Transcriptome profiling of Camelina sativa to identify genes involved in triacylglycerol biosynthesis and accumulation in the developing seeds.
Transcriptome profiling of Camelina sativa to identify genes involved in triacylglycerol biosynthesis and accumulation in the developing seeds.
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DOI：
10.1186/s13068-016-0555-5
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发表时间：
2016
影响因子：
6.3
通讯作者：
Dhankher OP
中科院分区：
文献类型：
--
作者：
Abdullah HM;Akbari P;Paulose B;Schnell D;Qi W;Park Y;Pareek A;Dhankher OP
山茶是一种新兴的专用油料作物，设计用于生物燃料和生物柴油，也是食用油和通用油的来源。这些有价值的油料作物受到植物育种计划的影响，建议规模化生产更好的种子和油料质量。为了实现这一目标并进一步提高其含油量，在分子水平上更好地了解这种植物的脂肪代谢是至关重要的。在这里，我们应用组织转录学和脂肪成分分析来鉴定和描述与三酰甘油(TAG)生物合成相关的基因和基因网络，并研究这些基因如何相互作用来决定种子发育过程中茶油的数量和质量。我们的茶树转录组数据分析表明，在开花后10-15天(Cs-14)和16-21天(Cs-21)，分别约有57,854和57,973个基因在发育中的种子(RPKM和≥)中活跃表达。其中，7,932个基因在种子发育过程中表现出暂时性和差异性的基因表达(≥1.5或≤−1.5的对数2倍变化；P-≤变化0.05)。对差异表达基因(Deg)进行了注释，发现它们涉及不同的功能类别和代谢途径。此外，对与标签生物合成相关的选定候选基因执行定量实时聚合酶链式反应验证了RNA-SEQ数据。我们的结果表明，使用qPCR和RNA-Seq技术测量的表达丰度之间存在很强的正相关关系。此外，脂肪酸含量和组成的分析表明，在整个种子发育过程中，脂肪含量发生了较大的变化，在种子发育的早期、中期(从16-28天开始)，油分迅速积累，而28天的种子与成熟种子之间的脂肪酸组成没有观察到重要的变化。这项研究对于理解Tag生物合成的调控和识别种子发育阶段Tag途径中的限速步骤非常有用，为开发具有更高种子和油料产量的茶树品种提供了准确的候选基因选择。本文的在线版本(doi：10.1186/s13068-0160555-5)包含补充材料，可供授权用户使用。
Camelina sativa is an emerging dedicated oilseed crop designed for biofuel and biodiesel applications as well as a source for edible and general-purpose oils. Such valuable oilseed crop is subjected to plant breeding programs and is suggested for large-scale production of better seed and oil quality. To accomplish this objective and to further enhance its oil content, a better understanding of lipid metabolism at the molecular level in this plant is critical. Here, we applied tissue transcriptomics and lipid composition analysis to identify and profile the genes and gene networks associated with triacylglycerol (TAG) biosynthesis, and to investigate how those genes are interacting to determine the quantity and quality of Camelina oil during seed development. Our Camelina transcriptome data analysis revealed an approximate of 57,854 and 57,973 genes actively expressing in developing seeds (RPKM ≥ 0.1) at 10–15 (Cs-14) and 16–21 (Cs-21) days after flowering (DAF), respectively. Of these, 7932 genes showed temporal and differential gene expression during the seed development (log2 fold change ≥1.5 or ≤−1.5; P ≤ 0.05). The differentially expressed genes (DEGs) were annotated and were found to be involved in distinct functional categories and metabolic pathways. Furthermore, performing quantitative real-time PCR for selected candidate genes associated with TAG biosynthesis validated RNA-seq data. Our results showed strong positive correlations between the expression abundance measured using both qPCR and RNA-Seq technologies. Furthermore, the analysis of fatty-acid content and composition revealed major changes throughout seed development, with the amount of oil accumulate rapidly at early mid seed development stages (from 16–28 DAF onwards), while no important changes were observed in the fatty-acid profile between seeds at 28 DAF and mature seeds. This study is highly useful for understanding the regulation of TAG biosynthesis and identifying the rate-limiting steps in TAG pathways at seed development stages, providing a precise selection of candidate genes for developing Camelina varieties with improved seed and oil yields. The online version of this article (doi:10.1186/s13068-016-0555-5) contains supplementary material, which is available to authorized users.