PDF(Pubmed)
Abstract：
Jute (Corchorus sp.), a commercially important and eco-friendly crop, is widely cultivated in Bangladesh, India, and China. Some varieties of this tropical plant such as the Corchorus olitorius. Variety accession no. 2015 (acc. 2015) has been found to be low-temperature tolerant. The current study was designed to explore the genome-wide variations present in the tolerant plant acc. 2015 in comparison to the sensitive farmer popular variety Corchorus olitorius var. O9897 using the whole genome resequencing technique. Among different variations, intergenic Single Nucleotide Polymorphism (SNPs) and Insertion-Deletion (InDels) were found in the highest percentage whereas approximately 3% SNPs and 2% InDels were found in exonic regions in both plants. Gene enrichment analysis indicated the presence of acc. 2015 specific SNPs in the genes encoding peroxidase, ER lumen protein retaining receptor, and hexosyltransferase involved in stress response (GO:0006950) which were not present in sensitive variety O9897. Besides, distinctive copy number variation regions (CNVRs) comprising 120 gene loci were found in acc. 2015 with a gain of function from multiple copy numbers but absent in O9897. Gene ontology analysis revealed these gene loci to possess different receptors like kinases, helicases, phosphatases, transcription factors especially Myb transcription factors, regulatory proteins containing different binding domains, annexin, laccase, acyl carrier protein, potassium transporter, and vesicular transporter proteins that are responsible for low temperature induced adaptation pathways in plants. This work of identifying genomic variations linked to cold stress tolerance traits will help to develop successful markers that will pave the way to develop genetically modified cold-resistant jute lines for year-round cultivation to meet the demand for a sustainable fiber crop economy.
摘要：
黄麻(Corchorussp.),一种重要的商业和环保作物，在孟加拉国广泛种植，印度,和中国。这种热带植物的一些品种，如Corchorusolitorius。品种登录号。2015年（ACC。2015)已被发现耐低温。本研究旨在探索耐受性植物acc中存在的全基因组变异。2015年与敏感的农民流行品种Corchorusolitoriusvar相比。O9897采用全基因组重测序技术。在不同的变化中，基因间单核苷酸多态性（SNP）和插入缺失（InDels）的百分比最高，而在两种植物的外显子区域中发现了约3％的SNP和2％的InDels。基因富集分析表明acc的存在。2015年过氧化物酶编码基因中的特定SNP，ER腔蛋白保留受体，和己糖基转移酶参与应激反应（GO：0006950），在敏感品种O9897中不存在。此外,在acc中发现了包含120个基因座的独特拷贝数变异区（CNVRs）。2015年，从多个拷贝数获得功能，但在O9897中不存在。基因本体论分析显示这些基因位点具有不同的受体，如激酶，解旋酶,磷酸酶，转录因子，特别是Myb转录因子，含有不同结合域的调节蛋白，annexin,漆酶,酰基载体蛋白，钾转运蛋白，和负责低温诱导植物适应途径的囊泡转运蛋白。这项确定与耐冷胁迫性状相关的基因组变异的工作将有助于开发成功的标记，这些标记将为开发用于全年种植的转基因抗寒黄麻品系铺平道路，以满足对可持续纤维作物经济的需求。
