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Analysis of the genetic diversity and structure across a wide range of germplasm reveals prominent gene flow in apple at the European level

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العنوان: Analysis of the genetic diversity and structure across a wide range of germplasm reveals prominent gene flow in apple at the European level
المؤلفون: Urrestarazu Vidart, Jorge, Denancé, Caroline, Ravon, Elisa, Guyader, Arnaud, Guisnel, Rémi, Feugey, Laurence, Poncet, Charles, Lateur, Marc, Houben, Patrick, Ordidge, Matthew, Fernández Fernández, Felicidad, Evans, Kate M., Paprstein, Frantisek, Sedlak, Jiri, Nybom, Hilde, Garkava Gustavsson, Larisa, Miranda Jiménez, Carlos, Gassmann, Jennifer, Kellerhals, Markus, Suprun, Ivan, Pikunova, Anna V., Krasova, Nina G., Torutaeva, Elnura, Dondini, Luca, Tartarini, Stefano, Laurens, François, Durel, Charles Eric
المساهمون: Institut de Recherche en Horticulture et Semences (IRHS), AGROCAMPUS OUEST-Institut National de la Recherche Agronomique (INRA)-Université d'Angers (UA), Department of Agricultural Sciences, University of Bologna, Public University of Navarre, Génétique Diversité et Ecophysiologie des Céréales (GDEC), Institut National de la Recherche Agronomique (INRA)-Université Blaise Pascal - Clermont-Ferrand 2 (UBP), Plant Breeding & Biodiversity, Centre Wallon de Recherches Agronomiques (CRA-W), School of Agriculture, Policy and Development, University of Reading (UOR), East Malling Research, Tree Fruit Research and Extension Center, Washington State University (WSU), Research and Breeding Institute of Pomology Holovousy Ltd., Department of Plant Breeding, Swedish University of Agricultural Sciences (SLU), Institute for Plant Production Sciences IPS, Agroscope, North Caucasian Regional Research Institute of Horticulture and Viticulture (NCRRIH&V), All-Russian Research Institute of Fruit Crop Breeding (VNIISPK), Kyrgyz National Agrarian University, INIA, Instituto Nacional de Investigacion y Tecnologia Agraria y Alimentaria (RF2004-008-C03-00), Swiss Federal Office for Agriculture, FRB (Fondation pour la Recherche sur la Biodiversite), UK Depart for the Environment Food and Rural Affairs (Defra) (GC0140), Russian Scientific Fund (projet n° 14-1600127), Institute of Advanced Studies (University of Bologna), European Project: 265582, Université d'Angers (UA)-Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de la Recherche Agronomique (INRA), University of Bologna/Università di Bologna, Universidad Pública de Navarra [Espagne] = Public University of Navarra (UPNA), Research and Breeding Institute of Pomology Holovousy (VSUO), AGROCAMPUS OUEST, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de la Recherche Agronomique (INRA)-Université d'Angers (UA), Urrestarazu, Jorge, Denancé, Caroline, Ravon, Elisa, Guyader, Arnaud, Guisnel, Rémi, Feugey, Laurence, Poncet, Charle, Lateur, Marc, Houben, Patrick, Ordidge, Matthew, Fernandez-Fernandez, Felicidad, Evans, Kate M., Paprstein, Frantisek, Sedlak, Jiri, Nybom, Hilde, Garkava-Gustavsson, Larisa, Miranda, Carlo, Gassmann, Jennifer, Kellerhals, Marku, Suprun, Ivan, Pikunova, Anna V., Krasova, Nina G., Torutaeva, Elnura, Dondini, Luca, Tartarini, Stefano, Laurens, Françoi, Durel, Charles-Eric, Universidad Pública de Navarra. Departamento de Producción Agraria, Nafarroako Unibertsitate Publikoa. Nekazaritza Ekoizpena Saila
المصدر: BMC Plant Biology
BMC Plant Biology, BioMed Central, 2016, 16 (article 130), 20 p. ⟨10.1186/s12870-016-0818-0⟩
BMC Plant Biology, 2016, 16 (article 130), 20 p. ⟨10.1186/s12870-016-0818-0⟩
BMC Plant Biology article 130 (16), 20 p.. (2016)
Academica-e. Repositorio Institucional de la Universidad Pública de Navarra
instname
Academica-e: Repositorio Institucional de la Universidad Pública de Navarra
Universidad Pública de Navarra
سنة النشر: 2016
