Yang Xiaoyu, Song Bo, Cui Jie, Wang Lina, Wang Shuoshuo, Luo Linlin, Gao Lei, Mo Beixin, Yu Yu, Liu Lin
Guangdong Provincial Key Laboratory for Plant Epigenetics, Longhua Bioindustry and Innovation Research Institute, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518060, China.
Shenzhen Branch, Guangdong Laboratory for Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518124, China.
BMC Genomics. 2021 Aug 12;22(1):612. doi: 10.1186/s12864-021-07922-6.
Soil salinization represents a serious threat to global rice production. Although significant research has been conducted to understand salt stress at the genomic, transcriptomic and proteomic levels, few studies have focused on the translatomic responses to this stress. Recent studies have suggested that transcriptional and translational responses to salt stress can often operate independently.
We sequenced RNA and ribosome-protected fragments (RPFs) from the salt-sensitive rice (O. sativa L.) cultivar 'Nipponbare' (NB) and the salt-tolerant cultivar 'Sea Rice 86' (SR86) under normal and salt stress conditions. A large discordance between salt-induced transcriptomic and translatomic alterations was found in both cultivars, with more translationally regulated genes being observed in SR86 in comparison to NB. A biased ribosome occupancy, wherein RPF depth gradually increased from the 5' ends to the 3' ends of coding regions, was revealed in NB and SR86. This pattern was strengthened by salt stress, particularly in SR86. On the contrary, the strength of ribosome stalling was accelerated in salt-stressed NB but decreased in SR86.
This study revealed that translational reprogramming represents an important layer of salt stress responses in rice, and the salt-tolerant cultivar SR86 adopts a more flexible translationally adaptive strategy to cope with salt stress compared to the salt susceptible cultivar NB. The differences in translational dynamics between NB and SR86 may derive from their differing levels of ribosome stalling under salt stress.
土壤盐渍化对全球水稻生产构成严重威胁。尽管已开展大量研究以在基因组、转录组和蛋白质组水平上了解盐胁迫，但很少有研究关注这种胁迫下的翻译组反应。最近的研究表明，对盐胁迫的转录和翻译反应通常是独立进行的。
我们对盐敏感水稻品种“日本晴”（NB）和耐盐品种“海稻86”（SR86）在正常和盐胁迫条件下的RNA和核糖体保护片段（RPF）进行了测序。在两个品种中均发现盐诱导的转录组和翻译组变化之间存在很大差异，与NB相比，SR86中观察到更多受翻译调控的基因。在NB和SR86中均发现了一种偏向性核糖体占据情况，即RPF深度从编码区的5'端到3'端逐渐增加。这种模式在盐胁迫下得到加强，尤其是在SR86中。相反，盐胁迫下NB中核糖体停顿的强度加快，但SR86中则降低。
本研究表明，翻译重编程是水稻盐胁迫反应的重要层面，与盐敏感品种NB相比，耐盐品种SR86采用了更灵活的翻译适应性策略来应对盐胁迫。NB和SR86之间翻译动态的差异可能源于它们在盐胁迫下核糖体停顿水平的不同。
