Transcriptome data from three endemic Myrtaceae species from New Caledonia displaying contrasting responses to myrtle rust (Austropuccinia psidii)
The myrtle rust disease, caused by the fungus Austropuccinia psidii, infects a wide range of host species within the Myrtaceae family worldwide. Since its first report in 2013 in New Caledonia, it was found on various types of native environments where Myrtaceae are the dominant or codominant species, as well as in several commercial nurseries. It is now considered as a significant threat to ecosystems biodiversity and Myrtaceae-related economy. The use of predictive molecular markers for resistance against myrtle rust is currently the most cost-effective and ecological approach to control the disease. Such an approach for neo Caledonian endemic Myrtaceae species was not possible because of the lack of genomic resources. The recent advancement in new generation sequencing technologies accompanied with relevant bioinformatics tools now provide new research opportunity for work in non-model organism at the transcriptomic level. The present study focuses on transcriptome analysis on three Myrtaceae species endemic to New Caledonia (Arillastrum gummiferum, Syzygium longifolium and Tristaniopsis glauca) that display contrasting responses to the pathogen (non-infected vs infected). Differential gene expression (DGE) and variant calling analysis were conducted on each species. We combined a dual approach by using 1) the annotated reference genome of a related Myrtaceae species (Eucalyptus grandis) and 2) a de novo transcriptomes of each species.
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Subjects: | H20 - Maladies des plantes, F30 - Génétique et amélioration des plantes, maladie des plantes, génome, rouille, Myrtaceae, marqueur génétique, contrôle de maladies, transcriptome, http://aims.fao.org/aos/agrovoc/c_5962, http://aims.fao.org/aos/agrovoc/c_3224, http://aims.fao.org/aos/agrovoc/c_6710, http://aims.fao.org/aos/agrovoc/c_5052, http://aims.fao.org/aos/agrovoc/c_24030, http://aims.fao.org/aos/agrovoc/c_2327, http://aims.fao.org/aos/agrovoc/c_620c5378, http://aims.fao.org/aos/agrovoc/c_5155, http://aims.fao.org/aos/agrovoc/c_3081, |
Online Access: | http://agritrop.cirad.fr/590640/ http://agritrop.cirad.fr/590640/1/Soewarto%20et%20al.%202019-%20Transcriptome%20data%20from%20three%20endemic%20Myrtaceae%20species%20from%20New%20Caledonia%20displaying%20contrasting%20responses%20to%20myrtle%20rust.pdf |
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dig-cirad-fr-5906402024-01-29T01:32:20Z http://agritrop.cirad.fr/590640/ http://agritrop.cirad.fr/590640/ Transcriptome data from three endemic Myrtaceae species from New Caledonia displaying contrasting responses to myrtle rust (Austropuccinia psidii). Soewarto Julia, Hamelin Chantal, Bocs Stéphanie, Mournet Pierre, Vignes Hélène, Berger Angélique, Armero Villanueva Alix Augusto, Martin Guillaume, Dereeper Alexis, Sarah Gautier, Carriconde Fabian, Maggia Laurent. 2019. Data in Brief, 22 : 794-811.https://doi.org/10.1016/j.dib.2018.12.080 <https://doi.org/10.1016/j.dib.2018.12.080> Transcriptome data from three endemic Myrtaceae species from New Caledonia displaying contrasting responses to myrtle rust (Austropuccinia psidii) Soewarto, Julia Hamelin, Chantal Bocs, Stéphanie Mournet, Pierre Vignes, Hélène Berger, Angélique Armero Villanueva, Alix Augusto Martin, Guillaume Dereeper, Alexis Sarah, Gautier Carriconde, Fabian Maggia, Laurent eng 2019 Data in Brief H20 - Maladies des plantes F30 - Génétique et amélioration des plantes maladie des plantes génome rouille Myrtaceae marqueur génétique contrôle de maladies transcriptome http://aims.fao.org/aos/agrovoc/c_5962 http://aims.fao.org/aos/agrovoc/c_3224 http://aims.fao.org/aos/agrovoc/c_6710 http://aims.fao.org/aos/agrovoc/c_5052 http://aims.fao.org/aos/agrovoc/c_24030 http://aims.fao.org/aos/agrovoc/c_2327 http://aims.fao.org/aos/agrovoc/c_620c5378 Nouvelle-Calédonie France http://aims.fao.org/aos/agrovoc/c_5155 http://aims.fao.org/aos/agrovoc/c_3081 The myrtle rust disease, caused by the fungus Austropuccinia psidii, infects a wide range of host species within the Myrtaceae family worldwide. Since