Statement of transcriptomics and bioinformatics analyses conducted at CIRAD in rubber tree: Towards the genome analysis
During the last years, the cost of sequencing technology decreased a lot, and consequently, data produced by “OMICS” projects on tropical crops increased exponentially. That's why novel methods have been developed at CIRAD for the analysis and storage of data related to these huge projects. We present here bioinformatics resources and analyses conducted at CIRAD on Hevea brasiliensis transcriptome and genome. The Expressed Sequenced Tag Treatment and Investigation Kit (ESTtik) is a tool dedicated to analyse and store results from data processing of cDNA. TropGeneDB is a database that manages genetic and genomic information about tropical crops studied by Cirad. The database is organised into crop specific modules and Rubber tree data contained into the database will be described. At last, GnpAnnot is a project on green genomics which intends to develop a platform of structural and functional annotation supported by comparative genomics and dedicated to plant and bio-aggressor genomes allowing both automatic predictions and manual curation of genes and transposable elements. This plateform will be used for the manual genome annotation of many tropical crops (cocoa, coffee, banana) and could supported the analysis of the Ruber tree genome.
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Subjects: | F30 - Génétique et amélioration des plantes, Hevea brasiliensis, http://aims.fao.org/aos/agrovoc/c_3589, http://aims.fao.org/aos/agrovoc/c_1070, http://aims.fao.org/aos/agrovoc/c_3081, |
Online Access: | http://agritrop.cirad.fr/550369/ http://agritrop.cirad.fr/550369/1/document_550369.pdf |
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dig-cirad-fr-5503692024-04-03T13:20:03Z http://agritrop.cirad.fr/550369/ http://agritrop.cirad.fr/550369/ Statement of transcriptomics and bioinformatics analyses conducted at CIRAD in rubber tree: Towards the genome analysis. Argout Xavier, Garcia Dominique, Montoro Pascal, Pujade-Renaud Valérie, Ruiz Manuel, Seguin Marc, Sidibé-Bocs Stéphanie. 2009. In : 3rd IRRDB Workshop on the Hevea Genome and Transcriptome (Book of abstracts), 3-5 June, 2009, Montpellier, France. CIRAD, IFC, IRRDB. Montpellier : CIRAD, Résumé, 49. IRRDB Workshop on the Hevea Genome and Transcriptome. 3, Montpellier, France, 3 Juin 2009/5 Juin 2009. Statement of transcriptomics and bioinformatics analyses conducted at CIRAD in rubber tree: Towards the genome analysis Argout, Xavier Garcia, Dominique Montoro, Pascal Pujade-Renaud, Valérie Ruiz, Manuel Seguin, Marc Sidibé-Bocs, Stéphanie eng 2009 CIRAD 3rd IRRDB Workshop on the Hevea Genome and Transcriptome (Book of abstracts), 3-5 June, 2009, Montpellier, France F30 - Génétique et amélioration des plantes Hevea brasiliensis http://aims.fao.org/aos/agrovoc/c_3589 Brésil France http://aims.fao.org/aos/agrovoc/c_1070 http://aims.fao.org/aos/agrovoc/c_3081 During the last years, the cost of sequencing technology decreased a lot, and consequently, data produced by “OMICS” projects on tropical crops increased exponentially. That's why novel methods have been developed at CIRAD for the analysis and storage of data related to these huge projects. We present here bioinformatics resources and analyses conducted at CIRAD on Hevea brasiliensis transcriptome and genome. The Expressed Sequenced Tag Treatment and Investigation Kit (ESTtik) is a tool dedicated to analyse and store results from data processing of cDNA. TropGeneDB is a database that manages genetic and genomic information about tropical crops studied by Cirad. The database is organised into crop specific modules and Rubber tree data contained into the database will be described. At last, GnpAnnot is a project on green genomics which intends to develop a platform of structural and functional annotation supported by comparative genomics and dedicated to plant and bio-aggressor genomes allowing both automatic predictions and manual curation of genes and transposable elements. This plateform will be used for the manual genome annotation of many tropical crops (cocoa, coffee, banana) and could supported the analysis of the Ruber tree genome. conference_item info:eu-repo/semantics/conferenceObject Conference info:eu-repo/semantics/publishedVersion http://agritrop.cirad.fr/550369/1/document_550369.pdf application/pdf Cirad license info:eu-repo/semantics/openAccess https://agritrop.cirad.fr/mention_legale.html http://agritrop.cirad.fr/609073/ |
