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一个用于北海大型底栖动物的分类学可靠的DNA条形码参考文库。

A taxonomically reliable DNA barcode reference library for North Sea macrobenthos.

作者信息

Christodoulou Magdalini, Derycke Sofie, Beentjes Kevin K, Hillewaert Hans, Laakmann Silke, Lundin Kennet, Kamyab Elham, Khodami Sahar, Maes Sara, Reiss Henning, Uhlir Carolin, Van den Bulcke Laure, Van der Hoorn Berry, De Backer Annelies, Arbizu Pedro Martinez

机构信息

OÖ Landes-Kultur GmbH, Biodiversity Center, Linz, 4040, Austria.

Senckenberg am Meer, German Centre for Marine Biodiversity Research (DZMB), Wilhelmshaven, 26382, Germany.

出版信息

Sci Data. 2025 Jul 11;12(1):1198. doi: 10.1038/s41597-025-05500-z.

DOI:10.1038/s41597-025-05500-z
PMID:40645994
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC12254315/
Abstract

EU directives (e.g. MSFD, Habitats Directive), along with OSPAR guidelines, mandate sustainable marine resource management across national borders. Benthic organisms are crucial for assessing marine ecosystem health, but their morphological identification is time-consuming and costly. High-throughput sequencing, particularly DNA metabarcoding, offers an alternative. However, DNA-based monitoring requires substantial investment in high-quality DNA reference libraries. The GEANS project (Genetic Tools for Ecosystem Health Assessment in the North Sea Region) aimed to develop efficient DNA-based tools for benthic biomonitoring. GEANS created a curated DNA reference library (COI) for species relevant to North Sea macrobenthos monitoring, using new sequences, non-public barcode sequences, and mined sequences from GenBank and BOLD. The library, stored in a dedicated BOLD project with photographs and metadata, includes DNA barcodes for 4005 specimens from 715 species, representing over 29% of North Sea macrobenthos species. Arthropoda is the most represented, while Bryozoa and Annelida have the lowest coverage. This DNA library is expected to facilitate fast, cost-effective environmental health assessments in the North Sea for public authorities and academics.

摘要

欧盟指令(如《海洋战略框架指令》《栖息地指令》)以及《奥斯巴公约》准则要求跨国界进行可持续的海洋资源管理。底栖生物对于评估海洋生态系统健康状况至关重要,但其形态鉴定既耗时又昂贵。高通量测序,尤其是DNA宏条形码技术,提供了一种替代方法。然而,基于DNA的监测需要在高质量DNA参考文库方面进行大量投资。GEANS项目(北海区域生态系统健康评估的遗传工具)旨在开发用于底栖生物监测的高效基于DNA的工具。GEANS利用新序列、非公开条形码序列以及从GenBank和BOLD数据库挖掘的序列,为与北海大型底栖生物监测相关的物种创建了一个经过整理的DNA参考文库(细胞色素氧化酶亚基I)。该文库存储在一个带有照片和元数据的专用BOLD项目中,包含来自715个物种的4005个标本的DNA条形码,占北海大型底栖生物物种的29%以上。节肢动物的代表性最强,而苔藓虫纲和环节动物门的覆盖率最低。预计这个DNA文库将有助于为公共当局和学术界快速、经济高效地评估北海的环境健康状况。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5b8e/12254315/521e53a8376a/41597_2025_5500_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5b8e/12254315/7886e14345f5/41597_2025_5500_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5b8e/12254315/d770e4afd815/41597_2025_5500_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5b8e/12254315/924513561a82/41597_2025_5500_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5b8e/12254315/fbf5b9a96855/41597_2025_5500_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5b8e/12254315/25d9a0d95be6/41597_2025_5500_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5b8e/12254315/521e53a8376a/41597_2025_5500_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5b8e/12254315/7886e14345f5/41597_2025_5500_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5b8e/12254315/d770e4afd815/41597_2025_5500_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5b8e/12254315/924513561a82/41597_2025_5500_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5b8e/12254315/fbf5b9a96855/41597_2025_5500_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5b8e/12254315/25d9a0d95be6/41597_2025_5500_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5b8e/12254315/521e53a8376a/41597_2025_5500_Fig6_HTML.jpg

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本文引用的文献

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Meta-Fish-Lib: A generalised, dynamic DNA reference library pipeline for metabarcoding of fishes.元鱼类 DNA 文库:鱼类宏条形码分析的通用、动态 DNA 参考文库构建流程。
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Describing the hidden species diversity of (Annelida, Cirratulidae) in the Norwegian Sea using morphological and molecular diagnostics.利用形态学和分子诊断方法描述挪威海(环节动物门,蛰龙介科)的隐藏物种多样性。
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MEGA11: Molecular Evolutionary Genetics Analysis Version 11.
MEGA11:分子进化遗传学分析版本 11。
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GenBank's reliability is uncertain for biodiversity researchers seeking species-level assignment for eDNA.对于寻求对环境DNA进行物种水平分类的生物多样性研究人员而言,GenBank的可靠性尚不确定。
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