PhD plant breeding and plant genetics, University of Wisconsin-Madison
BS biochemistry, University of Wisconsin-Madison
Areas of Interest
Plant Stress Resistance Biology
Plants respond to stresses by triggering a collection of molecular and cellular processes. Plant stresses can be abiotic, such as extreme temperatures, salinity, and drought; or biotic, such as pathogens and herbivores. These stresses affect the plants ability for proper growth, total yield, quality, and survival.
My group is largely interested in using enabling technologies to understand genomic and expression variation within species and associating these with phenotypic information to understand abiotic and biotic stresses. This includes understanding how this variation is manifested and how this variation influences phenotypes. We are utilizing a myriad of approaches towards increasing and sustaining plant health, including understanding responses to extreme temperatures and salinity, the role of the microbiome in plant stress response, and plant pathogen interactions, by asking questions about global gene expression responses, the mechanisms of response, the genome architecture of plants and pathogens, metabolite profiles, and precise and reproducible large-scale phenotyping. While using cutting edge technologies can answer important biological questions, we also focus on determining the limitations of data analyses using these technologies to enable accurate biological interpretations, especially in complex plant genomes.
Vinje M, Henson C, Duke S, Simmons C, Le K, Hall E, Hirsch CD. 2021. Description and function analysis of the transcriptome from malting barley. Genomics. 113: 3310-3324. https://doi.org/10.1016/j.ygeno.2021.07.011
Henningsen E, Omidvar V, Della Coletta R, Michno JM, Gilbert E, Li F, Miller M, Myers C, Gordon S, Vogel J, Steffenson B, Kianian S, Hirsch CD, Figueroa M. 2021. Identification of candidate susceptibility genes to Puccinia graminis f. sp. tritici in wheat. Frontiers in Plant Science. 12: 638. https://doi.org/10.3389/fpls.2021.657796
Su WH, Zhang J, Yang C, Page R, Szinyei T, Hirsch CD, Steffenson B. 2021. Automatic Evaluation of Wheat Resistance to Fusarium Head Blight Using Dual Mask-RCNN Deep Learning Frameworks in Computer Vision. Remote Sensing. 13: 1-26. https://doi.org/10.3390/rs13010026
Su WH, Yang C, Dong Y, Johnson R, Page R, Szinyei T, Hirsch CD, Steffenson B. 2021. Hyperspectral imaging and improved feature variable selection for automated determination of deoxynivalenol in various genetic lines of barley kernels for resistance screening. Food Chemistry. 343: 128507. https://doi.org/10.1016/j.foodchem.2020.128507
Li Z, Zhou P, Della Coletta R, Zhang T, Brohammer A, O!Connor C, Vaillancourt B, Lipzen A, Daum C, Barry K, de Leon N, Hirsch CD, Buell CR, Kaeppler S, Springer N, Hirsch CN. 2021. Single-parent expression drives dynamic gene expression complementation in maize hybrids. The Plant Journal. 105 (1): 93- 107. https://doi.org/10.1111/tpj.15042
Qiu Y, Yang Y, Hirsch CD, Watkins E. 2021. Building a reference transcriptome for the hexaploid hard fescue turfgrass (Festuca brevipila) using a combination of PacBio Isoseq and Illumina sequencing. Crop Science. 61 (4): 2798-2811. https://doi.org/10.1002/csc2.20489