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

Autores
Zhang, Mengdi; Cheng, Xinyue; Lin, Runmao; Xie, Bingyan; Nauen, Ralf; Rondon, Silvia I.; Zavala, Jorge Alberto; Palli, Subba Reddy; Li, Suhua; Xiong, Xingyao; Zhou, Wenwu; Gao, Yulin
Año de publicación
2022
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
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.
Fil: Zhang, Mengdi. Chinese Academy Of Agricultural Sciences; China
Fil: Cheng, Xinyue. Beijing Normal University; China
Fil: Lin, Runmao. Hainan University; China. Chinese Academy Of Agricultural Sciences; China
Fil: Xie, Bingyan. Chinese Academy Of Agricultural Sciences; China
Fil: Nauen, Ralf. No especifíca;
Fil: Rondon, Silvia I.. No especifíca;
Fil: Zavala, Jorge Alberto. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Parque Centenario. Instituto de Investigaciones en Biociencias Agrícolas y Ambientales. Universidad de Buenos Aires. Facultad de Agronomía. Instituto de Investigaciones en Biociencias Agrícolas y Ambientales; Argentina
Fil: Palli, Subba Reddy. University of Kentucky; Estados Unidos
Fil: Li, Suhua. Chinese Academy Of Agricultural Sciences; China
Fil: Xiong, Xingyao. Chinese Academy Of Agricultural Sciences; China
Fil: Zhou, Wenwu. State Key Laboratory Of Rice Biology; China
Fil: Gao, Yulin. Chinese Academy Of Agricultural Sciences; China
Materia
PHTHORIMAEA OPERCULELLA
POTATO
TOMATO
NICOTIANA TABACUM
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/212734
Acceder
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oai_identifier_str oai:ri.conicet.gov.ar:11336/212734
network_acronym_str CONICETDig
repository_id_str 3498
network_name_str CONICET Digital (CONICET)
spelling Chromosomal-level genome assembly of potato tuberworm, Phthorimaea operculella: a pest of solanaceous cropsZhang, MengdiCheng, XinyueLin, RunmaoXie, BingyanNauen, RalfRondon, Silvia I.Zavala, Jorge AlbertoPalli, Subba ReddyLi, SuhuaXiong, XingyaoZhou, WenwuGao, YulinPHTHORIMAEA OPERCULELLAPOTATOTOMATONICOTIANA TABACUMhttps://purl.org/becyt/ford/4.1https://purl.org/becyt/ford/4The 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.Fil: Zhang, Mengdi. Chinese Academy Of Agricultural Sciences; ChinaFil: Cheng, Xinyue. Beijing Normal University; ChinaFil: Lin, Runmao. Hainan University; China. Chinese Academy Of Agricultural Sciences; ChinaFil: Xie, Bingyan. Chinese Academy Of Agricultural Sciences; ChinaFil: Nauen, Ralf. No especifíca;Fil: Rondon, Silvia I.. No especifíca;Fil: Zavala, Jorge Alberto. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Parque Centenario. Instituto de Investigaciones en Biociencias Agrícolas y Ambientales. Universidad de Buenos Aires. Facultad de Agronomía. Instituto de Investigaciones en Biociencias Agrícolas y Ambientales; ArgentinaFil: Palli, Subba Reddy. University of Kentucky; Estados UnidosFil: Li, Suhua. Chinese Academy Of Agricultural Sciences; ChinaFil: Xiong, Xingyao. Chinese Academy Of Agricultural Sciences; ChinaFil: Zhou, Wenwu. State Key Laboratory Of Rice Biology; ChinaFil: Gao, Yulin. Chinese Academy Of Agricultural Sciences; ChinaNature2022-12info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/212734Zhang, Mengdi; Cheng, Xinyue; Lin, Runmao; Xie, Bingyan; Nauen, Ralf; et al.; Chromosomal-level genome assembly of potato tuberworm, Phthorimaea operculella: a pest of solanaceous crops; Nature; Scientific Data; 9; 1; 12-2022; 1-112052-4463CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/doi/10.1038/s41597-022-01859-5info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-29T09:59:18Zoai:ri.conicet.gov.ar:11336/212734instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982025-09-29 09:59:18.298CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv 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
spellingShingle Chromosomal-level genome assembly of potato tuberworm, Phthorimaea operculella: a pest of solanaceous crops
Zhang, Mengdi
PHTHORIMAEA OPERCULELLA
POTATO
TOMATO
NICOTIANA TABACUM
title_short 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_sort Chromosomal-level genome assembly of potato tuberworm, Phthorimaea operculella: a pest of solanaceous crops
dc.creator.none.fl_str_mv Zhang, Mengdi
Cheng, Xinyue
Lin, Runmao
Xie, Bingyan
Nauen, Ralf
Rondon, Silvia I.
