Gismondi E, Thomé J P
Laboratory of Animal Ecology and Ecotoxicology (LEAE), University of Liege, B6c, Allée du 6 Août 11, 4000 Liege, Belgium.
Genom Data. 2016 Apr 16;8:91-2. doi: 10.1016/j.gdata.2016.04.002. eCollection 2016 Jun.
So far, ecotoxicological studies used biomarkers of exposure or of effects in order to investigate the impacts of contaminated areas on biota (Peakall, 1994 [6]). However, although these results are important in the ecotoxicological risk assessment, biomarkers are very specific and only provide information on the biological processes or physiological pathways targeted by the biomarkers experimenters choose to test (Monsinjon and Knigge, 2007 [5]). In recent years, proteomics have become a major tool in ecotoxicology, as they provide a global insight into the mechanism of action of pollutants without the need of hypothesis testing or any preconception on the biological processes likely impacted (Gismondi et al., 2015; Trapp et al., 2015 [7]; Truebano, 2016 [8]). However, the analysis of proteomic results is often limited due to the lack of database, especially for non-model organisms, such as Gammarus sp, commonly used as biological model in ecotoxicology (Sornom et al., 2012 [11]; Vellinger et al., 2013 [9]; Gismondi and Thomé, 2014 [1]; Lebrun et al., 2014 [3]). Here, we performed Illumina HiSeq sequencing to total RNA isolated from the hepatopancreas (i.e. detoxification tissue) of Gammarus pulex males and females coming from uncontaminated river and contaminated river (e.g. PCB, benzo(a)pyrene). Approximately 290 M paired-end reads were assembled, filtered and sorted into 39,801 contigs whose 10.878 were similar of proteins available in databases. The assembled contigs could represent a reference hepatopancreas transcriptome for G. pulex, and constitute an important resource for future investigations on the impacts of pollutants on invertebrate biota, since it would improve the understanding of the mechanisms of action involved in toxicity. In addition, the hepatopancreas transcriptome will also allow the identification of new potential biomarkers for the ecotoxicological risk assessments. Assembled contigs were deposited in the European Nucleotide Archive under the BioProject number PRJEB13055, with accession numbers FJVI01000001-FJVI01039801.
到目前为止，生态毒理学研究使用暴露或效应生物标志物来调查污染区域对生物群的影响（Peakall，1994 [6]）。然而，尽管这些结果在生态毒理学风险评估中很重要，但生物标志物非常具有特异性，并且仅提供关于生物标志物实验者选择测试的生物过程或生理途径的信息（Monsinjon和Knigge，2007 [5]）。近年来，蛋白质组学已成为生态毒理学中的一项主要工具，因为它们能在无需假设检验或对可能受影响的生物过程有任何先入之见的情况下，全面洞察污染物的作用机制（Gismondi等人，2015；Trapp等人，2015 [7]；Truebano，2016 [8]）。然而，由于缺乏数据库，蛋白质组学结果的分析往往受到限制，特别是对于非模式生物，如在生态毒理学中常用作生物模型的钩虾属物种（Sornom等人，2012 [11]；Vellinger等人，2013 [9]；Gismondi和Thomé，2014 [1]；Lebrun等人，2014 [3]）。在此，我们对从来自未受污染河流和受污染河流（如多氯联苯、苯并(a)芘）的雄性和雌性蚤状钩虾肝胰腺（即解毒组织）中分离的总RNA进行了Illumina HiSeq测序。大约2.9亿对末端读数被组装、过滤并分类为39,801个重叠群，其中10,878个与数据库中可用的蛋白质相似。组装的重叠群可以代表蚤状钩虾的肝胰腺转录组参考，并构成未来关于污染物对无脊椎动物生物群影响研究的重要资源，因为它将增进对毒性作用机制的理解。此外，肝胰腺转录组还将有助于识别用于生态毒理学风险评估的新潜在生物标志物。组装的重叠群已存入欧洲核苷酸档案库，生物项目编号为PRJEB13055，登录号为FJVI01000001 - FJVI01039801。