its first report in 2013 in New Caledonia, it was found on various types of native environments where Myrtaceae are the dominant or codominant species, as well as in several commercial nurseries. It is now considered as a significant threat to ecosystems biodiversity and Myrtaceae-related economy. The use of predictive molecular markers for resistance against myrtle rust is currently the most cost-effective and ecological approach to control the disease. Such an approach for neo Caledonian endemic Myrtaceae species was not possible because of the lack of genomic resources. The recent advancement in new generation sequencing technologies accompanied with relevant bioinformatics tools now provide new research opportunity for work in non-model organism at the transcriptomic level. The present study focuses on transcriptome analysis on three Myrtaceae species endemic to New Caledonia (Arillastrum gummiferum, Syzygium longifolium and Tristaniopsis glauca) that display contrasting responses to the pathogen (non-infected vs infected). Differential gene expression (DGE) and variant calling analysis were conducted on each species. We combined a dual approach by using 1) the annotated reference genome of a related Myrtaceae species (Eucalyptus grandis) and 2) a de novo transcriptomes of each species. article info:eu-repo/semantics/article Journal Article info:eu-repo/semantics/publishedVersion http://agritrop.cirad.fr/590640/1/Soewarto%20et%20al.%202019-%20Transcriptome%20data%20from%20three%20endemic%20Myrtaceae%20species%20from%20New%20Caledonia%20displaying%20contrasting%20responses%20to%20myrtle%20rust.pdf text cc_by info:eu-repo/semantics/openAccess https://creativecommons.org/licenses/by/4.0/ https://doi.org/10.1016/j.dib.2018.12.080 10.1016/j.dib.2018.12.080 info:eu-repo/semantics/altIdentifier/doi/10.1016/j.dib.2018.12.080 info:eu-repo/semantics/altIdentifier/purl/https://doi.org/10.1016/j.dib.2018.12.080 info:eu-repo/semantics/dataset/purl/https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE106750 |
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H20 - Maladies des plantes F30 - Génétique et amélioration des plantes maladie des plantes génome rouille Myrtaceae marqueur génétique contrôle de maladies transcriptome http://aims.fao.org/aos/agrovoc/c_5962 http://aims.fao.org/aos/agrovoc/c_3224 http://aims.fao.org/aos/agrovoc/c_6710 http://aims.fao.org/aos/agrovoc/c_5052 http://aims.fao.org/aos/agrovoc/c_24030 http://aims.fao.org/aos/agrovoc/c_2327 http://aims.fao.org/aos/agrovoc/c_620c5378 http://aims.fao.org/aos/agrovoc/c_5155 http://aims.fao.org/aos/agrovoc/c_3081 H20 - Maladies des plantes F30 - Génétique et amélioration des plantes maladie des plantes génome rouille Myrtaceae marqueur génétique contrôle de maladies transcriptome http://aims.fao.org/aos/agrovoc/c_5962 http://aims.fao.org/aos/agrovoc/c_3224 http://aims.fao.org/aos/agrovoc/c_6710 http://aims.fao.org/aos/agrovoc/c_5052 http://aims.fao.org/aos/agrovoc/c_24030 http://aims.fao.org/aos/agrovoc/c_2327 http://aims.fao.org/aos/agrovoc/c_620c5378 http://aims.fao.org/aos/agrovoc/c_5155 http://aims.fao.org/aos/agrovoc/c_3081 |
spellingShingle |
H20 - Maladies des plantes F30 - Génétique et amélioration des plantes maladie des plantes génome rouille Myrtaceae marqueur génétique contrôle de maladies transcriptome http://aims.fao.org/aos/agrovoc/c_5962 http://aims.fao.org/aos/agrovoc/c_3224 http://aims.fao.org/aos/agrovoc/c_6710 http://aims.fao.org/aos/agrovoc/c_5052 http://aims.fao.org/aos/agrovoc/c_24030 http://aims.fao.org/aos/agrovoc/c_2327 http://aims.fao.org/aos/agrovoc/c_620c5378 http://aims.fao.org/aos/agrovoc/c_5155 http://aims.fao.org/aos/agrovoc/c_3081 H20 - Maladies des plantes F30 - Génétique et amélioration des plantes maladie des plantes génome rouille Myrtaceae marqueur génétique contrôle de maladies transcriptome http://aims.fao.org/aos/agrovoc/c_5962 http://aims.fao.org/aos/agrovoc/c_3224 http://aims.fao.org/aos/agrovoc/c_6710 http://aims.fao.org/aos/agrovoc/c_5052 http://aims.fao.org/aos/agrovoc/c_24030 http://aims.fao.org/aos/agrovoc/c_2327 http://aims.fao.org/aos/agrovoc/c_620c5378 http://aims.fao.org/aos/agrovoc/c_5155 http://aims.fao.org/aos/agrovoc/c_3081 Soewarto, Julia Hamelin, Chantal Bocs, Stéphanie Mournet, Pierre Vignes, Hélène Berger, Angélique Armero Villanueva, Alix Augusto Martin, Guillaume Dereeper, Alexis Sarah, Gautier Carriconde, Fabian Maggia, Laurent Transcriptome data from three endemic Myrtaceae species from New Caledonia displaying contrasting responses to myrtle rust (Austropuccinia psidii) |
