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 Horticultural Crops Disease and Pest Management Research Unit: Corvallis, OR
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ARS Home Pacific West Area Corvallis, Oregon Horticultural Crops Disease and Pest Management Research Unit People







Brenda  Shaffer    Biological Science Technician (Microbiology) Brenda Shaffer Biological Science Technician 541-738-4055 brenda.shaffer@usda.gov  Stockwell Lab **Publications** (Clicking on the reprint icon Reprint Icon will take you to the publication reprint.)Genome-based evolutionary history of Pseudomonas spp -Hesse, C.N., Schulz, F., Bull, C.T., Shaffer, B.T., Yan, Q., Shapiro, N., Hassan, K.A., Varghese, N., Elbourne, L.D., Paulsen, I.T., Kyrpides, N., Woyke, T., Loper, J.E. 2018. Genome-based evolutionary history of Pseudomonas spp. Environmental Microbiology. 20(6):2142–2159. https://doi.org/10.1111/1462-2920.14130.Fungicide resistance profiles of Botrytis cinerea isolated from berry crops in Oregon -Stockwell, V.O., Shaffer, B.T., Jones, L.A., Pscheidt, J.W. 2018. Fungicide resistance profiles of Botrytis cinerea isolated from berry crops in Oregon. Abstract for International Congress of Plant Pathology: Plant Health in A Global Economy; 2018 July 29-Aug 3; Boston, MASecondary metabolism and interspecific competition affect accumulation of spontaneous mutants in the GacS-GacA regulatory system in Pseudomonas protegens -Yan, Q., Lopes, L., Shaffer, B.T., Kidarsa, T.A., Vining, O., Philmus, B., Song, C., Stockwell, V.O., Raaijmakers, J., McPhail, K.L., Andreote, F., Chang, J.H., Loper, J.E. 2018. Secondary metabolism and interspecific competition affect accumulation of spontaneous mutants in the GacS-GacA regulatory system in Pseudomonas protegens. mBio. 9(1):e01845-17. https://doi.org/10.1128/mBio.01845-17.Characterization of toxin complex gene clusters and insect toxicity of bacteria representing four subgroups of Pseudomonas fluorescens -Rangel, L.I., Henkels, M.D., Shaffer, B.T., Walker, F.L., Davis Ii, E.W., Stockwell, V.O., Bruck, D.J., Taylor, B.J., Loper, J.E. 2016. Characterization of toxin complex gene clusters and insect toxicity of bacteria representing four subgroups of Pseudomonas fluorescens. PLoS One. 11(8):e0161120. doi: 10.1371/journal.pone.0161120.An inter-species signaling system mediated by fusaric acid has parallel effects on antifungal metabolite production by Pseudomonas protegens Pf-5 and antibiosis of Fusarium spp. -Quecine, M.C., Kidarsa, T.A., Goebel, N.C., Shaffer, B.T., Henkels, M.D., Zabriskie, T.M., Loper, J.E. 2016. An inter-species signaling system mediated by fusaric acid has parallel effects on antifungal metabolite production by Pseudomonas protegens Pf-5 and antibiosis of Fusarium spp. Applied and Environmental Microbiology. 82:1372-1382.Investigations into the biosynthesis, regulation and self-resistance of toxoflavin in Pseudomonas protegens Pf-5 -Philmus, B.J., Shaffer, B.T., Kidarsa, T.A., Yan, Q., Raaijmakers, J.M., Begley, T.P., Loper, J.E. 2015. Investigations into the biosynthesis, regulation and self-resistance of toxoflavin in Pseudomonas protegens Pf-5. ChemBioChem. doi: 10.1002/cbic.201500247.A functional gene cluster for toxoflavin biosynthesis in the genome of the soil bacterium Pseudomonas protegens Pf-5 -Philmus, B., Shaffer, B.T., Yan, Q., Loper, J.E. 2015. A functional gene cluster for toxoflavin biosynthesis in the genome of the soil bacterium Pseudomonas protegens Pf-5 [abstract]. Phytopathology. 105:54.Characterization of Pseudomonas syringae from blueberry fields in Oregon and Washington -Stockwell, V.O., Shaffer, B.T., Bennett, R., Lee, J., Loper, J.E. 2015. Characterization of Pseudomonas syringae from blueberry fields in Oregon and Washington [abstract]. Phytopathology. 105:54.132.Pseudomonas protegens Pf-5 causes discoloration and pitting of mushroom caps due to the production of antifungal metabolites -Henkels, M.D., Kidarsa, T.A., Shaffer, B.T., Goebel, N.C., Burlinson, P., Mavrodi, D.V., Bentley, M.A., Rangel, L.I., Davis Ii, E.W., Thomashow, L.S., Zabriskie, T., Preston, G.M., Loper, J.E. 2014. Pseudomonas protegens Pf-5 causes discoloration and pitting of mushroom caps due to the production of antifungal metabolites. Molecular Plant-Microbe Interactions. 27(7):733-746.pA506: A conjugative plasmid of the plant epiphyte Pseudomonas fluorescens A506 -Stockwell, V.O., Davis, E.W., Carey, A.B., Shaffer, B.T., Mavrodi, D.V., Hassan, K.A., Hockett, K.L., Thomashow, L.S., Paulsen, I.T., Loper, J.E. 2013. pA506: A conjugative plasmid of the plant epiphyte Pseudomonas fluorescens A506. Applied and Environmental Microbiology. 