Sugars in peach fruit: a breeding perspective

Cirilli, Marco; Bassi, D.; Ciacciulli, Angelo

doi:10.1038/hortres.2015.67

Cited by 156 publications

(155 citation statements)

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“…This result agreed with the previous finding that both fructose and sorbitol contents are less influenced by the prevailing environmental conditions over the growing season than other sugars (Cantin et al ., ). This association signal for sorbitol was close to an important QTL previously reported for the control of fructose, glucose and sorbitol contents, the total sugar content and the SSC (Abbott et al ., ; Cirilli et al ., ; Salazar et al ., ). Our results indicated that the control of complex domestication traits in peach may have resulted from a combination of minor effect QTLs that are unstable across years, as reported for perennial fruit crops in general by Miller and Gross ().…”

Section: Discussionmentioning

confidence: 98%

Comparative population genomics identified genomic regions and candidate genes associated with fruit domestication traits in peach

Cao

Deng

et al. 2019

Plant Biotechnology Journal

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Summary Crop evolution is a long‐term process involving selection by natural evolutionary forces and anthropogenic influences; however, the genetic mechanisms underlying the domestication and improvement of fruit crops have not been well studied to date. Here, we performed a population structure analysis in peach (Prunus persica) based on the genome‐wide resequencing of 418 accessions and confirmed the presence of an obvious domestication event during evolution. We identified 132 and 106 selective sweeps associated with domestication and improvement, respectively. Analysis of their tissue‐specific expression patterns indicated that the up‐regulation of selection genes during domestication occurred mostly in fruit and seeds as opposed to other organs. However, during the improvement stage, more up‐regulated selection genes were identified in leaves and seeds than in the other organs. Genome‐wide association studies (GWAS) using 4.24 million single nucleotide polymorphisms (SNPs) revealed 171 loci associated with 26 fruit domestication traits. Among these loci, three candidate genes were highly associated with fruit weight and the sorbitol and catechin content in fruit. We demonstrated that as the allele frequency of the SNPs associated with high polyphenol composition decreased during peach evolution, alleles associated with high sugar content increased significantly. This indicates that there is genetic potential for the breeding of more nutritious fruit with enhanced bioactive polyphenols without disturbing a harmonious sugar and acid balance by crossing with wild species. This study also describes the development of the genomic resources necessary for evolutionary research in peach and provides the large‐scale characterization of key agronomic traits in this crop species.

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Section: Discussionmentioning

confidence: 98%

Comparative population genomics identified genomic regions and candidate genes associated with fruit domestication traits in peach

Cao

Deng

et al. 2019

Plant Biotechnology Journal

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“…The traits used in this study are largely polygenic (FW: [45] SC: [46]) and thus well suited for GBLUP and similar approaches (like SNP/RR-BLUP e.g. [47]), which build on the hypothesis of many small additive allele contributions to the phenotype (i.e.…”

Section: Discussionmentioning

confidence: 99%

Genome-enabled predictions for fruit weight and quality from repeated records in European peach progenies

Biscarini

Bink

et al. 2017

BMC Genomics

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BackgroundHighly polygenic traits such as fruit weight, sugar content and acidity strongly influence the agroeconomic value of peach varieties. Genomic Selection (GS) can accelerate peach yield and quality gain if predictions show higher levels of accuracy compared to phenotypic selection. The available IPSC 9K SNP array V1 allows standardized and highly reliable genotyping, preparing the ground for GS in peach.ResultsA repeatability model (multiple records per individual plant) for genome-enabled predictions in eleven European peach populations is presented. The analysis included 1147 individuals derived from both commercial and non-commercial peach or peach-related accessions. Considered traits were average fruit weight (FW), sugar content (SC) and titratable acidity (TA). Plants were genotyped with the 9K IPSC array, grown in three countries (France, Italy, Spain) and phenotyped for 3–5 years. An analysis of imputation accuracy of missing genotypic data was conducted using the software Beagle, showing that two of the eleven populations were highly sensitive to increasing levels of missing data. The regression model produced, for each trait and each population, estimates of heritability (FW:0.35, SC:0.48, TA:0.53, on average) and repeatability (FW:0.56, SC:0.63, TA:0.62, on average). Predictive ability was estimated in a five-fold cross validation scheme within population as the correlation of true and predicted phenotypes. Results differed by populations and traits, but predictive abilities were in general high (FW:0.60, SC:0.72, TA:0.65, on average).ConclusionsThis study assessed the feasibility of Genomic Selection in peach for highly polygenic traits linked to yield and fruit quality. The accuracy of imputing missing genotypes was as high as 96%, and the genomic predictive ability was on average 0.65, but could be as high as 0.84 for fruit weight or 0.83 for titratable acidity. The estimated repeatability may prove very useful in the management of the typical long cycles involved in peach productions. All together, these results are very promising for the application of genomic selection to peach breeding programmes.Electronic supplementary materialThe online version of this article (doi:10.1186/s12864-017-3781-8) contains supplementary material, which is available to authorized users.

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“…Sweetness perception of fruits depends on the balance between sugars and acids (Cirilli et al, 2016;Farneti et al, 2017). For the sugar content, measured as the soluble solids content, two significant SNPs occurred at genes encoding proteins with a role in the ubiquitin-mediated protein degradation pathway.…”

Section: Biological Insights Into the Genetic Basis Of Fruit-relatedmentioning

confidence: 99%

Insights Into the Genetic Basis of Blueberry Fruit-Related Traits Using Diploid and Polyploid Models in a GWAS Context

et al. 2018

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Polyploidization is an ancient and recurrent process in plant evolution, impacting the diversification of natural populations and plant breeding strategies. Polyploidization occurs in many important crops; however, its effects on inheritance of many agronomic traits are still poorly understood compared with diploid species. Higher levels of allelic dosage or more complex interactions between alleles could affect the phenotype expression. Hence, the present study aimed to dissect the genetic basis of fruit-related traits in autotetraploid blueberries and identify candidate genes affecting phenotypic variation. We performed a genome-wide association study (GWAS) assuming diploid and tetraploid inheritance, encompassing distinct models of gene action (additive, general, different orders of allelic interaction, and the corresponding diploidized models). A total of 1,575 southern highbush blueberry individuals from a breeding population of 117 full-sib families were genotyped using sequence capture and next-generation sequencing, and evaluated for eight fruit-related traits. For the diploid allele calling, 77,496 SNPs were detected; while 80,591 SNPs were obtained in tetraploid, with a high degree of overlap (95%) between them. A linear mixed model that accounted for population and family structure was used for the GWAS analyses. By modeling tetraploid genotypes, we detected 15 SNPs significantly associated with five fruit-related traits. Alternatively, seven significant SNPs were detected for only two traits using diploid genotypes, with two SNPs overlapping with the tetraploid scenario. Our results showed that the importance of tetraploid models varied by trait and that the use of diploid models has hindered the detection of SNP-trait associations and, consequently, the genetic architecture of some commercially important traits in autotetraploid species. Furthermore, 14 SNPs co-localized with candidate genes, five of which lead to non-synonymous amino acid changes. The potential functional significance of these SNPs is discussed.

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Sugars in peach fruit: a breeding perspective

Cited by 156 publications

References 154 publications

Comparative population genomics identified genomic regions and candidate genes associated with fruit domestication traits in peach

Comparative population genomics identified genomic regions and candidate genes associated with fruit domestication traits in peach

Genome-enabled predictions for fruit weight and quality from repeated records in European peach progenies

Insights Into the Genetic Basis of Blueberry Fruit-Related Traits Using Diploid and Polyploid Models in a GWAS Context

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