Abstract
Cold stress causes major losses to sugarcane production, yet the precise molecular mechanisms that cause losses due to cold stress are not well-understood. To survey miRNAs and genes involved in cold tolerance, RNA-seq, miRNA-seq, and integration analyses were performed on Saccharum spontaneum. Results showed that a total of 118,015 genes and 6,034 of these differentially expressed genes (DEGs) were screened. Protein–protein interaction (PPI) analyses revealed that ABA signaling via protein phosphatase 2Cs was the most important signal transduction pathway and late embryogenesis abundant protein was the hub protein associated with adaptation to cold stress. Furthermore, a total of 856 miRNAs were identified in this study and 109 of them were differentially expressed in sugarcane responding to cold stress. Most importantly, the miRNA–gene regulatory networks suggested the complex post-transcriptional regulation in sugarcane under cold stress, including 10 miRNAs−42 genes, 16 miRNAs−70 genes, and three miRNAs−18 genes in CT vs. LT0.5, CT vs. LT1, and CT0.5 vs. LT1, respectively. Specifically, key regulators from 16 genes encoding laccase were targeted by novel-Chr4C_47059 and Novel-Chr4A_40498, while five LRR-RLK genes were targeted by Novel-Chr6B_65233 and Novel-Chr5D_60023, 19 PPR repeat proteins by Novel-Chr5C_57213 and Novel-Chr5D_58065. Our findings suggested that these miRNAs and cell wall-related genes played vital regulatory roles in the responses of sugarcane to cold stress. Overall, the results of this study provide insights into the transcriptional and post-transcriptional regulatory network underlying the responses of sugarcane to cold stress.
Highlights
Sugarcane planting, yield, and quality are affected by abiotic factors including low-temperature stress
10.07% (11,887) of genes were annotated in the Kyoto Encyclopedia of Genes and Genomes (KEGG) database (Supplementary Tables 3, 4, Supplementary Figure 1), with most genes significantly matched with Sorghum bicolor (70.32%)
We found that 56 differentially expressed gene (DEG) belong to MYB, bZIP, GATA, and MADS-box transcriptional factor (TF) in the CT vs. LT0.5 comparison, while 179 other DEGs related to protein phosphatase 2C (PP2C), CBL-IPK, CDPK, AMPK, calcium, cAMP, MAPK, phosphatidylinositols, plant hormones, and sphingolipids were the top enriched signaling pathways
Summary
Yield, and quality are affected by abiotic factors including low-temperature stress. Previous research has shown that the response of sugarcane to cold stress is regulated by sophisticated mechanisms at the morphological, anatomical, physiological, and biochemical levels. Once subjected to cold stress, sugarcane leaves dry up, growth points and lateral buds become frostbitten, and the tilling rate and number of effective perennial stems are affected, especially at the seedling stage. Cold stress markedly inhibits sugarcane seedling growth and survival rates fall (Rasheed et al, 2010; Pang et al, 2015). 1,841 differentially expressed genes (DEGs) are involved in cold stress response in maize (Li et al, 2017). A total of 47 genes are upregulated in wheat, whereas just six are downregulated in the ICE1-CBF-COR pathway as a component of cold stress response. Ten genes in the ABA-dependent pathway are upregulated, while four are downregulated across these four genotypes, confirming that ABA accumulates when plants are exposed to low temperatures (Li et al, 2018)
Sign-in/Register to view highlights & summary Talk to us
Join us for a 30 min session where you can share your feedback and ask us any queries you have
Schedule a callDisclaimer: All third-party content on this website/platform is and will remain the property of their respective owners and is provided on "as is" basis without any warranties, express or implied. Use of third-party content does not indicate any affiliation, sponsorship with or endorsement by them. Any references to third-party content is to identify the corresponding services and shall be considered fair use under The CopyrightLaw.