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F30 - Génétique et amélioration des plantes Hevea brasiliensis http://aims.fao.org/aos/agrovoc/c_3589 http://aims.fao.org/aos/agrovoc/c_1070 http://aims.fao.org/aos/agrovoc/c_3081 F30 - Génétique et amélioration des plantes Hevea brasiliensis http://aims.fao.org/aos/agrovoc/c_3589 http://aims.fao.org/aos/agrovoc/c_1070 http://aims.fao.org/aos/agrovoc/c_3081 |
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F30 - Génétique et amélioration des plantes Hevea brasiliensis http://aims.fao.org/aos/agrovoc/c_3589 http://aims.fao.org/aos/agrovoc/c_1070 http://aims.fao.org/aos/agrovoc/c_3081 F30 - Génétique et amélioration des plantes Hevea brasiliensis http://aims.fao.org/aos/agrovoc/c_3589 http://aims.fao.org/aos/agrovoc/c_1070 http://aims.fao.org/aos/agrovoc/c_3081 Argout, Xavier Garcia, Dominique Montoro, Pascal Pujade-Renaud, Valérie Ruiz, Manuel Seguin, Marc Sidibé-Bocs, Stéphanie Statement of transcriptomics and bioinformatics analyses conducted at CIRAD in rubber tree: Towards the genome analysis |
description |
During the last years, the cost of sequencing technology decreased a lot, and consequently, data produced by “OMICS” projects on tropical crops increased exponentially. That's why novel methods have been developed at CIRAD for the analysis and storage of data related to these huge projects. We present here bioinformatics resources and analyses conducted at CIRAD on Hevea brasiliensis transcriptome and genome. The Expressed Sequenced Tag Treatment and Investigation Kit (ESTtik) is a tool dedicated to analyse and store results from data processing of cDNA. TropGeneDB is a database that manages genetic and genomic information about tropical crops studied by Cirad. The database is organised into crop specific modules and Rubber tree data contained into the database will be described. At last, GnpAnnot is a project on green genomics which intends to develop a platform of structural and functional annotation supported by comparative genomics and dedicated to plant and bio-aggressor genomes allowing both automatic predictions and manual curation of genes and transposable elements. This plateform will be used for the manual genome annotation of many tropical crops (cocoa, coffee, banana) and could supported the analysis of the Ruber tree genome. |
format |
conference_item |
topic_facet |
F30 - Génétique et amélioration des plantes Hevea brasiliensis http://aims.fao.org/aos/agrovoc/c_3589 http://aims.fao.org/aos/agrovoc/c_1070 http://aims.fao.org/aos/agrovoc/c_3081 |
author |
Argout, Xavier Garcia, Dominique Montoro, Pascal Pujade-Renaud, Valérie Ruiz, Manuel Seguin, Marc Sidibé-Bocs, Stéphanie |
author_facet |
Argout, Xavier Garcia, Dominique Montoro, Pascal Pujade-Renaud, Valérie Ruiz, Manuel Seguin, Marc Sidibé-Bocs, Stéphanie |
author_sort |
Argout, Xavier |
title |
Statement of transcriptomics and bioinformatics analyses conducted at CIRAD in rubber tree: Towards the genome analysis |
title_short |
Statement of transcriptomics and bioinformatics analyses conducted at CIRAD in rubber tree: Towards the genome analysis |
title_full |
Statement of transcriptomics and bioinformatics analyses conducted at CIRAD in rubber tree: Towards the genome analysis |
title_fullStr |
Statement of transcriptomics and bioinformatics analyses conducted at CIRAD in rubber tree: Towards the genome analysis |
title_full_unstemmed |
Statement of transcriptomics and bioinformatics analyses conducted at CIRAD in rubber tree: Towards the genome analysis |
title_sort |
statement of transcriptomics and bioinformatics analyses conducted at cirad in rubber tree: towards the genome analysis |
publisher |
CIRAD |
url |
http://agritrop.cirad.fr/550369/ http://agritrop.cirad.fr/550369/1/document_550369.pdf |
work_keys_str_mv |
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1798165007614083072 |