مصطلحات موضوعية: 0106 biological sciences, 0301 basic medicine, Conservation genetics, Germplasm, Range (biology), [SDV]Life Sciences [q-bio], Plant Science, Population structure, 01 natural sciences, ressource génétique végétale, Parentage analysis, Genetic resources, Phylogeny, 2. Zero hunger, Malus x domestica Borkh, SSR markers, Europe, diversité génétique, Malus, Differentiation, marqueur ssr, Research Article, Gene Flow, Genetic Markers, Parentage analysi, Genotype, pommier, Biology, 03 medical and health sciences, Genetic drift, Genetic variation, Genetic resource, Variability, SSR marker, Genetic association, Genetic diversity, business.industry, Genetic Variation, modèle bayésien, Biotechnology, genetic resources, population structure, variability, differentiation, parentage analysis, 030104 developmental biology, Genetic marker, Evolutionary biology, germplasme, origine géographique, business, 010606 plant biology & botany, Genome-Wide Association Study, Microsatellite Repeats
الوصف: Background: The amount and structure of genetic diversity in dessert apple germplasm conserved at a European level is mostly unknown, since all diversity studies conducted in Europe until now have been performed on regional or national collections. Here, we applied a common set of 16 SSR markers to genotype more than 2,400 accessions across 14 collections representing three broad European geographic regions (North + East, West and South) with the aim to analyze the extent, distribution and structure of variation in the apple genetic resources in Europe. Results: A Bayesian model-based clustering approach showed that diversity was organized in three groups, although these were only moderately differentiated (FST = 0.031). A nested Bayesian clustering approach allowed identification of subgroups which revealed internal patterns of substructure within the groups, allowing a finer delineation of the variation into eight subgroups (FST = 0.044). The first level of stratification revealed an asymmetric division of the germplasm among the three groups, and a clear association was found with the geographical regions of origin of the cultivars. The substructure revealed clear partitioning of genetic groups among countries, but also interesting associations between subgroups and breeding purposes of recent cultivars or particular usage such as cider production. Additional parentage analyses allowed us to identify both putative parents of more than 40 old and/or local cultivars giving interesting insights in the pedigree of some emblematic cultivars. Conclusions: The variation found at group and subgroup levels may reflect a combination of historical processes of migration/selection and adaptive factors to diverse agricultural environments that, together with genetic drift, have resulted in extensive genetic variation but limited population structure. The European dessert apple germplasm represents an important source of genetic diversity with a strong historical and patrimonial value. The present work thus constitutes a decisive step in the field of conservation genetics. Moreover, the obtained data can be used for defining a European apple core collection useful for further identification of genomic regions associated with commercially important horticultural traits in apple through genome-wide association studies. This work has been partly funded under the EU seventh Framework Programme by the FruitBreedomics project N°265582: “Integrated approach for increasing breeding efficiency in fruit tree crops”. Genotyping of the Spanish collection was partially funded by INIA, Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (project grant no RF2004-008-C03-00). Genotyping of the Swiss collection was funded by the Swiss Federal Office for Agriculture. Genotyping of the French collection was funded by the FRB, ‘Fondation pour la Recherche sur la Biodiversité’. Initial genotyping of the UKNFC material was funded by the UK Depart for the Environment Food and Rural Affairs (Defra), grant GC0140. Providing of VNIISPK material (DNA isolation and delivery) have been done with support of Russian Scientific Fund, Project 14- 1600127. JU has been partially supported by an Early Stage Research Fellowship of the Institute of Advanced Studies (University of Bologna).
وصف الملف: ELETTRONICO; application/pdf
تدمد: 1471-2229
URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::1332a22666409a423c8e1294e34ee40b
https://pubmed.ncbi.nlm.nih.gov/27277533
حقوق: OPEN
رقم الأكسشن: edsair.doi.dedup.....1332a22666409a423c8e1294e34ee40b
قاعدة البيانات: OpenAIRE
الوصف
تدمد:14712229