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狗岩螺(Nucella lapillus)的首个基因组组装,狗岩螺是海洋环境的生物指示物种。

The First Genome Assembly Of The Dogwhelk Nucella lapillus, a Bioindicator Species For The Marine Environment.

作者信息

Kadiwala Juned, Hesketh Andrew, De Weerd Heleen, Ritch Helen, Shakur Rameen

机构信息

Brighton Integrative Genomics (BIG) Unit and the Centre for Precision Health and Translational Medicine, School of Applied Sciences, University of Brighton, Brighton, BN2 6DN, UK.

Edinburgh Genomics, The University of Edinburgh, Ashworth Laboratories, The King's Buildings, Charlotte Auerbach Road, Edinburgh, EH9 3FL, UK.

出版信息

Sci Data. 2025 Apr 28;12(1):704. doi: 10.1038/s41597-025-04764-9.

DOI:10.1038/s41597-025-04764-9
PMID:40295577
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC12037820/
Abstract

The dogwhelk (Nucella lapillus) is a predatory marine gastropod widely distributed across temperate intertidal zones. Renowned for its ecological role in controlling prey populations, N. lapillus is also an important bioindicator species for marine pollution through imposex. The molecular genetic basis of imposex, characterised by the abnormal development of male sex organs in females and reductions in fertility and lifespan, however remains poorly understood due to the absence of a reference genome sequence. Here we provide the first genome assembly comprising 2.41 Gb of sequence, predicted to encode 47,238 proteins. This inaugural assembly lays the foundations for implementing genomic approaches to better quantify and characterise imposex, in addition to elucidating adaptations to life within changeable intertidal ecosystems. To counter challenges of DNA fragmentation and contamination often associated with the sequencing of marine organisms, we found that a hybrid approach that integrates complementary long-read data from PacBio HiFi and Oxford Nanopore Technology (ONT) platforms helped maximise the final assembly. This innovative combination may be a useful approach for similar marine species.

摘要

滨螺(Nucella lapillus)是一种掠食性海洋腹足纲动物,广泛分布于温带潮间带。N. lapillus以其在控制猎物种群方面的生态作用而闻名,它也是通过性畸变来指示海洋污染的重要生物指示物种。性畸变的分子遗传基础表现为雌性个体雄性性器官的异常发育以及生育力和寿命的降低,但由于缺乏参考基因组序列,人们对其仍知之甚少。在此,我们提供了首个基因组组装序列,其长度为2.41Gb,预计编码47238种蛋白质。这个初始组装序列为实施基因组方法以更好地量化和表征性畸变奠定了基础,此外还有助于阐明对多变潮间带生态系统中生活的适应性。为应对通常与海洋生物测序相关的DNA片段化和污染挑战,我们发现一种整合来自PacBio HiFi和牛津纳米孔技术(ONT)平台互补长读长数据的混合方法有助于最大化最终组装效果。这种创新组合可能是处理类似海洋物种的有用方法。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd64/12037820/748e26cc7c97/41597_2025_4764_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd64/12037820/99a174cd643b/41597_2025_4764_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd64/12037820/1ed523f2c84a/41597_2025_4764_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd64/12037820/748e26cc7c97/41597_2025_4764_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd64/12037820/99a174cd643b/41597_2025_4764_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd64/12037820/1ed523f2c84a/41597_2025_4764_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd64/12037820/748e26cc7c97/41597_2025_4764_Fig3_HTML.jpg

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