High-fidelity annotated triploid genome of the quarantine root-knot nematode, Meloidogyne enterolobii.

IF 6.9 2区综合性期刊 Q1 MULTIDISCIPLINARY SCIENCES Scientific Data Pub Date : 2025-01-30 DOI:10.1038/s41597-025-04434-w

Marine Poullet, Hemanth Konigopal, Corinne Rancurel, Marine Sallaberry, Celine Lopez-Roques, Ana Paula Zotta Mota, Joanna Lledo, Sebastian Kiewnick, Etienne G J Danchin

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Abstract

Root-knot nematodes (RKN) of the genus Meloidogyne are obligatory plant endoparasites that cause substantial economic losses to agricultural production and impact the global food supply. These plant parasitic nematodes belong to the most widespread and devastating genus worldwide, yet few measures of control are available. The most efficient way to control RKN is deployment of resistance genes in plants. However, current resistance genes that control other Meloidogyne species are mostly inefficient on Meloidogyne enterolobii. Consequently, M. enterolobii was listed as a European Union quarantine pest requiring regulation. To gain insight into the molecular characteristics underlying its parasitic success, exploring the genome of M. enterolobii is essential. Here, we report a high-quality genome assembly of M. enterolobii using the high-fidelity long-read sequencing technology developed by Pacific Biosciences, combined with a gap-aware sequence transformer, DeepConsensus. The resulting triploid genome assembly spans 285.4 Mb with 556 contigs, a GC% of 30 ± 0.042 and an N50 value of 2.11 Mb, constituting a useful platform for comparative, population and functional genomics.

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检疫根结线虫（Meloidogyne enterolobii）的高保真注释三倍体基因组。

根结线虫（Root-knot nematdes， RKN）是一种强制性植物内寄生虫，对农业生产造成重大经济损失，并影响全球粮食供应。这些植物寄生线虫属于世界范围内分布最广和最具破坏性的属，但很少有控制措施可用。控制RKN最有效的方法是在植物中部署抗性基因。然而，目前控制其他细裂丝虫病种的抗性基因对肠细裂丝虫病大多无效。因此，肠弧菌被列为欧盟需要监管的检疫有害生物。为了深入了解其寄生成功的分子特征，探索肠杆菌的基因组是必不可少的。在这里，我们使用太平洋生物科学公司开发的高保真长读测序技术，结合间隙感知序列转换器DeepConsensus，报道了肠杆菌的高质量基因组组装。该三倍体基因组全长285.4 Mb，包含556个contigs， GC%为30±0.042，N50值为2.11 Mb，为比较基因组学、群体基因组学和功能基因组学的研究奠定了良好的基础。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Scientific Data Social Sciences-Education

CiteScore

11.20

自引率

4.10%

发文量

689

审稿时长

16 weeks

期刊介绍： Scientific Data is an open-access journal focused on data, publishing descriptions of research datasets and articles on data sharing across natural sciences, medicine, engineering, and social sciences. Its goal is to enhance the sharing and reuse of scientific data, encourage broader data sharing, and acknowledge those who share their data. The journal primarily publishes Data Descriptors, which offer detailed descriptions of research datasets, including data collection methods and technical analyses validating data quality. These descriptors aim to facilitate data reuse rather than testing hypotheses or presenting new interpretations, methods, or in-depth analyses.