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一种针对五种具有农业重要性的入侵果蝇（即[此处应补充具体果蝇名称]、[此处应补充具体果蝇名称]、[此处应补充具体果蝇名称]、[此处应补充具体果蝇名称]和[此处应补充具体果蝇名称]，双翅目，实蝇科）的新基因组序列资源。

A new genome sequence resource for five invasive fruit flies of agricultural concern: , , , and (Diptera, Tephritidae).

作者信息

Deschepper Pablo, Vanbergen Sam, Esselens Lore, Terblanche John S, Karsten Minette, Snyman Maxi, Cugala Domingos, Canhanga Laura, Bota Luis, Mwatawala Maulid, Ramadhani Majubwa, Kudra Abdul, Tairo Jenipher, Bakengesa Jacqueline, Addison Pia, Manrakhan Aruna, Gledel Corentin, Delatte Hélène, De Meyer Marc, Virgilio Massimiliano

机构信息

Biology department, invertebrates section, Royal Museum for Central Africa, Tervuren, Belgium.

Stellenbosch University Department of Conservation Ecology and Entomology, maiteland, South Africa.

出版信息

F1000Res. 2024 Dec 6;13:1492. doi: 10.12688/f1000research.157946.1. eCollection 2024.

DOI:10.12688/f1000research.157946.1
PMID:40028447
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11871432/
Abstract

Here, we present novel high quality genome assemblies for five invasive tephritid species of agricultural concern: , , , and (read depths between 65 and 78x). Three assemblies ( , and ) were scaffolded with chromosome conformation data and annotated using RNAseq reads. For some species this is the first reference genome available ( , and ), for others we have published improved annotated genomes ( and ). Together, the new references provide an important resource to advance research on genetic techniques for population control, develop rapid species identification methods, and explore eco-evolutionary studies.

摘要

在此，我们展示了针对五种受农业关注的入侵实蝇物种的新型高质量基因组组装：[物种1]、[物种2]、[物种3]、[物种4]和[物种5]（读取深度在65至78倍之间）。三个组装（[组装1]、[组装2]和[组装3]）利用染色体构象数据进行了支架搭建，并使用RNAseq读取进行了注释。对于某些物种，这是首个可用的参考基因组（[物种1]、[物种2]和[物种3]），对于其他物种，我们已发表了改进的注释基因组（[物种4]和[物种5]）。总之，这些新的参考基因组为推进种群控制遗传技术研究、开发快速物种鉴定方法以及探索生态进化研究提供了重要资源。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/51c6/11871432/232f17b45e42/f1000research-13-173473-g0000.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/51c6/11871432/232f17b45e42/f1000research-13-173473-g0000.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/51c6/11871432/232f17b45e42/f1000research-13-173473-g0000.jpg

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本文引用的文献

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BUSCO: Assessing Genomic Data Quality and Beyond.BUSCO：评估基因组数据质量及其他。
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Haplotype-resolved de novo assembly using phased assembly graphs with hifiasm.使用带有 hifiasm 的相定装配图进行单体型解析从头组装。
Nat Methods. 2021 Feb;18(2):170-175. doi: 10.1038/s41592-020-01056-5. Epub 2021 Feb 1.
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RepeatModeler2 for automated genomic discovery of transposable element families.RepeatModeler2 用于自动发现转座元件家族的基因组。
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Impacts of climate change on high priority fruit fly species in Australia.气候变化对澳大利亚高优先级实蝇物种的影响。
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Identifying and removing haplotypic duplication in primary genome assemblies.鉴定和去除初级基因组组装中的单倍型重复。
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