转录组
生物
基因
盐度
代谢途径
核糖体RNA
核糖体蛋白
从头转录组组装
遗传学
细胞生物学
基因表达
核糖体
核糖核酸
生态学
作者
Mojdeh Akbarzadeh Lelekami,Mohammadhadi Pahlevani,Khalil Zaynali Nezhad,Keyvan Mahdavi Mashaki,Dominik Brilhaus,Andreas Weber
出处
期刊:Research Square - Research Square
日期:2023-06-06
标识
DOI:10.21203/rs.3.rs-2985182/v1
摘要
Abstract Salinity stress is a major challenge for rice production, especially at seedling stage. To gain a comprehensive insight into the molecular mechanisms and potential candidate genes involved in rice salinity stress response, we integrated RNA-Seq and protein-protein interaction (PPI) network analysis to investigate the transcriptome dynamics of two contrasting genotypes. We collected root and shoot tissue samples at two timepoints (6 hours and 54 hours) after exposure to salinity stress. A total of 15,483 differentially expressed genes (DEGs) were identified across different combinations studied. Salt-specific genes were identified by comparing the genotypes under salinity stress. These salt-specific genes were mainly involved in metabolic processes, response to stimulus, and transporter activity, and were enriched in key metabolic pathways such as, biosynthesis of secondary metabolites, plant hormone signal transduction, and carotenoid biosynthesis. The PPI network analysis revealed 50 and 25 hub genes for salt-specific genes in the salt-tolerant CSR28 and salt-sensitive IR28, respectively. These hub genes were mainly involved in ribosome and encoding of important ribosomal proteins such as, RPL5, RPL18 and RPS9 with a potential role in stress signaling and tolerance enhancement in CSR28. Furthermore, the expression patterns of ion transporter genes in the roots at 54-hour timepoint regulated the Na + /K + balance in the shoot. We also identified key transcription factors (TFs) that exhibited specific expression patterns based on timepoint, organ, or genotype. Our study provides valuable information for further investigation of the candidate genes associated with salt tolerance and development of salt-tolerant rice varieties.
科研通智能强力驱动
Strongly Powered by AbleSci AI