Research Project: Fungal Host-Pathogen Interactions and Disease Resistance in Cereal Crops

Location: Crop Production and Pest Control Research

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

Optimizing corn tar spot measurement: a deep learning approach using red-green-blue imaging and Stromata Contour Detection Algorithm for leaf-level disease severity analysis - (Peer Reviewed Journal)
Lee, D., Na, D., Gongora-Canul, C., Jimenez-Beita, F.E., Goodwin, S.B., Cruz, A., Delp, E.J., Acosta, A.G., Lee, J., Falconi, C.E., Cruz, C.D. 2024. Optimizing corn tar spot measurement: a deep learning approach using red-green-blue imaging and Stromata Contour Detection Algorithm for leaf-level disease severity analysis. Plant Disease. https://doi.org/10.1094/pdis-12-23-2702-re.

Comparative genomics of the extremophile Cryomyces antarcticus and other psychrophilic Dothideomycetes - (Peer Reviewed Journal)
Gomez-Gutierrez, S.V., Sic-Hernandez, W., Haridas, S., Labutti, K., Eichenburger, J., Kaur, N., Lipzen, A., Barry, K., Goodwin, S.B., Gribskov, M., Grigoriev, I.V. 2024. Comparative genomics of the extremophile Cryomyces antarcticus and other psychrophilic Dothideomycetes. Frontiers in Fungal Biology. https://doi.org/10.3389/ffunb.2024.1418145.

Loop-mediated isothermal amplification (LAMP) for the detection and quantification of fungal phytopathogens - (Book / Chapter)

Genome-informed trophic classification and functional characterization of virulence proteins from the maize tar spot pathogen Phyllachora maydis - (Peer Reviewed Journal)
Rogers, A., Jaiswal, N., Roggenkamp, E., Kim, H., MacCready, J.S., Chilvers, M.I., Scofield, S.R., Iyer-Pascuzzi, A.S., Helm, M.D. 2024. Genome-informed trophic classification and functional characterization of virulence proteins from the maize tar spot pathogen Phyllachora maydis. Phytopathology. https://doi.org/10.1094/PHYTO-01-24-0037-R.

Differences among fungal microbiomes associated with tar spot of corn in Ecuador, Guatemala, and Indiana - (Abstract Only)
Sic, W., Gribskov, M., Acosta, A., Cruz, A., Cruz, C.D., Goodwin, S.B. 2024. Differences among fungal microbiomes associated with tar spot of corn in Ecuador, Guatemala, and Indiana. Meeting Abstract. https://doi.org/na.

Two-Part QTL Mapping Reveals Genetic Determinants of Fusarium graminearum resistance in Soybean - (Abstract Only)

Mechanisms of infection and response of the fungal wheat pathogen Zymoseptoria tritici during compatible, incompatible and non-host interactions - (Abstract Only)
Gomez, S.V., Million, C.R., Jaiswal, N., Gribskov, M., Helm, M.D., Goodwin, S.B. 2024. Mechanisms of infection and response of the fungal wheat pathogen Zymoseptoria tritici during compatible, incompatible and non-host interactions. Fungal Genetics Conference Proceedings. ABSTRACT.

Pseudomonas syringae pv. tomato DC3000 induces defense responses in diverse maize inbred lines - (Peer Reviewed Journal)
Jaiswal, N., Helm, M.D. 2024. Pseudomonas syringae pv. tomato DC3000 induces defense responses in diverse maize inbred lines. PhytoFrontiers. https://doi.org/10.1094/PHYTOFR-11-23-0149-SC.

Comparing tar spot epidemics in high-risk areas in the U.S. and Honduras - (Peer Reviewed Journal)
Gonhora-Canul, C., Puerto, C., Jimenez-Beitia, F.E., Telenko, D.E., Kleczewski, N.M., Rosas, J., Avellaneda, C., Sanders, A., Rodriguez, I.Y., Goodwin, S.B., Fernandez-Campos, M., Lee, D., Cruz, A.P., Cruz, C.D. 2024. Comparing tar spot epidemics in high-risk areas in the U.S. and Honduras. Canadian Journal of Plant Pathology. https://doi.org/10.1080/07060661.2023.2300077.

Uncovering the Infection Strategy of Phyllachora maydis during Maize Colonization: A Comprehensive Analysis - (Peer Reviewed Journal)
Caldwell, D., Da Silva, C., McCoy, A., Avila, H., Bonkowski, J., Chilvers, M., Helm, M.D., Telenko, D., Iyer-Pascuzzi, A. 2024. Uncovering the Infection Strategy of Phyllachora maydis during Maize Colonization: A Comprehensive Analysis. Phytopathology. https://doi.org/10.1094/PHYTO-08-23-0298-KC.

