Characterization and comparative analysis of the genome of Puccinia sorghi Schwein, the causal agent of maize common rust

Rust fungi are one of the most devastating pathogens of crop plants. The biotrophic fungus Puccinia sorghi Schwein (Ps) is responsible for maize common rust, an endemic disease of maize (Zea mays L.) in Argentina that causes significant yield losses in corn production. In spite of this, the Ps genom...

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Autores principales:	Dieguez, María José, Ingala, Lorena Romina, Turjanski, Adrián Gustavo
Publicado:	2018
Materias:	Genomic sequence Maize Maize common rust Plant pathogens Puccinia sorghi Secretome fungal protein Article comparative study controlled study DNA sequence expressed sequence tag fungal genome Illumina sequencing microsynteny multigene family nonhuman priority journal Puccinia Puccinia graminis f. sp. tritici Puccinia striiformis f. sp. tritici Puccinia triticina sequence analysis sequence homology synteny transposon Ustilago maydis Argentina Basidiomycetes biology genetics high throughput sequencing isolation and purification maize microbiology molecular genetics plant disease plant leaf Basidiomycota Computational Biology Genome, Fungal High-Throughput Nucleotide Sequencing Molecular Sequence Annotation Plant Diseases Plant Leaves Sequence Analysis, DNA Zea mays
Acceso en línea:	https://bibliotecadigital.exactas.uba.ar/collection/paper/document/paper_10871845_v112_n_p31_Rochi http://hdl.handle.net/20.500.12110/paper_10871845_v112_n_p31_Rochi
Aporte de:	Biblioteca Digital - Facultad de Ciencias Exactas y Naturales (UBA) de Universidad de Buenos Aires

