首页|Genomic analysis of fruit size and shape traits in apple:unveiling candidate genes through GWAS analysis

Genomic analysis of fruit size and shape traits in apple:unveiling candidate genes through GWAS analysis

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Genomic tools facilitate the efficient selection of improved genetic materials within a breeding program.Here,we focus on two apple fruit quality traits:shape and size.We utilized data from 11 fruit morphology parameters gathered across three years of harvest from 355 genotypes of the apple REFPOP collection,which serves as a representative sample of the genetic variability present in European-cultivated apples.The data were then employed for genome-wide association studies(GWAS)using the FarmCPU and the BLINK models.The analysis identified 59 SNPs associated with fruit size and shape traits(35 with FarmCPU and 45 with BLINK)responsible for 71 QTNs.These QTNs were distributed across all chromosomes except for chromosomes 10 and 15.Thirty-four QTNs,identified by 27 SNPs,were related for size traits,and 37 QTNs,identified by 26 SNPs,were related to shape attributes.The definition of the haploblocks containing the most relevant SNPs served to propose candidate genes,among them the genes of the ovate family protein MdOFP17 and MdOFP4 that were in a 9.7kb haploblock on Chromosome 11.RNA-seq data revealed low or null expression of these genes in the oblong cultivar"Skovfoged"and higher expression in the flat"Grand'mere."The Gene Ontology enrichment analysis support a role of OFPs and hormones in shape regulation.In conclusion,this comprehensive GWAS analysis of the apple REFPOP collection has revealed promising genetic markers and candidate genes associated with apple fruit shape and size attributes,providing valuable insights that could enhance the efficiency of future breeding programs.

Christian Dujak、Veredas Coleto-Alcudia、Maria José Aranzana

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Centre for Research in Agricultural Genomics(CRAG)CSIC-IRTA-UABUB,Plant and Animal Genomics,Campus UAB,08193 Bellaterra,Barcelona,Spain

IRTA(Institut de Recerca i Tecnologia Agroalimentàries),Genomics and Biotechnology,08140 Caldes de Montbui,Barcelona,Spain

"DON CARLOS ANTONIO LOPEZ"Abroad Postgraduate Scholarship Program,BECAL-ParaguayMCIN/AEI/10.13039/501100011033ESF Investing in your futureMCIN/AEI/10.13039/501100011033ERDF A way of making EuropeEuropean Union's Horizon research and innovation programme(2020)CERCA Programme("Generalitat de Catalunya")the"Severo Ochoa Programme for Centres of Excellence in Research and Development"(2016-2019)MCIN/AEI/10.13039/501100011033

PRE2019-088780PID2021-128885OB-I00817970INVITESEV-2015-05332020-2023CEX2019-000902-S

2024

10.1093/hr/uhad270

园艺研究(英文)

园艺研究(英文)

CSTPCD
ISSN：
年,卷(期)：2024.11(2)
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