Marker development and pyramiding of Fhb1 and Fhb7 for enhanced resistance to Fusarium Head Blight in soft red winter wheat. - (Peer Reviewed Journal)
Gyawali, B., Scofield, S.R., Mohammadi, M. 2023. Marker development and pyramiding of Fhb1 and Fhb7 for enhanced resistance to Fusarium Head Blight in soft red winter wheat.. Crops. https://doi.org/10.3390/crops3040028.

Genetic architecture of adult-alant resistance to stripe rust in a bread wheat (Triticum aestivum L.) association panel - (Peer Reviewed Journal)
Atsbeha, G., Mekonnen, T., Kebede, M., Haileselassie, T., Goodwin, S.B., Tesfaye, K. 2023. Genetic architecture of adult-alant resistance to stripe rust in a bread wheat (Triticum aestivum L.) association panel. Frontiers in Plant Science. https://doi.org/fpls.2023.1256770.

Identification and Characterization of Candidate Effectors from the Wheat Pathogen Zymoseptoria tritici - (Abstract Only)
Gomez, S., Million, C., Jaiswal, N., Helm, M.D., Goodwin, S.B. 2023. Identification and Characterization of Candidate Effectors from the Wheat Pathogen Zymoseptoria tritici. International Congress of Plant Pathology Abstracts and Proceedings. ABSTRACT.

Tar Spot Disease Severity Influences Phyllosphere-Associated Bacterial and Fungal Microbiomes - (Proceedings)
Singh, R., Crane, C.F., Shim, S., Telenko, D.E., Goodwin, S.B. 2023. Tar Spot Disease Severity Influences Phyllosphere-Associated Bacterial and Fungal Microbiomes. International Congress of Plant Pathology Abstracts and Proceedings. ABSTRACT.

New quantitative trait loci (QTL) for resistance to tar Spot in maize - (Proceedings)
Singh, R., Crane, C.F., Shim, S., Telenko, D.E., Goodwin, S.B. 2023. New quantitative trait loci (QTL) for resistance to tar Spot in maize. International Congress of Plant Pathology Abstracts and Proceedings. ABSTRACT.

Phenotypic and genotypic resources for the USDA quinoa (Chenopodium quinoa) genebank accessions - (Peer Reviewed Journal)
Nepa, N., Condori-Apfata, J., Gaire, R., Anco, M., Scofield, S.R., Mohammadi, M. 2023. Phenotypic and genotypic resources for the USDA quinoa (Chenopodium quinoa) genebank accessions. Crop Science. https://doi.org/10.1002/csc2.21037.

Diagnosis of tar spot of corn caused by Phyllachora maydis using Loop-Mediated Isothermal Amplification (LAMP) and conventional PCR - (Proceedings)
Sic, W., Gomez, S., Cruz, C., Goodwin, S.B. 2023. Diagnosis of tar spot of corn caused by Phyllachora maydis using Loop-Mediated Isothermal Amplification (LAMP) and conventional PCR. International Congress of Plant Pathology Abstracts and Proceedings. ABSTRACT.

Combining Convolutional Neural Network (CNN) with a Stromata Contour Detection Algorithm (SCDA v1.0) to Detect and Quantify Tar Spot of Corn - (Proceedings)
Lee, D., Na, D., Goodwin, S.B., Lee, J., Cruz, C. 2023. Combining Convolutional Neural Network (CNN) with a Stromata Contour Detection Algorithm (SCDA v1.0) to Detect and Quantify Tar Spot of Corn. International Congress of Plant Pathology Abstracts and Proceedings.

The utility of proximal sensing and deep learning in the detection and characterization of tar spot epidemics on corn in the United States - (Proceedings)
Lee, D., Na, D., Gongora, C., Goodwin, S.B., Lee, J., Cruz, C.D. 2023. The utility of proximal sensing and deep learning in the detection and characterization of tar spot epidemics on corn in the United States. Plant Pathology International Congress. ABSTRACT.

Monitoring tar spot disease at different canopy and temporal levels using aerial multispectral imaging and machine learning - (Abstract Only)
Zhang, C., Lane, B., Fernandez-Campos, M., Cruz-Sancan, A., Lee, D., Gongora-Canul, C., Ross, T.J., Da Silva, C.R., Telenko, D.E., Goodwin, S.B., Scofield, S.R., Oh, S., Jung, J., Cruz, C. 2023. Monitoring tar spot disease at different canopy and temporal levels using aerial multispectral imaging and machine learning. American Phytopathological Society Abstracts. ABSTRACT.

Identification and Characterization of Candidate Effectors from the Wheat Pathogen Zymoseptoria tritici - (Abstract Only)
Gomez, S., Million, C., Jaiswal, N., Helm, M.D., Goodwin, S.B. 2023. Identification and Characterization of Candidate Effectors from the Wheat Pathogen Zymoseptoria tritici. International Congress on Molecular Plant-Microbe Interactions. ABSTRACT.

