High-quality genome assembly of Pseudocercospora ulei the main threat to natural rubber trees
Autor(a) principal: | |
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Data de Publicação: | 2022 |
Outros Autores: | , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Genetics and Molecular Biology |
Texto Completo: | http://old.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572022000100802 |
Resumo: | Abstract Pseudocercospora ulei is the causal agent of South American Leaf Blight (SALB), the main disease affecting Hevea brasiliensis rubber tree, a native species to the Amazon. Rubber tree is a major crop in South American countries and SALB disease control strategies would benefit from the availability of genomic resources for the fungal pathogen. Here, we assembled and annotated the P. ulei genome. Shotgun sequencing was performed using second and third generation sequencing technologies. We present the first P. ulei high-quality genome assembly, the largest among Mycosphaerellaceae, with 93.8 Mbp, comprising 215 scaffolds, an N50 of 2.8 Mbp and a BUSCO gene completeness of 97.5%. We identified 12,745 protein-coding gene models in the P. ulei genome with 756 genes encoding secreted proteins and 113 genes encoding effector candidates. Most of the genome (80%) is composed of repetitive elements dominated by retrotransposons of the Gypsy superfamily. P. ulei has the largest genome size among Mycosphaerellaceae, with the highest TE content. In conclusion, we have established essential genomic resources for a wide range of studies on P. ulei and related species. |
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Genetics and Molecular Biology |
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High-quality genome assembly of Pseudocercospora ulei the main threat to natural rubber treesNatural rubberSouth American Leaf BlightPacBioNanoporetransposable elementsAbstract Pseudocercospora ulei is the causal agent of South American Leaf Blight (SALB), the main disease affecting Hevea brasiliensis rubber tree, a native species to the Amazon. Rubber tree is a major crop in South American countries and SALB disease control strategies would benefit from the availability of genomic resources for the fungal pathogen. Here, we assembled and annotated the P. ulei genome. Shotgun sequencing was performed using second and third generation sequencing technologies. We present the first P. ulei high-quality genome assembly, the largest among Mycosphaerellaceae, with 93.8 Mbp, comprising 215 scaffolds, an N50 of 2.8 Mbp and a BUSCO gene completeness of 97.5%. We identified 12,745 protein-coding gene models in the P. ulei genome with 756 genes encoding secreted proteins and 113 genes encoding effector candidates. Most of the genome (80%) is composed of repetitive elements dominated by retrotransposons of the Gypsy superfamily. P. ulei has the largest genome size among Mycosphaerellaceae, with the highest TE content. In conclusion, we have established essential genomic resources for a wide range of studies on P. ulei and related species.Sociedade Brasileira de Genética2022-01-01info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersiontext/htmlhttp://old.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572022000100802Genetics and Molecular Biology v.45 n.1 2022reponame:Genetics and Molecular Biologyinstname:Sociedade Brasileira de Genética (SBG)instacron:SBG10.1590/1678-4685-gmb-2021-0051info:eu-repo/semantics/openAccessGonzález-Sayer,SandraOggenfuss,UrsulaGarcía,IbonneAristizabal,FabioCroll,DanielRiaño-Pachon,Diego M.eng2021-12-21T00:00:00Zoai:scielo:S1415-47572022000100802Revistahttp://www.gmb.org.br/ONGhttps://old.scielo.br/oai/scielo-oai.php||editor@gmb.org.br1678-46851415-4757opendoar:2021-12-21T00:00Genetics and Molecular Biology - Sociedade Brasileira de Genética (SBG)false |
dc.title.none.fl_str_mv |
High-quality genome assembly of Pseudocercospora ulei the main threat to natural rubber trees |
title |
High-quality genome assembly of Pseudocercospora ulei the main threat to natural rubber trees |
spellingShingle |
High-quality genome assembly of Pseudocercospora ulei the main threat to natural rubber trees González-Sayer,Sandra Natural rubber South American Leaf Blight PacBio Nanopore transposable elements |
title_short |
High-quality genome assembly of Pseudocercospora ulei the main threat to natural rubber trees |
title_full |
High-quality genome assembly of Pseudocercospora ulei the main threat to natural rubber trees |
title_fullStr |
High-quality genome assembly of Pseudocercospora ulei the main threat to natural rubber trees |
title_full_unstemmed |
High-quality genome assembly of Pseudocercospora ulei the main threat to natural rubber trees |
title_sort |
High-quality genome assembly of Pseudocercospora ulei the main threat to natural rubber trees |
author |
González-Sayer,Sandra |
author_facet |
González-Sayer,Sandra Oggenfuss,Ursula García,Ibonne Aristizabal,Fabio Croll,Daniel Riaño-Pachon,Diego M. |
author_role |
author |
author2 |
Oggenfuss,Ursula García,Ibonne Aristizabal,Fabio Croll,Daniel Riaño-Pachon,Diego M. |
author2_role |
author author author author author |
dc.contributor.author.fl_str_mv |
González-Sayer,Sandra Oggenfuss,Ursula García,Ibonne Aristizabal,Fabio Croll,Daniel Riaño-Pachon,Diego M. |
dc.subject.por.fl_str_mv |
Natural rubber South American Leaf Blight PacBio Nanopore transposable elements |
topic |
Natural rubber South American Leaf Blight PacBio Nanopore transposable elements |
description |
Abstract Pseudocercospora ulei is the causal agent of South American Leaf Blight (SALB), the main disease affecting Hevea brasiliensis rubber tree, a native species to the Amazon. Rubber tree is a major crop in South American countries and SALB disease control strategies would benefit from the availability of genomic resources for the fungal pathogen. Here, we assembled and annotated the P. ulei genome. Shotgun sequencing was performed using second and third generation sequencing technologies. We present the first P. ulei high-quality genome assembly, the largest among Mycosphaerellaceae, with 93.8 Mbp, comprising 215 scaffolds, an N50 of 2.8 Mbp and a BUSCO gene completeness of 97.5%. We identified 12,745 protein-coding gene models in the P. ulei genome with 756 genes encoding secreted proteins and 113 genes encoding effector candidates. Most of the genome (80%) is composed of repetitive elements dominated by retrotransposons of the Gypsy superfamily. P. ulei has the largest genome size among Mycosphaerellaceae, with the highest TE content. In conclusion, we have established essential genomic resources for a wide range of studies on P. ulei and related species. |
publishDate |
2022 |
dc.date.none.fl_str_mv |
2022-01-01 |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/article |
dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
format |
article |
status_str |
publishedVersion |
dc.identifier.uri.fl_str_mv |
http://old.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572022000100802 |
url |
http://old.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572022000100802 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
10.1590/1678-4685-gmb-2021-0051 |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
text/html |
dc.publisher.none.fl_str_mv |
Sociedade Brasileira de Genética |
publisher.none.fl_str_mv |
Sociedade Brasileira de Genética |
dc.source.none.fl_str_mv |
Genetics and Molecular Biology v.45 n.1 2022 reponame:Genetics and Molecular Biology instname:Sociedade Brasileira de Genética (SBG) instacron:SBG |
instname_str |
Sociedade Brasileira de Genética (SBG) |
instacron_str |
SBG |
institution |
SBG |
reponame_str |
Genetics and Molecular Biology |
collection |
Genetics and Molecular Biology |
repository.name.fl_str_mv |
Genetics and Molecular Biology - Sociedade Brasileira de Genética (SBG) |
repository.mail.fl_str_mv |
||editor@gmb.org.br |
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1752122390598385664 |