Comparative Transcriptomic Analysis Reveals Transcriptional Differences in the Response of Quinoa to Salt and Alkali Stress Responses

Soil salinization is a global agro-ecological problem and a major factor impeding agricultural development. Planting salt-tolerant plants to improve saline soils offers both ecological and economic benefits. Currently, there are few studies addressing the combined effects of salt and alkali stress. Quinoa is known for its salinity tolerance. However, research has predominantly focused on the effects of salinity stress on quinoa's morphology and physiology, with its molecular mechanisms remaining unclear. To better understand quinoa's response mechanisms to salinity and alkali stress, we employed RNA-seq technology to analyze transcriptomes under these conditions. We identified 1833 differentially expressed genes (DEGs) under salt stress and 2233 DEGs under alkali stress. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) annotations revealed that quinoa responds to salt and alkali stress through similar mechanisms. Both stresses promoted sucrose synthesis, starch synthesis and catabolism, which increased the osmotic potential of quinoa leaves. Additionally, there was a regulation of the down-regulated expression of the abscisic acid receptor PYR/PYL and the up-regulated expression of the serine/threonine protein kinase (PP2C) gene in the ABA signaling pathway. Contrasting with salt tolerance, the mechanism specific to quinoa's alkalinity tolerance involves the up-regulation of the citric acid cycle via an active gamma-aminobutyric acid (GABA) branch, enhancing quinoa's energy metabolism. In summary, our transcriptome analysis revealed key regulatory mechanisms in quinoa's response to saline and alkaline stress. This study deepens the understanding of quinoa's stress response mechanisms and provides theoretical references for the biological improvement of salinized soils.