Razali Rozaimi, Bougouffa Salim, Morton Mitchell J L, Lightfoot Damien J, Alam Intikhab, Essack Magbubah, Arold Stefan T, Kamau Allan A, Schmöckel Sandra M, Pailles Yveline, Shahid Mohammed, Michell Craig T, Al-Babili Salim, Ho Yung Shwen, Tester Mark, Bajic Vladimir B, Negrão Sónia
Computational Bioscience Research Center, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia.
Division of Biological and Environmental Sciences and Engineering, The Bioactives Lab, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia.
Front Plant Sci. 2018 Oct 4;9:1402. doi: 10.3389/fpls.2018.01402. eCollection 2018.
, a wild relative of cultivated tomato, offers a wealth of breeding potential for desirable traits such as tolerance to abiotic and biotic stresses. Here, we report the genome assembly and annotation of 'LA0480.' Moreover, we present phenotypic data from one field experiment that demonstrate a greater salinity tolerance for fruit- and yield-related traits in compared with cultivated tomato. The 'LA0480' genome assembly size (811 Mb) and the number of annotated genes (25,970) are within the range observed for other sequenced tomato species. We developed and utilized the Dragon Eukaryotic Analyses Platform (DEAP) to functionally annotate the 'LA0480' protein-coding genes. Additionally, we used DEAP to compare protein function between and cultivated tomato. Our data suggest enrichment in genes involved in biotic and abiotic stress responses. To understand the genomic basis for these differences in and , we analyzed 15 genes that have previously been shown to mediate salinity tolerance in plants. We show that has a higher copy number of the inositol-3-phosphate synthase and phosphatase genes, which are both key enzymes in the production of inositol and its derivatives. Moreover, our analysis indicates that changes occurring in the inositol phosphate pathway may contribute to the observed higher salinity tolerance in 'LA0480.' Altogether, our work provides essential resources to understand and unlock the genetic and breeding potential of , and to discover the genomic basis underlying its environmental robustness.
野生番茄（栽培番茄的野生近缘种）具有丰富的育种潜力，拥有诸如耐受非生物和生物胁迫等理想性状。在此，我们报告了野生番茄“LA0480”的基因组组装和注释。此外，我们展示了一项田间试验的表型数据，该数据表明与栽培番茄相比，野生番茄在果实和产量相关性状上具有更强的耐盐性。“LA0480”的基因组组装大小（811兆字节）和注释基因数量（25970个）处于其他已测序番茄物种所观察到的范围内。我们开发并利用了龙真核生物分析平台（DEAP）对“LA0480”的蛋白质编码基因进行功能注释。此外，我们使用DEAP比较了野生番茄和栽培番茄之间的蛋白质功能。我们的数据表明参与生物和非生物胁迫反应的基因有所富集。为了理解野生番茄和栽培番茄之间这些差异的基因组基础，我们分析了15个先前已被证明在植物中介导耐盐性的基因。我们发现野生番茄中肌醇 - 3 - 磷酸合酶和磷酸酶基因的拷贝数更高，这两种基因都是肌醇及其衍生物生产中的关键酶。此外，我们的分析表明肌醇磷酸途径中发生的变化可能导致了在“LA0480”中观察到的更高耐盐性。总之，我们的工作提供了重要资源，以了解和挖掘野生番茄的遗传和育种潜力，并发现其环境适应性背后的基因组基础。
