Analysis of the diversity of rice genetic resources for use in Europe-determination of a core collection
A large sample (430 out of about 1650 genotypes) of rice genetic resources collected from European breeders has been described with 50 phenotypic (agronomical, morphological and technological) traits and 16 genotypic (micro-satellites or SSR) markers. On the basis of available passport information and 7 classic characteristics of plants (leaf width, form of the panicles, etc) these genotypes were classified a priori within 10 agro-morphological types. Two multivariate analysis (principal components) based on the one hand on the 7 morphological traits, and on the other hand on grain technological characteristics clearly identify three main groups : indica, "traditional" japonica and "North American" japonica. The distribution of some characters of interest and the correlations between some of them, reveal the strong impact of human selection. A first diversity analysis of the 430 genetic resources was performed using the Neighborjoining method of Saitou and Nei, on the basis of the sole SSR makers, leading to the construction of a diversity tree, which very clearly separates indica types and basmati types in opposition to all japonica types. The japonica types are themselves divided between around 100 homogeneous sub-groups. Four different methods were investigated in order to create a core collection of European rice genetic resources. The first consists in collecting all the existing SSR alleles in the population with the smallest number of entries (43 accessions. The second also contains all the existing SSR alleles but in selecting first the individuals with rare (frequency < 1%) alleles (84 accessions). The third approach considers the 100 homogeneous sub-groups which can be defined in the SSR diversity tree, and one entry is randomly selected in each sub-group (100 accessions). The last approach is based on a tree combining the genetic diversity of SSR alleles which provides the skeleton of the tree and the phenotypic diversity of agromorphological characteristics traits which is revealed in the more external part of the tree. As in the previous approach, one entry is randomly selected in each homogeneous sub-groups (117 accessions). The interest and the representativeness of these core collections are discussed, by comparing the distributions of original population which each one of the core collections for traits non used in the building process of core collections.
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Subjects: | F30 - Génétique et amélioration des plantes, Oryza, variation génétique, caractère agronomique, génotype, collection botanique, ressource génétique végétale, http://aims.fao.org/aos/agrovoc/c_5435, http://aims.fao.org/aos/agrovoc/c_15975, http://aims.fao.org/aos/agrovoc/c_210, http://aims.fao.org/aos/agrovoc/c_3225, http://aims.fao.org/aos/agrovoc/c_5957, http://aims.fao.org/aos/agrovoc/c_37419, http://aims.fao.org/aos/agrovoc/c_2724, |
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F30 - Génétique et amélioration des plantes Oryza variation génétique caractère agronomique génotype collection botanique ressource génétique végétale http://aims.fao.org/aos/agrovoc/c_5435 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_210 http://aims.fao.org/aos/agrovoc/c_3225 http://aims.fao.org/aos/agrovoc/c_5957 http://aims.fao.org/aos/agrovoc/c_37419 http://aims.fao.org/aos/agrovoc/c_2724 F30 - Génétique et amélioration des plantes Oryza variation génétique caractère agronomique génotype collection botanique ressource génétique végétale http://aims.fao.org/aos/agrovoc/c_5435 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_210 http://aims.fao.org/aos/agrovoc/c_3225 http://aims.fao.org/aos/agrovoc/c_5957 http://aims.fao.org/aos/agrovoc/c_37419 http://aims.fao.org/aos/agrovoc/c_2724 |
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F30 - Génétique et amélioration des plantes Oryza variation génétique caractère agronomique génotype collection botanique ressource génétique végétale http://aims.fao.org/aos/agrovoc/c_5435 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_210 http://aims.fao.org/aos/agrovoc/c_3225 http://aims.fao.org/aos/agrovoc/c_5957 http://aims.fao.org/aos/agrovoc/c_37419 http://aims.fao.org/aos/agrovoc/c_2724 F30 - Génétique et amélioration des plantes Oryza variation génétique caractère agronomique génotype collection botanique ressource génétique végétale http://aims.fao.org/aos/agrovoc/c_5435 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_210 http://aims.fao.org/aos/agrovoc/c_3225 http://aims.fao.org/aos/agrovoc/c_5957 http://aims.fao.org/aos/agrovoc/c_37419 http://aims.fao.org/aos/agrovoc/c_2724 Feyt, Henri Dubois, Cécile Clément, Guy Jacquemard, Jean-Charles Giner, Michel Luce, Claude Noyer, Jean-Louis Pons, Brigitte Risterucci, Ange-Marie Tharreau, Didier Perrier, Xavier Analysis of the diversity of rice genetic resources for use in Europe-determination of a core collection |