Zavala, Jorge Alberto
Palli, Subba Reddy
Li, Suhua
Xiong, Xingyao
Zhou, Wenwu
Gao, Yulin
author Zhang, Mengdi
author_facet Zhang, Mengdi
Cheng, Xinyue
Lin, Runmao
Xie, Bingyan
Nauen, Ralf
Rondon, Silvia I.
Zavala, Jorge Alberto
Palli, Subba Reddy
Li, Suhua
Xiong, Xingyao
Zhou, Wenwu
Gao, Yulin
author_role author
author2 Cheng, Xinyue
Lin, Runmao
Xie, Bingyan
Nauen, Ralf
Rondon, Silvia I.
Zavala, Jorge Alberto
Palli, Subba Reddy
Li, Suhua
Xiong, Xingyao
Zhou, Wenwu
Gao, Yulin
author2_role author
author
author
author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv PHTHORIMAEA OPERCULELLA
POTATO
TOMATO
NICOTIANA TABACUM
topic PHTHORIMAEA OPERCULELLA
POTATO
TOMATO
NICOTIANA TABACUM
purl_subject.fl_str_mv https://purl.org/becyt/ford/4.1
https://purl.org/becyt/ford/4
dc.description.none.fl_txt_mv 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.
Fil: Zhang, Mengdi. Chinese Academy Of Agricultural Sciences; China
Fil: Cheng, Xinyue. Beijing Normal University; China
Fil: Lin, Runmao. Hainan University; China. Chinese Academy Of Agricultural Sciences; China
Fil: Xie, Bingyan. Chinese Academy Of Agricultural Sciences; China
Fil: Nauen, Ralf. No especifíca;
Fil: Rondon, Silvia I.. No especifíca;
Fil: Zavala, Jorge Alberto. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Parque Centenario. Instituto de Investigaciones en Biociencias Agrícolas y Ambientales. Universidad de Buenos Aires. Facultad de Agronomía. Instituto de Investigaciones en Biociencias Agrícolas y Ambientales; Argentina
Fil: Palli, Subba Reddy. University of Kentucky; Estados Unidos
Fil: Li, Suhua. Chinese Academy Of Agricultural Sciences; China
Fil: Xiong, Xingyao. Chinese Academy Of Agricultural Sciences; China
Fil: Zhou, Wenwu. State Key Laboratory Of Rice Biology; China
Fil: Gao, Yulin. Chinese Academy Of Agricultural Sciences; China
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.
publishDate 2022
dc.date.none.fl_str_mv 2022-12
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/11336/212734
Zhang, Mengdi; Cheng, Xinyue; Lin, Runmao; Xie, Bingyan; Nauen, Ralf; et al.; Chromosomal-level genome assembly of potato tuberworm, Phthorimaea operculella: a pest of solanaceous crops; Nature; Scientific Data; 9; 1; 12-2022; 1-11
2052-4463
CONICET Digital
CONICET
url http://hdl.handle.net/11336/212734
identifier_str_mv Zhang, Mengdi; Cheng, Xinyue; Lin, Runmao; Xie, Bingyan; Nauen, Ralf; et al.; Chromosomal-level genome assembly of potato tuberworm, Phthorimaea operculella: a pest of solanaceous crops; Nature; Scientific Data; 9; 1; 12-2022; 1-11
2052-4463
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/doi/10.1038/s41597-022-01859-5
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv Nature
publisher.none.fl_str_mv Nature
dc.source.none.fl_str_mv reponame:CONICET Digital (CONICET)
instname:Consejo Nacional de Investigaciones Científicas y Técnicas
reponame_str CONICET Digital (CONICET)
collection CONICET Digital (CONICET)
instname_str Consejo Nacional de Investigaciones Científicas y Técnicas
repository.name.fl_str_mv CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas
repository.mail.fl_str_mv dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar
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score 13.070432

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