Clc genomics workbench versus deseq21/7/2023 ![]() mays resistance genes influencing the expression of specific A. This analysis also revealed, for the first time, the activation of Z. Multiple WRKY genes targeting the activation of the resistance pathways (i.e., jasmonate, phenylpropanoid, and ethylene) were detected using causal inference analysis. flavus, transcripts and pathways involved in endosomal transport, aflatoxin production, and carbohydrate metabolism were up-regulated. flavus produces a relatively limited number of transcripts during the early stages (0 to 12 h) of infection. The stage of infection index used for the transcriptomic analysis revealed that A. Additionally, we were able to ascertain that key maize genes in pathways such as the jasmonate, ethylene and ROS pathways, were up-regulated in the study. This led to the development of a “stage of infection index” that was subsequently used to categorize the samples before down-stream system biology analysis. What was dramatically highlighted in the analysis is the uniformity in the development patterns of gene expression of the host and the pathogen during infection. Therefore, the authors undertook a systems biology approach involving dual RNA-seq to determine the simultaneous response from the host and the pathogen. The interaction between Aspergillus flavus and Zea mays is complex, and the identification of plant genes and pathways conferring resistance to the fungus has been challenging. 5Department of Plant Soil and Agriculture Systems, Southern Illinois University, Carbondale, IL, United States.4Department of Plant Pathology, North Carolina State University, Raleigh, NC, United States.3Warm Water Aquaculture Research Unit, USDA-ARS, Stoneville, MS, United States.2Southern Regional Research Center, USDA-ARS, New Orleans, LA, United States.1Department of Plant Biology, Southern Illinois University, Carbondale, IL, United States.Bryan Musungu 1*†, Deepak Bhatnagar 2, Sylvie Quiniou 3, Robert L.
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