description |
A large sample (430 out of about 1650 genotypes) of rice genetic resources collected from European breeders has been described with 50 phenotypic (agronomical, morphological and technological) traits and 16 genotypic (micro-satellites or SSR) markers. On the basis of available passport information and 7 classic characteristics of plants (leaf width, form of the panicles, etc) these genotypes were classified a priori within 10 agro-morphological types. Two multivariate analysis (principal components) based on the one hand on the 7 morphological traits, and on the other hand on grain technological characteristics clearly identify three main groups : indica, "traditional" japonica and "North American" japonica. The distribution of some characters of interest and the correlations between some of them, reveal the strong impact of human selection. A first diversity analysis of the 430 genetic resources was performed using the Neighborjoining method of Saitou and Nei, on the basis of the sole SSR makers, leading to the construction of a diversity tree, which very clearly separates indica types and basmati types in opposition to all japonica types. The japonica types are themselves divided between around 100 homogeneous sub-groups. Four different methods were investigated in order to create a core collection of European rice genetic resources. The first consists in collecting all the existing SSR alleles in the population with the smallest number of entries (43 accessions. The second also contains all the existing SSR alleles but in selecting first the individuals with rare (frequency < 1%) alleles (84 accessions). The third approach considers the 100 homogeneous sub-groups which can be defined in the SSR diversity tree, and one entry is randomly selected in each sub-group (100 accessions). The last approach is based on a tree combining the genetic diversity of SSR alleles which provides the skeleton of the tree and the phenotypic diversity of agromorphological characteristics traits which is revealed in the more external part of the tree. As in the previous approach, one entry is randomly selected in each homogeneous sub-groups (117 accessions). The interest and the representativeness of these core collections are discussed, by comparing the distributions of original population which each one of the core collections for traits non used in the building process of core collections. |
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conference_item |
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F30 - Génétique et amélioration des plantes Oryza variation génétique caractère agronomique génotype collection botanique ressource génétique végétale http://aims.fao.org/aos/agrovoc/c_5435 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_210 http://aims.fao.org/aos/agrovoc/c_3225 http://aims.fao.org/aos/agrovoc/c_5957 http://aims.fao.org/aos/agrovoc/c_37419 http://aims.fao.org/aos/agrovoc/c_2724 |
author |
Feyt, Henri Dubois, Cécile Clément, Guy Jacquemard, Jean-Charles Giner, Michel Luce, Claude Noyer, Jean-Louis Pons, Brigitte Risterucci, Ange-Marie Tharreau, Didier Perrier, Xavier |
author_facet |
Feyt, Henri Dubois, Cécile Clément, Guy Jacquemard, Jean-Charles Giner, Michel Luce, Claude Noyer, Jean-Louis Pons, Brigitte Risterucci, Ange-Marie Tharreau, Didier Perrier, Xavier |
author_sort |
Feyt, Henri |
title |
Analysis of the diversity of rice genetic resources for use in Europe-determination of a core collection |
title_short |
Analysis of the diversity of rice genetic resources for use in Europe-determination of a core collection |
title_full |
Analysis of the diversity of rice genetic resources for use in Europe-determination of a core collection |
title_fullStr |
Analysis of the diversity of rice genetic resources for use in Europe-determination of a core collection |
title_full_unstemmed |
Analysis of the diversity of rice genetic resources for use in Europe-determination of a core collection |
title_sort |