Analysis of cell death induction by the barley NLR immune receptor PBR1 - (Peer Reviewed Journal)
Jaiswal, N., Myers, A., Cameron, T.L., Carter, M.E., Scofield, S.R., Helm, M.D. 2023. Analysis of cell death induction by the barley NLR immune receptor PBR1. PhytoFrontiers. https://doi.org/10.1094/PHYTOFR-01-23-0005-R.

Assessment of symptom induction via artificial inoculation of the obligate biotrophic fungus Phyllachora maydis (Maubl.) on corn leaves - (Peer Reviewed Journal)
Gongora-Canul, C., Jimenez-Beitia, F.E., Puerto-Hernandez, C., Avellaneda, M.C., Kleczewski, N.M., Telenko, D.E., Shim, S., Solorzano, J.E., Goodwin, S.B., Scofield, S.R., Cruz, C.D. 2023. Assessment of symptom induction via artificial inoculation of the obligate biotrophic fungus Phyllachora maydis (Maubl.) on corn leaves. BMC Research Notes. 16. Article 69. https://doi.org/10.1186/s13104-023-06341-y.

Genetic dissection using a nested-association mapping (NAM) population reveals quantitative trait loci (QTL) conferring resistance to Tar Spot in maize - (Abstract Only)
Singh, R., Crane, C.F., Shim, S., Telenko, D.E., Goodwin, S.B. 2023. Genetic dissection using a nested-association mapping (NAM) population reveals quantitative trait loci (QTL) conferring resistance to Tar Spot in maize. Maize Genetics Conference Abstracts. ABSTRACT.

Identification and initial characterization of effector candidate genes in the wheat fungus Zymoseptoria tritici expressed during infection - (Abstract Only)
Gomez, S.V., Million, C., Helm, M.D., Jaiswal, N., Goodwin, S.B. 2023. Identification and initial characterization of effector candidate genes in the wheat fungus Zymoseptoria tritici expressed during infection. European Conference on Fungal Genetics Proceedings. ABSTRACT.

A thousand-genome panel retraces the global spread and climatic adaptation of a major crop pathogen - (Peer Reviewed Journal)
Feurtey, A., Lorrain, C., McDonald, M.C., Milgate, A., Solomon, P.S., Warren, R., Puccetti, G., Scalliet, G., Torriani, S.F.F., Gout, L., Marcel, T.C., Suffert, F., Alassimone, J., Lipzen, A., Yoshinaga, Y., Daum, C., Barry, K., Grigoriev, I.V., Goodwin, S.B., Genissel, A., Seidel, M.F., Stukenbrock, E.H., Lebrun, M.-H., Kema, G.H.J., McDonald, B.A., Croll, D. 2023. A thousand-genome panel retraces the global spread and adaptation of a major fungal crop pathogen. Nature Communications. 14. Article 1059. https://doi.org/10.1038/s41467-023-36674-y.

Comparative secretome analysis of Zymoseptoria tritici isolates and Dothideomycete species to identify conserved secreted effector proteins - (Abstract Only)
Gomez, S., Goodwin, S.B., Gribskov, M. 2023. Comparative secretome analysis of Zymoseptoria tritici isolates and Dothideomycete species to identify conserved secreted effector proteins. Plant and Animal Genome 30. 13-18 Jan 2023, San Diego, CA.

Monitoring tar spot disease at different canopy and temporal levels using aerial multispectral imaging and machine learning - (Peer Reviewed Journal)
Zhang, C., Lane, B., Fernandez-Campos, M., Cruz-Sancan, A., Lee, D.-Y., Gongora-Canul, C., Ross, T.J., Da Silva, C.R., Telenko, D.E.P., Goodwin, S.B., Scofield, S.R., Oh, S, Jung, J., Cruz, C.D. 2023. Monitoring tar spot disease in corn at different canopy and temporal levels using aerial multispectral imaging and machine learning. Frontiers in Plant Science. 13. Article 1077403. https://doi.org/10.3389/fpls.2022.1077403.

Candidate effector proteins from the maize tar spot pathogen Phyllachora maydis localize to diverse plant cell compartments - (Peer Reviewed Journal)
Helm, M.D., Singh, R., Hiles, R., Jaiswal, N., Myers, A., Iyer-Pascuzzi, A., Goodwin, S.B. 2023. Candidate effector proteins from the maize tar spot pathogen Phyllachora maydis localize to diverse plant cell compartments. Phytopathology. 112(12):2538-2548. https://doi.org/10.1094/PHYTO-05-22-0181-R.

Candidate effector proteins from the maize tar spot pathogen Phyllachora maydis localize to diverse plant cell compartments - (Abstract Only)
Helm, M.D., Singh, R., Hiles, R., Myers, A., Iyer-Pascuzzi, A.S., Goodwin, S.B. 2022. Candidate effector proteins from the maize tar spot pathogen Phyllachora maydis localize to diverse plant cell compartments. American Phytopathological Society Abstracts. Plant Health 2022. 6-10 Aug 2022, Pittsburgh, PA.