Chaowongdee Somruthai, Vannatim Nattachai, Malichan Srihunsa, Kuncharoen Nattakorn, Tongyoo Pumipat, Siriwan Wanwisa
Center of Excellence on Agricultural Biotechnology (AG-BIO/MHESI), Bangkok, 10900, Thailand.
Center for Agricultural Biotechnology, Kasetsart University, Kamphaengsaen Campus, Nakhon Pathom, 73140, Thailand.
BMC Genomics. 2024 May 2;25(1):436. doi: 10.1186/s12864-024-10315-0.
Cassava mosaic disease (CMD), caused by Sri Lankan cassava mosaic virus (SLCMV) infection, has been identified as a major pernicious disease in Manihot esculenta Crantz (cassava) plantations. It is widespread in Southeast Asia, especially in Thailand, which is one of the main cassava supplier countries. With the aim of restricting the spread of SLCMV, we explored the gene expression of a tolerant cassava cultivar vs. a susceptible cassava cultivar from the perspective of transcriptional regulation and the mechanisms underlying plant immunity and adaptation.
Transcriptomic analysis of SLCMV-infected tolerant (Kasetsart 50 [KU 50]) and susceptible (Rayong 11 [R 11]) cultivars at three infection stages-that is, at 21 days post-inoculation (dpi) (early/asymptomatic), 32 dpi (middle/recovery), and 67 dpi (late infection/late recovery)-identified 55,699 expressed genes. Differentially expressed genes (DEGs) between SLCMV-infected KU 50 and R 11 cultivars at (i) 21 dpi to 32 dpi (the early to middle stage), and (ii) 32 dpi to 67 dpi (the middle stage to late stage) were then identified and validated by real-time quantitative PCR (RT-qPCR). DEGs among different infection stages represent genes that respond to and regulate the viral infection during specific stages. The transcriptomic comparison between the tolerant and susceptible cultivars highlighted the role of gene expression regulation in tolerant and susceptible phenotypes.
This study identified genes involved in epigenetic modification, transcription and transcription factor activities, plant defense and oxidative stress response, gene expression, hormone- and metabolite-related pathways, and translation and translational initiation activities, particularly in KU 50 which represented the tolerant cultivar in this study.
由斯里兰卡木薯花叶病毒（SLCMV）感染引起的木薯花叶病（CMD），已被确认为木薯种植园中的一种主要有害疾病。它在东南亚广泛传播，尤其是在泰国，泰国是主要的木薯供应国之一。为了限制SLCMV的传播，我们从转录调控以及植物免疫和适应的潜在机制角度，探究了一个耐病木薯品种与一个感病木薯品种的基因表达情况。
对SLCMV感染的耐病品种（卡赛萨特50 [KU 50]）和感病品种（罗勇11 [R 11]）在三个感染阶段，即接种后21天（dpi）（早期/无症状）、32 dpi（中期/恢复）和67 dpi（晚期感染/晚期恢复）进行转录组分析，共鉴定出55,699个表达基因。然后通过实时定量PCR（RT-qPCR）鉴定并验证了SLCMV感染的KU 50和R 11品种在（i）21 dpi至32 dpi（早期至中期）以及（ii）32 dpi至67 dpi（中期至晚期）之间的差异表达基因（DEG）。不同感染阶段的DEG代表了在特定阶段对病毒感染做出反应并进行调控的基因。耐病品种和感病品种之间的转录组比较突出了基因表达调控在耐病和感病表型中的作用。
本研究确定了参与表观遗传修饰、转录和转录因子活性、植物防御和氧化应激反应、基因表达、激素和代谢物相关途径以及翻译和翻译起始活性的基因，特别是在本研究中代表耐病品种的KU 50中。
