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Chromosomal-level genome assembly of potato tuberworm, Phthorimaea operculella: a pest of solanaceous crops

The potato tuberworm, Phthorimaea operculella Zeller, is an oligophagous pest feeding on crops mainly belonging to the family Solanaceae. It is one of the most destructive pests of potato worldwide and attacks foliage and tubers in the field and in storage. However, the lack of a high-quality refere...

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Autores principales: Zhang, Mengdi, Cheng, Xinyue, Lin, Runmao, Xie, Bingyan, Nauen, Ralf, Rondon, Silvia I., Zavala, Jorge A., Palli, Subba Reddy, Li, Suhua, Xiong, Xingyao, Zhou, Wenwu, Gao, Yulin
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9719551/
https://www.ncbi.nlm.nih.gov/pubmed/36463249
http://dx.doi.org/10.1038/s41597-022-01859-5
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author Zhang, Mengdi
Cheng, Xinyue
Lin, Runmao
Xie, Bingyan
Nauen, Ralf
Rondon, Silvia I.
Zavala, Jorge A.
Palli, Subba Reddy
Li, Suhua
Xiong, Xingyao
Zhou, Wenwu
Gao, Yulin
author_facet Zhang, Mengdi
Cheng, Xinyue
Lin, Runmao
Xie, Bingyan
Nauen, Ralf
Rondon, Silvia I.
Zavala, Jorge A.
Palli, Subba Reddy
Li, Suhua
Xiong, Xingyao
Zhou, Wenwu
Gao, Yulin
author_sort Zhang, Mengdi
collection PubMed
description The potato tuberworm, Phthorimaea operculella Zeller, is an oligophagous pest feeding on crops mainly belonging to the family Solanaceae. It is one of the most destructive pests of potato worldwide and attacks foliage and tubers in the field and in storage. However, the lack of a high-quality reference genome has hindered the association of phenotypic traits with their genetic basis. Here, we report on the genome assembly of P. operculella at the chromosomal level. Using Illumina, Nanopore and Hi-C sequencing, a 648.2 Mb genome was generated from 665 contigs, with an N50 length of 3.2 Mb, and 92.0% (596/648.2 Mb) of the assembly was anchored to 29 chromosomes. In total, 16619 genes were annotated, and 92.4% of BUSCO genes were fully represented. The chromosome-level genome of P. operculella will provide a significant resource for understanding the genetic basis for the biological study of this insect, and for promoting the integrative management of this pest in future.
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spelling pubmed-97195512022-12-05 Chromosomal-level genome assembly of potato tuberworm, Phthorimaea operculella: a pest of solanaceous crops Zhang, Mengdi Cheng, Xinyue Lin, Runmao Xie, Bingyan Nauen, Ralf Rondon, Silvia I. Zavala, Jorge A. Palli, Subba Reddy Li, Suhua Xiong, Xingyao Zhou, Wenwu Gao, Yulin Sci Data Data Descriptor The potato tuberworm, Phthorimaea operculella Zeller, is an oligophagous pest feeding on crops mainly belonging to the family Solanaceae. It is one of the most destructive pests of potato worldwide and attacks foliage and tubers in the field and in storage. However, the lack of a high-quality reference genome has hindered the association of phenotypic traits with their genetic basis. Here, we report on the genome assembly of P. operculella at the chromosomal level. Using Illumina, Nanopore and Hi-C sequencing, a 648.2 Mb genome was generated from 665 contigs, with an N50 length of 3.2 Mb, and 92.0% (596/648.2 Mb) of the assembly was anchored to 29 chromosomes. In total, 16619 genes were annotated, and 92.4% of BUSCO genes were fully represented. The chromosome-level genome of P. operculella will provide a significant resource for understanding the genetic basis for the biological study of this insect, and for promoting the integrative management of this pest in future. Nature Publishing Group UK 2022-12-03 /pmc/articles/PMC9719551/ /pubmed/36463249 http://dx.doi.org/10.1038/s41597-022-01859-5 Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Data Descriptor
Zhang, Mengdi
Cheng, Xinyue
Lin, Runmao
Xie, Bingyan
Nauen, Ralf
Rondon, Silvia I.
Zavala, Jorge A.
Palli, Subba Reddy
Li, Suhua
Xiong, Xingyao
Zhou, Wenwu
Gao, Yulin
Chromosomal-level genome assembly of potato tuberworm, Phthorimaea operculella: a pest of solanaceous crops
title Chromosomal-level genome assembly of potato tuberworm, Phthorimaea operculella: a pest of solanaceous crops
title_full Chromosomal-level genome assembly of potato tuberworm, Phthorimaea operculella: a pest of solanaceous crops
title_fullStr Chromosomal-level genome assembly of potato tuberworm, Phthorimaea operculella: a pest of solanaceous crops
title_full_unstemmed Chromosomal-level genome assembly of potato tuberworm, Phthorimaea operculella: a pest of solanaceous crops
title_short Chromosomal-level genome assembly of potato tuberworm, Phthorimaea operculella: a pest of solanaceous crops
title_sort chromosomal-level genome assembly of potato tuberworm, phthorimaea operculella: a pest of solanaceous crops
topic Data Descriptor
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9719551/
https://www.ncbi.nlm.nih.gov/pubmed/36463249
http://dx.doi.org/10.1038/s41597-022-01859-5
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