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Almond population genomics and non-additive GWAS reveal new insights into almond dissemination history and candidate genes for nut traits and blooming time

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Horticulture Research 2023年第10期10卷 262-272页

作者： Felipe Pérez de los Cobos Eva Coindre naima Dlalah bénédicte quilot-turion Ignasi batlle Pere Arús Iban Eduardo Henri Duval Fruticultura Institut de Recerca i Tecnologia Agroalimentàries(IRTA)Mas BovéCtra.Reus-El Morell Km 3843120 ConstantíTarragonaSpain Centre de Recerca en Agrigenòmica(CRAG) CSIC-IRTA-UAB-UB.Institut de Recerca i Tecnologia Agroalimentàries(IRTA)Cerdanyola del Vallès(Bellaterra)08193 BarcelonaSpain Centre for Research in Agricultural Genomics(CRAG)CSIC-IRTA-UAb-Ub Campus UABEdifici CRAGCerdanyola del Vallès(Bellaterra)08193 BarcelonaSpain InRAE GAFLF-84143MontfavetFrance

Domestication drastically changed crop genomes,fixing alleles of interest and creating different genetic ***-wide association studies(GWASs)are a powerful tool to detect these alleles of interest(and so QTLs).In this study,we explored the genetic structure as well as additive and non-additive genotype-phenotype associations in a collection of 243 almond *** genetic structure analysis strongly supported the subdivision of the accessions into five ancestral groups,all formed by accessions with a common *** of these groups was formed exclusively by Spanish accessions,while the rest were mainly formed by accessions from China,Italy,France,and the *** results agree with archaeological and historical evidence that separate modern almond dissemination into four phases:Asiatic,Mediterranean,Californian,and southern *** total,we found 13 independent QTLs for nut weight,crack-out percentage,double kernels percentage,and blooming *** the 13 QTLs found,only one had an additive *** candidate gene analysis,we proposed Prudul26A013473 as a candidate gene responsible for the main QTL found in crack-out percentage,Prudul26A012082 and Prudul26A017782 as candidate genes for the QTLs found in double kernels percentage,and Prudul26A000954 as a candidate gene for the QTL found in blooming *** study enhances our knowledge of almond dissemination history and will have a great impact on almond breeding.

关键词： additive GWAS traits

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An integrated approach for increasing breeding efficiency in apple and peach in Europe

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Horticulture Research 2018年第1期5卷 825-838页

作者： Francois Laurens Maria JoséAranzana Pere Arus Daniele bassi Marco bink Joan bonany Andrea Caprera Luca Corelli-Grappadelli Evelyne Costes Charles-Eric Durel Jehan-baptiste Mauroux Hélène Muranty nelson nazzicari Thierry Pascal Andrea Patocchi Andreas Peil bénédicte quilot-turion Laura Rossini Alessandra Stella Michela Troggio Riccardo Velasco Eric van de Weg IRHS INRAAgrocampus-OuestUniversitéd’AngersSFR 4207 QuaSaVUniversitéBretagne Loire42 rue Georges MorelBeaucouzé49071France IRTA(Institut de Recerca i Tecnologia Agroalimentàries) BarcelonaSpain Centre for Research in Agricultural Genomics(CRAG)CSIC-IRTA-UAb-Ub Campus UABBellaterraBarcelonaSpain Universitàdegli Studi di Milano-DiSAA Via Celoria 2Milan20133Italy biometris Wageningen University and ResearchDroevendaalsesteeg 1Wageningen6708PBThe Netherlands IRTA-Mas badia Mas BadiaLa Tallada17134Spain Parco Tecnologico Padano Via EinsteinLoc.Cascina CodazzaLodi26900Italy Dipartimento di Scienze Agrarie Alma Mater Studiorum-Universitàdi BolognaBolognaItaly UMR AGAP INRAMontpellier34398France GAFL INRAMontfavet84143France Agroscope Research Division Plant BreedingSchloss 1Wädenswil8820Switzerland Julius Kühn-Institute(JKI) Federal Research Centre for Cultivated Plants Institute for Breeding Research on Fruit CropsPillnitzer Platz 3aDresden01326Germany Research and Innovation Center Fondazione Edmund MachSan Michele all’AdigeTrentoItaly CREA-VE Center of Viticulture and Enologyvia XXVIII Aprile 26Conegliano(TV)31015Italy Plant breeding Wageningen University and ResearchDroevendaalsesteeg 1P.O.Box 386Wageningen6700AJThe Netherlands Hendrix Genetics Research Technology&ServicesBoxmeer5830 ACThe Netherlands

Despite the availability of whole genome sequences of apple and peach,there has been a considerable gap between genomics and *** bridge the gap,the European Union funded the Fruitbreedomics project(March 2011 to August 2015)involving 28 research institutes and private *** complementary approaches were pursued:(i)tool and software development,(ii)deciphering genetic control of main horticultural traits taking into account allelic diversity and(iii)developing plant materials,tools and methodologies for *** breakthroughs were made including the making available of ready-to-go DnA diagnostic tests for Marker Assisted breeding,development of new,dense SnP arrays in apple and peach,new phenotypic methods for some complex traits,software for gene/QTL discovery on breeding germplasm via Pedigree based Analysis(PbA).This resulted in the discovery of highly predictive molecular markers for traits of horticultural interest via PbA and via Genome Wide Association Studies(GWAS)on several European genebank *** also developed pre-breeding plant materials in which multiple sources of resistance were pyramided and software that can support breeders in their selection *** Fruitbreedomics,significant progresses were made in the field of apple and peach breeding,genetics,genomics and bioinformatics of which advantage will be made by breeders,germplasm curators and scientists.A major part of the data collected during the project has been stored in the Fruitbreedomics database and has been made available to the *** review covers the scientific discoveries made in this major endeavour,and perspective in the apple and peach breeding and genomics in Europe and beyond.

关键词： breeding germplasm breed

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