alevin. Journal of Fish Diseases. 44(5): 533-539. https://doi.org/10.1111/jfd.13343.

Closed Genome Sequence of Aeromonas veronii Strain Hm21, an Isolate from the Medicinal Leech Hirudo verbana - (Database / Dataset)
Graf, J., Nelson, M.C., Colston, S.M. 2020. Closed Genome Sequence of Aeromonas veronii Strain Hm21, an Isolate from the Medicinal Leech Hirudo verbana. Microbiology Resource Announcements. 9(42): e00922-20. https://doi.org/10.1128/MRA.00922-20.

The type IX secretion system is required for virulence of the fish pathogen Flavobacterium psychrophilum - (Peer Reviewed Journal)
Barbier, P., Rochat, T., Mohammed, H.H., Wiens, G.D., Bernardet, J., Halpern, D., Duchaud, E., McBride, M.J. 2020. The type IX secretion system is required for virulence of the fish pathogen Flavobacterium psychrophilum. Applied and Environmental Microbiology. AEM.00799-20. https://doi.org/10.1128/AEM.00799-20.

Comparative and Evolutionary Genomics of Isolates Provide Insight into the Pathoadaptation of Aeromonas - (Peer Reviewed Journal)
Talagrand-Reboul, E., Colston, S.M., Graf, J., Lamy, B., Jumas-Bilak, E. 2020. Comparative and Evolutionary Genomics of Isolates Provide Insight into the Pathoadaptation of Aeromonas. Genome Biology and Evolution. 12(5):535-552. https://doi.org/10.1093/gbe/evaa055.