analysis of the diversity of rice genetic resources for use in europe-determination of a core collection |
publisher |
CIRAD |
url |
http://agritrop.cirad.fr/510130/ |
work_keys_str_mv |
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1792495372578324480 |
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dig-cirad-fr-5101302024-01-28T10:46:56Z http://agritrop.cirad.fr/510130/ http://agritrop.cirad.fr/510130/ Analysis of the diversity of rice genetic resources for use in Europe-determination of a core collection. Feyt Henri, Dubois Cécile, Clément Guy, Jacquemard Jean-Charles, Giner Michel, Luce Claude, Noyer Jean-Louis, Pons Brigitte, Risterucci Ange-Marie, Tharreau Didier, Perrier Xavier. 2002. In : Rice genetic resources and breeding for Europe and other temperate areas : proceedings of Eurorice 2001 Symposium, Cirad, Ird, Ksau, Krasnodar Territory, Vniirisa, September, 3-8, 2001, Krasnodar, Russia. CIRAD, IRD, KSAU, Krasnodar. Montpellier : CIRAD ISBN 2-87614-504-9 Eurorice 2001 Symposium, Krasnodar, Russie, 3 Septembre 2001/8 Septembre 2001. Analysis of the diversity of rice genetic resources for use in Europe-determination of a core collection Feyt, Henri Dubois, Cécile Clément, Guy Jacquemard, Jean-Charles Giner, Michel Luce, Claude Noyer, Jean-Louis Pons, Brigitte Risterucci, Ange-Marie Tharreau, Didier Perrier, Xavier eng 2002 CIRAD Rice genetic resources and breeding for Europe and other temperate areas : proceedings of Eurorice 2001 Symposium, Cirad, Ird, Ksau, Krasnodar Territory, Vniirisa, September, 3-8, 2001, Krasnodar, Russia F30 - Génétique et amélioration des plantes Oryza variation génétique caractère agronomique génotype collection botanique ressource génétique végétale http://aims.fao.org/aos/agrovoc/c_5435 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_210 http://aims.fao.org/aos/agrovoc/c_3225 http://aims.fao.org/aos/agrovoc/c_5957 http://aims.fao.org/aos/agrovoc/c_37419 Europe http://aims.fao.org/aos/agrovoc/c_2724 A large sample (430 out of about 1650 genotypes) of rice genetic resources collected from European breeders has been described with 50 phenotypic (agronomical, morphological and technological) traits and 16 genotypic (micro-satellites or SSR) markers. On the basis of available passport information and 7 classic characteristics of plants (leaf width, form of the panicles, etc) these genotypes were classified a priori within 10 agro-morphological types. Two multivariate analysis (principal components) based on the one hand on the 7 morphological traits, and on the other hand on grain technological characteristics clearly identify three main groups : indica, "traditional" japonica and "North American" japonica. The distribution of some characters of interest and the correlations between some of them, reveal the strong impact of human selection. A first diversity analysis of the 430 genetic resources was performed using the Neighborjoining method of Saitou and Nei, on the basis of the sole SSR makers, leading to the construction of a diversity tree, which very clearly separates indica types and basmati types in opposition to all japonica types. The japonica types are themselves divided between around 100 homogeneous sub-groups. Four different methods were investigated in order to create a core collection of European rice genetic resources. The first consists in collecting all the existing SSR alleles in the population with the smallest number of entries (43 accessions. The second also contains all the existing SSR alleles but in selecting first the individuals with rare (frequency < 1%) alleles (84 accessions). The third approach considers the 100 homogeneous sub-groups which can be defined in the SSR diversity tree, and one entry is randomly selected in each sub-group (100 accessions). The last approach is based on a tree combining the genetic diversity of SSR alleles which provides the skeleton of the tree and the phenotypic diversity of agromorphological characteristics traits which is revealed in the more external part of the tree. As in the previous approach, one entry is randomly selected in each homogeneous sub-groups (117 accessions). The interest and the representativeness of these core collections are discussed, by comparing the distributions of original population which each one of the core collections for traits non used in the building process of core collections. conference_item info:eu-repo/semantics/conferenceObject Conference info:eu-repo/semantics/closedAccess http://agritrop.cirad.fr/509127/ |