description |
The myrtle rust disease, caused by the fungus Austropuccinia psidii, infects a wide range of host species within the Myrtaceae family worldwide. Since its first report in 2013 in New Caledonia, it was found on various types of native environments where Myrtaceae are the dominant or codominant species, as well as in several commercial nurseries. It is now considered as a significant threat to ecosystems biodiversity and Myrtaceae-related economy. The use of predictive molecular markers for resistance against myrtle rust is currently the most cost-effective and ecological approach to control the disease. Such an approach for neo Caledonian endemic Myrtaceae species was not possible because of the lack of genomic resources. The recent advancement in new generation sequencing technologies accompanied with relevant bioinformatics tools now provide new research opportunity for work in non-model organism at the transcriptomic level. The present study focuses on transcriptome analysis on three Myrtaceae species endemic to New Caledonia (Arillastrum gummiferum, Syzygium longifolium and Tristaniopsis glauca) that display contrasting responses to the pathogen (non-infected vs infected). Differential gene expression (DGE) and variant calling analysis were conducted on each species. We combined a dual approach by using 1) the annotated reference genome of a related Myrtaceae species (Eucalyptus grandis) and 2) a de novo transcriptomes of each species. |
format |
article |
topic_facet |
H20 - Maladies des plantes F30 - Génétique et amélioration des plantes maladie des plantes génome rouille Myrtaceae marqueur génétique contrôle de maladies transcriptome http://aims.fao.org/aos/agrovoc/c_5962 http://aims.fao.org/aos/agrovoc/c_3224 http://aims.fao.org/aos/agrovoc/c_6710 http://aims.fao.org/aos/agrovoc/c_5052 http://aims.fao.org/aos/agrovoc/c_24030 http://aims.fao.org/aos/agrovoc/c_2327 http://aims.fao.org/aos/agrovoc/c_620c5378 http://aims.fao.org/aos/agrovoc/c_5155 http://aims.fao.org/aos/agrovoc/c_3081 |
author |
Soewarto, Julia Hamelin, Chantal Bocs, Stéphanie Mournet, Pierre Vignes, Hélène Berger, Angélique Armero Villanueva, Alix Augusto Martin, Guillaume Dereeper, Alexis Sarah, Gautier Carriconde, Fabian Maggia, Laurent |
author_facet |
Soewarto, Julia Hamelin, Chantal Bocs, Stéphanie Mournet, Pierre Vignes, Hélène Berger, Angélique Armero Villanueva, Alix Augusto Martin, Guillaume Dereeper, Alexis Sarah, Gautier Carriconde, Fabian Maggia, Laurent |
author_sort |
Soewarto, Julia |
title |
Transcriptome data from three endemic Myrtaceae species from New Caledonia displaying contrasting responses to myrtle rust (Austropuccinia psidii) |
title_short |
Transcriptome data from three endemic Myrtaceae species from New Caledonia displaying contrasting responses to myrtle rust (Austropuccinia psidii) |
title_full |
Transcriptome data from three endemic Myrtaceae species from New Caledonia displaying contrasting responses to myrtle rust (Austropuccinia psidii) |
title_fullStr |
Transcriptome data from three endemic Myrtaceae species from New Caledonia displaying contrasting responses to myrtle rust (Austropuccinia psidii) |
title_full_unstemmed |
Transcriptome data from three endemic Myrtaceae species from New Caledonia displaying contrasting responses to myrtle rust (Austropuccinia psidii) |
title_sort |
transcriptome data from three endemic myrtaceae species from new caledonia displaying contrasting responses to myrtle rust (austropuccinia psidii) |
url |
http://agritrop.cirad.fr/590640/ http://agritrop.cirad.fr/590640/1/Soewarto%20et%20al.%202019-%20Transcriptome%20data%20from%20three%20endemic%20Myrtaceae%20species%20from%20New%20Caledonia%20displaying%20contrasting%20responses%20to%20myrtle%20rust.pdf |
work_keys_str_mv |
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