环带蠕虫 Hediste diversicolor 的全身转录组汇编

IF 1.3 4区 生物学 Q4 GENETICS & HEREDITY
André M. Machado , Rodrigo Samico , Marcos Domingues , Andreas Hagemann , Luísa M.P. Valente , Arne M. Malzahn , André Gomes-dos-Santos , Raquel Ruivo , Juan Carlos Navarro , Óscar Monroig , L. Filipe C. Castro
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引用次数: 0

摘要

无脊椎动物门由无数表现出关键表型适应性的物种组成。它们在各种海洋、淡水和陆地生态系统中占据着重要的生态位。重要的是,Omic 资源的增加正在迅速改变分类学格局和对该门物种的认识。在这里,我们全面描述并注释了普通豚鼠 Hediste diversicolor(OF Müller)的转录组。该物种属于海蛇科(Nereididae),栖息于欧洲和北美大西洋沿岸的河口和泻湖地区。在生态学上,H. diversicolor 在底栖食物网中发挥着重要作用。鉴于其商业价值,在循环经济框架下,H. diversicolor 是水产养殖开发和养殖设施生产的理想候选物种。我们利用 Illumina 下一代测序技术,产生了总计 1.05 亿 (M) 条成对端 (PE) 原始读数,并首次生成了 H. diversicolor 的全身转录组。这个高质量的转录组包含 69,335 个转录本,N50 转录本长度为 2313 bp,在真核生物群和元古界生物群特异性图谱库中的 BUSCO 基因完整性分别达到 97.7% 和 96%。我们的研究结果为该物种的多种生物学应用提供了宝贵的资源。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
A whole-body transcriptome assembly of the annelid worm Hediste diversicolor

The Annelida phylum is composed of a myriad of species exhibiting key phenotypic adaptations. They occupy key ecological niches in a variety of marine, freshwater and terrestrial ecosystems. Importantly, the increment of omic resources is rapidly modifying the taxonomic landscape and knowledge of species belonging to this phylum. Here, we comprehensively characterised and annotated a transcriptome of the common ragworm, Hediste diversicolor (OF Müller). This species belongs to the family Nereididae and inhabits estuarine and lagoon areas on the Atlantic coasts of Europe and North America. Ecologically, H. diversicolor plays an important role in benthic food webs. Given its commercial value, H. diversicolor is a promising candidate for aquaculture development and production in farming facilities, under a circular economy framework. We used Illumina next-generation sequencing technology, to produce a total of 105 million (M) paired-end (PE) raw reads and generate the first whole-body transcriptome assembly of H. diversicolor species. This high-quality transcriptome contains 69,335 transcripts with an N50 transcript length of 2313 bp and achieved a BUSCO gene completeness of 97.7% and 96% in Eukaryota and Metazoa lineage-specific profile libraries. Our findings offer a valuable resource for multiple biological applications using this species.

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来源期刊
Marine genomics
Marine genomics 生物-遗传学
CiteScore
3.60
自引率
5.30%
发文量
50
审稿时长
29 days
期刊介绍: The journal publishes papers on all functional and evolutionary aspects of genes, chromatin, chromosomes and (meta)genomes of marine (and freshwater) organisms. It deals with new genome-enabled insights into the broader framework of environmental science. Topics within the scope of this journal include: • Population genomics and ecology • Evolutionary and developmental genomics • Comparative genomics • Metagenomics • Environmental genomics • Systems biology More specific topics include: geographic and phylogenomic characterization of aquatic organisms, metabolic capacities and pathways of organisms and communities, biogeochemical cycles, genomics and integrative approaches applied to microbial ecology including (meta)transcriptomics and (meta)proteomics, tracking of infectious diseases, environmental stress, global climate change and ecosystem modelling.
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