79:5272-5282.Genes expressed by the biological control bacterium Pseudomonas protegens Pf-5 on seed surfaces under the control of the global regulators GacA and RpoS -Kidarsa, T.A., Shaffer, B.T., Goebel, N.C., Roberts, D.P., Buyer, J.S., Johnson, A., Kobayashi, D.Y., Paulsen, I., Loper, J.E. 2013. Genes expressed by the biological control bacterium Pseudomonas protegens Pf-5 on seed surfaces under the control of the global regulators GacA and RpoS. Environmental Microbiology. 15:716-735.Comparative genomics of plant-associated Pseudomonas spp.: Insights into diversity and inheritance of traits involved in multitrophic interactions -Loper, J.E., Hassan, K.A., Mavrodi, D., Davis, E.W., Lim, C., Shaffer, B.T., Elbourne, L.H., Stockwell, V.O., Hartney, S.L., Breakwell, K., Henkels, M.D., Tetu, S.G., Rangel, L.I., Kidarsa, T.A., Wilson, N.L., Van Mortel, J., Song, C., Blumhagen, R., Radune, D., Hostetler, J.B., Brinkac, L.M., Durkin, A., Kluepfel, D.A., Wechter, W.P., Anderson, A.J., Kim, Y., Pierson Iii, L.S., Pierson, E.A., Lindow, S.E., Raaijmakers, J.M., Weller, D.M., Thomashow, L.S., Allen, A.E., Paulsen, I.I. 2012. Comparative genomics of plant-associated Pseudomonas spp.: Insights into diversity and inheritance of traits involved in multitrophic interactions. PLoS Genetics. 8(7):e1002784.Factors influencing efficacy of plastic shelters for control of bacterial blight of lilac -Stockwell, V., Shaffer, B.T., Henkels, M.D., Pscheidt, J.W., Loper, J.E. 2011. Factors influencing efficacy of plastic shelters for control of bacterial blight of lilac. Phytopathology. 101(6S):172.Genomic Diversity of Biocontrol Strains of Pseudomonas spp. Isolated from Aerial or Root Surfaces of Plants -Loper, J.E., Davis, E.W., Lim, K., Hassan, K., Wilson, N., Hartney, S., Shaffer, B.T., Stockwell, V., Henkels, M.D., Shen, K., Blumhagen, R.Z., Mavrodi, D., Van Mortel, J., Song, C., Radune, D., Hostetler, J., Kluepfel, D.A., Wechter, W.P., Anderson, A., Young, C., Pierson, L., Pierson, E., Lindow, S., Raaijmakers, J., Weller, D.M., Thomashow, L.S., Allen, A., Paulsen, I. 2010. Genomic diversity of biocontrol strains of Pseudomonas spp. isolated from aerial or root surfaces of plants. International Symposium on Microbiology of Aerial Plant Surfaces Program Book. p.43.Management of Bacterial Blight of Lilac Caused by Pseudomonas syringae by Growing Plants under Plastic Shelters -Stockwell, V., Shaffer, B.T., Henkels, M.D., Pscheidt, J.W., Loper, J.E. 2010. Management of bacterial blight of lilac caused by Pseudomonas syringae by growing plants under plastic shelters. International Symposium on Microbiology of Aerial Plant Surfaces Program Book.p.80.Mining Genomes of Biological Control Strains of Pseudomonas spp.: Unexpected Gems and Tailings -Kidarsa, T.A., Hassan, K., Henkels, M.D., Shaffer, B.T., Gross, H., Allen, A., Paulsen, I.T., Loper, J.E. 2010. Mining Genomes of Biological Control Strains of Pseudomonas spp.: Unexpected Gems and Tailings. 12th International Conference on Plant-Pathogenic Bacteria Program Book. p.106.Inactivation of the GacA Response Regulator in Pseudomonas fluorescens Pf-5 Has Far-Reaching Transcriptomic Consequences -Hassan, K., Johnson, A., Shaffer, B.T., Ren, Q., Kidarsa, T.A., Elbourne, L.H., Hartney, S., Duboy, R., Goebel, N., Zabriskie, M.T., Paulsen, I.T., Loper, J.E. 2010. Inactivation of the GacA response regulator in Pseudomonas fluorescens Pf-5 has far-reaching transcriptomic consequences. Environmental Microbiology. 12(4):899-915.The Transcriptomic Fingerprint of the Pseudomonas fluorescens Pf-5 GacS/GacA Signal Transduction System -Hassan, K., Paulsen, I., Johnson, A., Ren, Q., Shaffer, B.T., Loper, J.E. 2009. The transcriptomic fingerprint of the Pseudomonas fluorescens Pf-5 GacS/GacA signal transduction system. International Plant Growth Promoting Rhizobacteria Workshop. p. 84.Role of rpfF in Virulence and Exoenzyme Production of Xanthomonas axonopodis pathovar glycines, the Causal Agent of Bacterial Pustule of Soybean -Thowthampitak, J., Shaffer, B.T., Prathuangwong, S., Loper, J.E. 2008. Role of rpfF in virulence and exoenzyme production of Xanthomonas axonopodis pathovar glycines, the causal agent of bacterial pustule of soybean. Phytopathology. 98(12):1252-1260.Isolation and Identification of Rhizoxin Derivatives from Pseudomonas fluorescens Pf-5 using a Genomic Mining Strategy -Loper, J.E., Henkels, M.D., Shaffer, B.T., Valeriote, F.A., Gross, H. 2008. Isolation and identification of rhizoxin derivatives from Pseudomonas fluorescens Pf-5 using a genomic mining strategy. Applied and Environmental Microbiology. 74(10):3085-3093.


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