The architecture of the Plasmodiophora brassicae nuclear and mitochondrial genomes

Abstract Plasmodiophora brassicae is a soil-borne pathogen that attacks roots of cruciferous plants causing clubroot disease. The pathogen belongs to the Plasmodiophorida order in Phytomyxea. Here we used long-read SMRT technology to clarify the P. brassicae e3 genomic constituents along with compar...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Suzana Stjelja, Johan Fogelqvist, Christian Tellgren-Roth, Christina Dixelius
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2019
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/69a48796f95f426b9ca22e4bbbba7cd4
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:69a48796f95f426b9ca22e4bbbba7cd4
record_format	dspace
spelling	oai:doaj.org-article:69a48796f95f426b9ca22e4bbbba7cd42021-12-02T15:07:55ZThe architecture of the Plasmodiophora brassicae nuclear and mitochondrial genomes10.1038/s41598-019-52274-72045-2322https://doaj.org/article/69a48796f95f426b9ca22e4bbbba7cd42019-10-01T00:00:00Zhttps://doi.org/10.1038/s41598-019-52274-7https://doaj.org/toc/2045-2322Abstract Plasmodiophora brassicae is a soil-borne pathogen that attacks roots of cruciferous plants causing clubroot disease. The pathogen belongs to the Plasmodiophorida order in Phytomyxea. Here we used long-read SMRT technology to clarify the P. brassicae e3 genomic constituents along with comparative and phylogenetic analyses. Twenty contigs representing the nuclear genome and one mitochondrial (mt) contig were generated, together comprising 25.1 Mbp. Thirteen of the 20 nuclear contigs represented chromosomes from telomere to telomere characterized by [TTTTAGGG] sequences. Seven active gene candidates encoding synaptonemal complex-associated and meiotic-related protein homologs were identified, a finding that argues for possible genetic recombination events. The circular mt genome is large (114,663 bp), gene dense and intron rich. It shares high synteny with the mt genome of Spongospora subterranea, except in a unique 12 kb region delimited by shifts in GC content and containing tandem minisatellite- and microsatellite repeats with partially palindromic sequences. De novo annotation identified 32 protein-coding genes, 28 structural RNA genes and 19 ORFs. ORFs predicted in the repeat-rich region showed similarities to diverse organisms suggesting possible evolutionary connections. The data generated here form a refined platform for the next step involving functional analysis, all to clarify the complex biology of P. brassicae.Suzana StjeljaJohan FogelqvistChristian Tellgren-RothChristina DixeliusNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 9, Iss 1, Pp 1-9 (2019)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Suzana Stjelja Johan Fogelqvist Christian Tellgren-Roth Christina Dixelius The architecture of the Plasmodiophora brassicae nuclear and mitochondrial genomes
description	Abstract Plasmodiophora brassicae is a soil-borne pathogen that attacks roots of cruciferous plants causing clubroot disease. The pathogen belongs to the Plasmodiophorida order in Phytomyxea. Here we used long-read SMRT technology to clarify the P. brassicae e3 genomic constituents along with comparative and phylogenetic analyses. Twenty contigs representing the nuclear genome and one mitochondrial (mt) contig were generated, together comprising 25.1 Mbp. Thirteen of the 20 nuclear contigs represented chromosomes from telomere to telomere characterized by [TTTTAGGG] sequences. Seven active gene candidates encoding synaptonemal complex-associated and meiotic-related protein homologs were identified, a finding that argues for possible genetic recombination events. The circular mt genome is large (114,663 bp), gene dense and intron rich. It shares high synteny with the mt genome of Spongospora subterranea, except in a unique 12 kb region delimited by shifts in GC content and containing tandem minisatellite- and microsatellite repeats with partially palindromic sequences. De novo annotation identified 32 protein-coding genes, 28 structural RNA genes and 19 ORFs. ORFs predicted in the repeat-rich region showed similarities to diverse organisms suggesting possible evolutionary connections. The data generated here form a refined platform for the next step involving functional analysis, all to clarify the complex biology of P. brassicae.
format	article
author	Suzana Stjelja Johan Fogelqvist Christian Tellgren-Roth Christina Dixelius
author_facet	Suzana Stjelja Johan Fogelqvist Christian Tellgren-Roth Christina Dixelius
author_sort	Suzana Stjelja
title	The architecture of the Plasmodiophora brassicae nuclear and mitochondrial genomes
title_short	The architecture of the Plasmodiophora brassicae nuclear and mitochondrial genomes
title_full	The architecture of the Plasmodiophora brassicae nuclear and mitochondrial genomes
title_fullStr	The architecture of the Plasmodiophora brassicae nuclear and mitochondrial genomes
title_full_unstemmed	The architecture of the Plasmodiophora brassicae nuclear and mitochondrial genomes
title_sort	architecture of the plasmodiophora brassicae nuclear and mitochondrial genomes
publisher	Nature Portfolio
publishDate	2019
url	https://doaj.org/article/69a48796f95f426b9ca22e4bbbba7cd4
work_keys_str_mv	AT suzanastjelja thearchitectureoftheplasmodiophorabrassicaenuclearandmitochondrialgenomes AT johanfogelqvist thearchitectureoftheplasmodiophorabrassicaenuclearandmitochondrialgenomes AT christiantellgrenroth thearchitectureoftheplasmodiophorabrassicaenuclearandmitochondrialgenomes AT christinadixelius thearchitectureoftheplasmodiophorabrassicaenuclearandmitochondrialgenomes AT suzanastjelja architectureoftheplasmodiophorabrassicaenuclearandmitochondrialgenomes AT johanfogelqvist architectureoftheplasmodiophorabrassicaenuclearandmitochondrialgenomes AT christiantellgrenroth architectureoftheplasmodiophorabrassicaenuclearandmitochondrialgenomes AT christinadixelius architectureoftheplasmodiophorabrassicaenuclearandmitochondrialgenomes
_version_	1718388318907924480

The architecture of the Plasmodiophora brassicae nuclear and mitochondrial genomes

Ejemplares similares