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Publications

URGI members are underlined in authors list. In the talks sections, names in bold are the speakers.

There are different types of publications, Papers with reading comittee (ACL), Papers in books (ACT), Invited talks (INV), Talks (COM), Posters (COM), Specialised Media and Press (SMP) and Thesis.

Other
COM (communication)
16 Jun 2023 [hal-04130857] Development of a knowledge graph framework to ease and empower translational approaches in plant research: a use-case on grain legumes
Legumes, and especially pulses, are an important source of protein for food and feed, and are appreciated for their positive impact on the “one health”. However, their unstable yields and their susceptibility to biotic and abiotic stresses highlight the need for varietal improvement in order to increase the cultivated areas and productivity. With the advent of sequencing technologies, a large pool of genetic and -omics resources, heterogeneous at the inter- and intra-species scale, is emerging. Thus, it is important to capitalize on these scattered heterogeneous data to develop translational research to boost breeding projects and crop diversification. To meet this need, we undertook the development of the Orthology-driven knowledge base framework for translational research (Ortho_KB). For a set of species of interest, it infers orthologous relationships between genes, proposes associated syntenic blocks between chromosomes and creates a graph database linking genetic and RNA-seq data. To explore the possibilities of this framework, we populated Ortho_KB to obtain OrthoLegKB, an instance dedicated to legumes. This database includes four cultivated crops, namely Pisum sativum, Vicia faba, Lens culinaris and Vigna radiata, and the model legume Medicago truncatula. Available information on quantitative trait loci (QTL) for multiple traits are being integrated as well as expression data. The proposed database model was evaluated by studying the conservation of a flowering-promoting gene
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In ProdINRA
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COM (communication)
05 Jun 2023 [hal-04117938] Practical training III : REPET pipeline
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In ProdINRA
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COM (communication)
05 Jun 2023 [hal-04117937] How to use REPET for de novo TE annotation
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In ProdINRA
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COM (communication)
17 May 2023 [hal-04099923] SyntenyViewer: a comparative genomics-driven translational research tool
SyntenyViewer is a public web-based tool relying on a relational database available at https://urgi.versailles.inrae.fr/synteny delivering comparative genomics data and associated reservoir of conserved genes between angiosperm species for both fundamental (evolutionary studies) and applied (translational research) applications. SyntenyViewer is made available for (i) providing comparative genomics data for seven major botanical families of flowering plants, (ii) delivering a robust catalog of 103 465 conserved genes between 44 species and inferred ancestral genomes, (iii) allowing us to investigate the evolutionary fate of ancestral genes and genomic regions in modern species through duplications, inversions, deletions, fusions, fissions and translocations, (iv) use as a tool to conduct translational research of key trait-related genes from model species to crops and (v) offering to host any comparative genomics data following simplified procedures and formats Database URL: https://urgi.versailles.inrae.fr/synteny
et al.
In ProdINRA
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COM (communication)
26 Apr 2023 [hal-04082874] How genomics can help biodiversity conservation
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et al.
In ProdINRA
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COM (communication)
08 Mar 2023 [hal-03906699] CAULIFINDER

Plant, animal and protist genomes often contain endogenous viral elements (EVEs), which correspond to ...
Update: 19 Nov 2010
Creation date: 01 Dec 2009