id	paper:paper_10871845_v112_n_p31_Rochi
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spelling	paper:paper_10871845_v112_n_p31_Rochi2023-06-08T16:06:11Z Characterization and comparative analysis of the genome of Puccinia sorghi Schwein, the causal agent of maize common rust Dieguez, María José Ingala, Lorena Romina Turjanski, Adrián Gustavo Genomic sequence Maize Maize common rust Plant pathogens Puccinia sorghi Secretome fungal protein Article comparative study controlled study DNA sequence expressed sequence tag fungal genome Illumina sequencing microsynteny multigene family nonhuman priority journal Puccinia Puccinia graminis f. sp. tritici Puccinia sorghi Puccinia striiformis f. sp. tritici Puccinia triticina sequence analysis sequence homology synteny transposon Ustilago maydis Argentina Basidiomycetes biology genetics high throughput sequencing isolation and purification maize microbiology molecular genetics plant disease plant leaf Argentina Basidiomycota Computational Biology Genome, Fungal High-Throughput Nucleotide Sequencing Molecular Sequence Annotation Plant Diseases Plant Leaves Sequence Analysis, DNA Zea mays Rust fungi are one of the most devastating pathogens of crop plants. The biotrophic fungus Puccinia sorghi Schwein (Ps) is responsible for maize common rust, an endemic disease of maize (Zea mays L.) in Argentina that causes significant yield losses in corn production. In spite of this, the Ps genomic sequence was not available. We used Illumina sequencing to rapidly produce the 99.6 Mb draft genome sequence of Ps race RO10H11247, derived from a single-uredinial isolate from infected maize leaves collected in the Argentine Corn Belt Region during 2010. High quality reads were obtained from 200 bp paired-end and 5000 bp mate-paired libraries and assembled in 15,722 scaffolds. A pipeline which combined an ab initio program with homology-based models and homology to in planta enriched ESTs from four cereal pathogenic fungus (the three sequenced wheat rusts and Ustilago maydis) was used to identify 21,087 putative coding sequences, of which 1599 might be part of the Ps RO10H11247 secretome. Among the 458 highly conserved protein families from the euKaryotic Orthologous Groups (KOG) that occur in a wide range of eukaryotic organisms, 97.5% have at least one member with high homology in the Ps assembly (TBlastN, E-value ⩽ e−10) covering more than 50% of the length of the KOG protein. Comparative studies with the three sequenced wheat rust fungus, and microsynteny analysis involving Puccinia striiformis f. sp. tritici (Pst, wheat stripe rust fungus), support the quality achieved. The results presented here show the effectiveness of the Illumina strategy for sequencing dikaryotic genomes of non-model organisms and provides reliable DNA sequence information for genomic studies, including pathogenic mechanisms of this maize fungus and molecular marker design. © 2016 Elsevier Inc. Fil:Diéguez, M.J. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Ingala, L.R. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Turjanski, A. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. 2018 https://bibliotecadigital.exactas.uba.ar/collection/paper/document/paper_10871845_v112_n_p31_Rochi http://hdl.handle.net/20.500.12110/paper_10871845_v112_n_p31_Rochi
institution	Universidad de Buenos Aires
institution_str	I-28
repository_str	R-134
collection	Biblioteca Digital - Facultad de Ciencias Exactas y Naturales (UBA)
topic	Genomic sequence Maize Maize common rust Plant pathogens Puccinia sorghi Secretome fungal protein Article comparative study controlled study DNA sequence expressed sequence tag fungal genome Illumina sequencing microsynteny multigene family nonhuman priority journal Puccinia Puccinia graminis f. sp. tritici Puccinia sorghi Puccinia striiformis f. sp. tritici Puccinia triticina sequence analysis sequence homology synteny transposon Ustilago maydis Argentina Basidiomycetes biology genetics high throughput sequencing isolation and purification maize microbiology molecular genetics plant disease plant leaf Argentina Basidiomycota Computational Biology Genome, Fungal High-Throughput Nucleotide Sequencing Molecular Sequence Annotation Plant Diseases Plant Leaves Sequence Analysis, DNA Zea mays
spellingShingle	Genomic sequence Maize Maize common rust Plant pathogens Puccinia sorghi Secretome fungal protein Article comparative study controlled study DNA sequence expressed sequence tag fungal genome Illumina sequencing microsynteny multigene family nonhuman priority journal Puccinia Puccinia graminis f. sp. tritici Puccinia sorghi Puccinia striiformis f. sp. tritici Puccinia triticina sequence analysis sequence homology synteny transposon Ustilago maydis Argentina Basidiomycetes biology genetics high throughput sequencing isolation and purification maize microbiology molecular genetics plant disease plant leaf Argentina Basidiomycota Computational Biology Genome, Fungal High-Throughput Nucleotide Sequencing Molecular Sequence Annotation Plant Diseases Plant Leaves Sequence Analysis, DNA Zea mays Dieguez, María José Ingala, Lorena Romina Turjanski, Adrián Gustavo Characterization and comparative analysis of the genome of Puccinia sorghi Schwein, the causal agent of maize common rust
topic_facet	Genomic sequence Maize Maize common rust Plant pathogens Puccinia sorghi Secretome fungal protein Article comparative study controlled study DNA sequence expressed sequence tag fungal genome Illumina sequencing microsynteny multigene family nonhuman priority journal Puccinia Puccinia graminis f. sp. tritici Puccinia sorghi Puccinia striiformis f. sp. tritici Puccinia triticina sequence analysis sequence homology synteny transposon Ustilago maydis Argentina Basidiomycetes biology genetics high throughput sequencing isolation and purification maize microbiology molecular genetics plant disease plant leaf Argentina Basidiomycota Computational Biology Genome, Fungal High-Throughput Nucleotide Sequencing Molecular Sequence Annotation Plant Diseases Plant Leaves Sequence Analysis, DNA Zea mays
description	Rust fungi are one of the most devastating pathogens of crop plants. The biotrophic fungus Puccinia sorghi Schwein (Ps) is responsible for maize common rust, an endemic disease of maize (Zea mays L.) in Argentina that causes significant yield losses in corn production. In spite of this, the Ps genomic sequence was not available. We used Illumina sequencing to rapidly produce the 99.6 Mb draft genome sequence of Ps race RO10H11247, derived from a single-uredinial isolate from infected maize leaves collected in the Argentine Corn Belt Region during 2010. High quality reads were obtained from 200 bp paired-end and 5000 bp mate-paired libraries and assembled in 15,722 scaffolds. A pipeline which combined an ab initio program with homology-based models and homology to in planta enriched ESTs from four cereal pathogenic fungus (the three sequenced wheat rusts and Ustilago maydis) was used to identify 21,087 putative coding sequences, of which 1599 might be part of the Ps RO10H11247 secretome. Among the 458 highly conserved protein families from the euKaryotic Orthologous Groups (KOG) that occur in a wide range of eukaryotic organisms, 97.5% have at least one member with high homology in the Ps assembly (TBlastN, E-value ⩽ e−10) covering more than 50% of the length of the KOG protein. Comparative studies with the three sequenced wheat rust fungus, and microsynteny analysis involving Puccinia striiformis f. sp. tritici (Pst, wheat stripe rust fungus), support the quality achieved. The results presented here show the effectiveness of the Illumina strategy for sequencing dikaryotic genomes of non-model organisms and provides reliable DNA sequence information for genomic studies, including pathogenic mechanisms of this maize fungus and molecular marker design. © 2016 Elsevier Inc.
author	Dieguez, María José Ingala, Lorena Romina Turjanski, Adrián Gustavo
author_facet	Dieguez, María José Ingala, Lorena Romina Turjanski, Adrián Gustavo
author_sort	Dieguez, María José
title	Characterization and comparative analysis of the genome of Puccinia sorghi Schwein, the causal agent of maize common rust
title_short	Characterization and comparative analysis of the genome of Puccinia sorghi Schwein, the causal agent of maize common rust
title_full	Characterization and comparative analysis of the genome of Puccinia sorghi Schwein, the causal agent of maize common rust
title_fullStr	Characterization and comparative analysis of the genome of Puccinia sorghi Schwein, the causal agent of maize common rust
title_full_unstemmed	Characterization and comparative analysis of the genome of Puccinia sorghi Schwein, the causal agent of maize common rust
title_sort	characterization and comparative analysis of the genome of puccinia sorghi schwein, the causal agent of maize common rust
publishDate	2018
url	https://bibliotecadigital.exactas.uba.ar/collection/paper/document/paper_10871845_v112_n_p31_Rochi http://hdl.handle.net/20.500.12110/paper_10871845_v112_n_p31_Rochi
work_keys_str_mv	AT dieguezmariajose characterizationandcomparativeanalysisofthegenomeofpucciniasorghischweinthecausalagentofmaizecommonrust AT ingalalorenaromina characterizationandcomparativeanalysisofthegenomeofpucciniasorghischweinthecausalagentofmaizecommonrust AT turjanskiadriangustavo characterizationandcomparativeanalysisofthegenomeofpucciniasorghischweinthecausalagentofmaizecommonrust
_version_	1768543763675742208

Characterization and comparative analysis of the genome of Puccinia sorghi Schwein, the causal agent of maize common rust

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