title: Identification of Crowding Stress Tolerance Co-Expression Networks Involved in Sweet Corn Yield.
abstract: Tolerance to crowding stress has played a crucial role in improving agronomic productivity in field corn; however, commercial sweet corn hybrids vary greatly in crowding stress tolerance. The objectives were to 1) explore transcriptional changes among sweet corn hybrids with differential yield under crowding stress, 2) identify relationships between phenotypic responses and gene expression patterns, and 3) identify groups of genes associated with yield and crowding stress tolerance. Under conditions of crowding stress, three high-yielding and three low-yielding sweet corn hybrids were grouped for transcriptional and phenotypic analyses. Transcriptional analyses identified from 372 to 859 common differentially expressed genes (DEGs) for each hybrid. Large gene expression pattern variation among hybrids and only 26 common DEGs across all hybrid comparisons were identified, suggesting each hybrid has a unique response to crowding stress. Over-represented biological functions of DEGs also differed among hybrids. Strong correlation was observed between: 1) modules with up-regulation in high-yielding hybrids and yield traits, and 2) modules with up-regulation in low-yielding hybrids and plant/ear traits. Modules linked with yield traits may be important crowding stress response mechanisms influencing crop yield. Functional analysis of the modules and common DEGs identified candidate crowding stress tolerant processes in photosynthesis, glycolysis, cell wall, carbohydrate/nitrogen metabolic process, chromatin, and transcription regulation. Moreover, these biological functions were greatly inter-connected, indicating the importance of improving the mechanisms as a network.
authors.affiliation: Global Change and Photosynthesis Research Unit, United States Department of Agriculture-Agricultural Research Service (USDA-ARS), Urbana, Illinois, United States of America.
authors.forename: Eunsoo
authors.initials: E
authors.lastname: Choe
authors.affiliation: Roy J. Carver Biotechnology Center, University of Illinois, Urbana, Illinois, United States of America.
authors.forename: Jenny
authors.initials: J
authors.lastname: Drnevich
authors.affiliation: Global Change and Photosynthesis Research Unit, United States Department of Agriculture-Agricultural Research Service (USDA-ARS), Urbana, Illinois, United States of America.
authors.forename: Martin M
authors.initials: MM
authors.lastname: Williams
mesh_terms: D055864:Droughts; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D053263:Gene Regulatory Networks; D010788:Photosynthesis / Q000235:genetics; D010940:Plant Proteins / Q000235:genetics*; D012333:RNA, Messenger / Q000235:genetics; D060888:Real-Time Polymerase Chain Reaction; D020133:Reverse Transcriptase Polymerase Chain Reaction; D013312:Stress, Physiological / Q000235:genetics*; D003313:Zea mays / Q000235:genetics* / Q000254:growth & development
chemical_list: D010940:Plant Proteins; D012333:RNA, Messenger