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线虫基因组公告:太平洋西北地区马铃薯重要经济害虫 的基因组草案。

Nematode Genome Announcement: Draft Genome of , an Economically Important Pest of Potato in the Pacific Northwest.

机构信息

Hermiston Agricultural Research and Extension Station, Oregon State University, Hermiston, OR 19838.

Department of Plant Pathology, Washington State University, Pullman, WA 99164.

出版信息

Mol Plant Microbe Interact. 2021 Aug;34(8):981-986. doi: 10.1094/MPMI-12-20-0337-A. Epub 2021 Sep 8.

Abstract

is one of the most devastating pests of potato in the U.S. Pacific Northwest (PNW). Nematode-infected tubers develop external as well as internal defects, making the potato tubers unmarketable, and resulting in economic losses. Draft genome assemblies of three genotypes-race 1, race 2 and race 1 pathotype Roza-were generated using Illumina and PacBio Sequel RS II sequencing. The final assemblies consist of 30, 39, and 38 polished contigs for race 1, race 2 and race 1 pathotype Roza, respectively, with average N of 2.37 Mb and average assembled genome size of approximately 47.41 Mb. On average, 10,508 genes were annotated for each genome. Benchmarking universal single-copy ortholog (BUSCO) analysis indicated that 69.80% of the BUSCOs were complete whereas 68.80, 0.93, and 12.67% were single copy, duplicated, and fragmented, respectively. These highly contiguous genomes will enrich resources to study potato-nematode interactions and enhance breeding efforts to develop nematode-resistant potato varieties for the PNW.[Formula: see text] Copyright © 2021 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license.

摘要

马铃薯金线虫是美国太平洋西北地区(PNW)马铃薯的最具破坏性害虫之一。感染线虫的块茎会出现外部和内部缺陷,使马铃薯块茎无法销售,造成经济损失。使用 Illumina 和 PacBio Sequel RS II 测序生成了三种基因型(1 号、2 号和 1 号致病型 Roza)的草图基因组组装。最终的组装分别由 30、39 和 38 个抛光连续体组成,1 号、2 号和 1 号致病型 Roza 的平均 N 分别为 2.37 Mb 和平均组装基因组大小约为 47.41 Mb。平均每个基因组注释了 10508 个基因。基准通用单拷贝直系同源物(BUSCO)分析表明,69.80%的 BUSCO 是完整的,而 68.80%、0.93%和 12.67%分别是单拷贝、重复和碎片化。这些高度连续的基因组将丰富资源,以研究马铃薯-线虫相互作用,并加强培育抗线虫马铃薯品种的努力,以适应 PNW。[公式:见正文]版权所有 © 2021 作者。这是一个在 CC BY-NC-ND 4.0 国际许可下发布的开放获取文章。

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