Microbiology Laboratory, Institute of Viticulture and Agri-food Research (IVAGRO), University of Cadiz, 11510 Puerto Real, Spain.
Central Service for Research Support, University of Cordoba, 14014 Cordoba, Spain.
J Proteomics. 2019 Oct 30;209:103502. doi: 10.1016/j.jprot.2019.103502. Epub 2019 Aug 26.
Pyrocystis lunula (Schutt) is a photoautotrophic dinoflagellate without armored form, frequently found in marine environments. Today, there are several biotechnological applications derived from the bioluminescent system of this species. From a post-genomic perspective, in order to have a starting point for studying the proteome of P. lunula, an "omics" approach (transcriptomics-proteomics) was assessed using fresh microalgae samples. A total of 80,874,825 raw reads were generated (11,292,087,505 bp; 55.82% GC) by mRNA sequencing. Very high-quality sequences were assembled into 414,295 contigs (219,203,407 bp; 55.38% GC) using Trinity software, generating a comprehensive reference transcriptome for this species. Then, a P. lunula proteome was inferred and further employed for its analysis on this species. A total of 17,461 peptides were identified, yielding 3182 protein identification hits, including 175 novel proteins. The identified proteins were further categorized according to functional description and gene ontology classification. SIGNIFICANCE: The major contribution of the present work is making available a reference transcriptome and proteome of P. lunula, that is now accessible for the research community, and a functional description of the 3182 proteins inferred from the transcriptome, including 175 novel proteins, which have already been deposited in the ProteomeXchange and NCBI SRA databases, respectively. In addition to this, a series of important factors related to the bioluminescent system and the regulation of gene expression, were identified and described.
月亮拟菱形藻（Schutt）是一种无装甲形式的光合甲藻，常存在于海洋环境中。如今，有几种生物技术应用源自该物种的生物发光系统。从后基因组学的角度来看，为了研究月亮拟菱形藻的蛋白质组有一个起点，采用了一种“组学”方法（转录组学-蛋白质组学），使用新鲜的微藻样本进行评估。通过 mRNA 测序共产生了 80874825 个原始读数（11292087505bp；55.82%GC）。使用 Trinity 软件将非常高质量的序列组装成 414295 个 contigs（219203407bp；55.38%GC），为该物种生成了一个全面的参考转录组。然后，推断出月亮拟菱形藻的蛋白质组，并进一步对该物种进行分析。共鉴定出 17461 个肽段，得到 3182 个蛋白质鉴定结果，包括 175 个新蛋白。根据功能描述和基因本体分类，进一步对鉴定出的蛋白质进行分类。意义：本工作的主要贡献是提供了月亮拟菱形藻的参考转录组和蛋白质组，现在可供研究人员使用，以及从转录组推断出的 3182 个蛋白质的功能描述，其中包括 175 个新蛋白，分别已存入 ProteomeXchange 和 NCBI SRA 数据库。除此之外，还鉴定和描述了一系列与生物发光系统和基因表达调控相关的重要因素。
