Genome-Wide Identification of the YABBY Gene Family in Maize and Its Expression Analysis Under Low Phosphorus and High Nitrogen Stress

YABBY transcription factors (TFs) are key regulators involved in diverse aspects of plant growth, organogenesis, and adaptation to environmental stresses. However, the functional characteristics of YABBY TFs in maize remain largely unexplored. In this study, we systematically identified 12 <i>YABBY</i> genes in the maize genome and characterized their gene structures, physicochemical properties, chromosome location, and genomic collinearity. Phylogenetic analysis classified these genes into five subfamilies, with members of each subfamily exhibiting highly conserved exon-intron structures and motif compositions, indicative of potential functional conservation within subfamilies. Cis-regulatory element analysis indicated that <i>YABBY</i> genes may be involved in developmental processes, abiotic stress responses, and light-mediated signaling pathways. Moreover, transcriptome sequencing combined with qRT-PCR validation demonstrated that several <i>YABBY</i> genes, including <i>ZmYABBY2</i>, <i>ZmYABBY5</i>, <i>ZmYABBY8</i>, and <i>ZmYABBY9</i>, are responsive to low-phosphorus and high-nitrogen conditions, implying their potential roles in nutrient stress adaptation. It is worth mentioning that this study redefined the composition of the maize YABBY gene family by excluding a previously annotated member and, for the first time, established a link between YABBY transcription factors and nutrient stress responses. Meanwhile, this is also the first time that protein structure analysis, cis-regulatory element analysis, interspecific collinearity analysis and subcellular localization have been performed on maize ZmYABBY gene family. In summary, our study provides valuable gene resources for maize molecular breeding and offers new insights into the functions of YABBY TFs.