High-density genetic map and QTL analysis of soluble solid content, maturity date, and mealiness in peach using genotyping by sequencing

Gerardo Nuñez-Lillo, Cristóbal Balladares, Catalina Pavez, Claudio Urra, D. Sanhueza, E. Vendramin, Maria Teresa Dettori, Pere Arús, Ignazio Verde, Francisca Blanco-Herrera, Reinaldo Campos-Vargas, Claudio Meneses

Resultado de la investigación: Article

Resumen

Peach (Prunus persica) is one of the most important temperate fruit trees in the world, based on its production and cultivated area. Consumer acceptance is the principal objective of multiple breeding programs and it is dependent on many factors. Among these factors, an important role is played by the soluble solids content (SSC) and the postharvest performance represented by mealiness (M) susceptibility as a chilling injury disorder. Additionally, a major maturity date (MD) QTL has been reported to have a pleiotropic effect on both M and SSC. The aim of this work was QTL identification of SSC, MD, and M and to identify adequate candidate genes that are linked to regulation of these traits. The analysis was performed by evaluation of fruit quality traits during three consecutive seasons in an F1 progeny of 194 siblings, which were obtained from the intraspecific cross between the yellow-flesh peach “O'Henry” and the white-flesh nectarine NR-053. The main result was the construction of a genetic linkage map with 499 markers (486 SNPs, 11 SSRs, and two morphological markers) spanning 717.6 cM, with an average distance between markers of 1.5 cM/cluster. The analysis allowed the identification of consistent QTLs for SSC and M in the linkage group LG5 and for MD in LG1, LG2, LG5, and LG6. A large number of genes were annotated in QTL intervals, which was reduced by selecting the genes with at least one SNP, which caused an amino acid variation. For SSC, the data identified four transcription factors, one gene involved directly with the sugar accumulation process, and one cell wall remodeling-related gene. For MD, 23 cell wall-related genes, three jasmonic acid-linked genes, eight transcription factors, and one ripening-related gene were identified. Finally, only one cell wall gene was identified that was associated with M. In conclusion, these results improve our understanding of the genetic control of fruit quality traits with commercial relevance in P. persica and specifically in the O × N mapping population.

Idioma originalEnglish
Número de artículo108734
PublicaciónScientia Horticulturae
Volumen257
DOI
EstadoPublished - 17 nov 2019

Huella dactilar

total soluble solids
peaches
genotyping
quantitative trait loci
genes
Prunus persica
cell walls
fruit quality
transcription factors
temperate fruits
nectarines
consumer acceptance
chilling injury
jasmonic acid
fruit trees
linkage groups
chromosome mapping
ripening
sugars
amino acids

ASJC Scopus subject areas

  • Horticulture

Citar esto

Nuñez-Lillo, Gerardo ; Balladares, Cristóbal ; Pavez, Catalina ; Urra, Claudio ; Sanhueza, D. ; Vendramin, E. ; Dettori, Maria Teresa ; Arús, Pere ; Verde, Ignazio ; Blanco-Herrera, Francisca ; Campos-Vargas, Reinaldo ; Meneses, Claudio. / High-density genetic map and QTL analysis of soluble solid content, maturity date, and mealiness in peach using genotyping by sequencing. En: Scientia Horticulturae. 2019 ; Vol. 257.
@article{553881b9dc964f30b69768c0115e9da7,
title = "High-density genetic map and QTL analysis of soluble solid content, maturity date, and mealiness in peach using genotyping by sequencing",
abstract = "Peach (Prunus persica) is one of the most important temperate fruit trees in the world, based on its production and cultivated area. Consumer acceptance is the principal objective of multiple breeding programs and it is dependent on many factors. Among these factors, an important role is played by the soluble solids content (SSC) and the postharvest performance represented by mealiness (M) susceptibility as a chilling injury disorder. Additionally, a major maturity date (MD) QTL has been reported to have a pleiotropic effect on both M and SSC. The aim of this work was QTL identification of SSC, MD, and M and to identify adequate candidate genes that are linked to regulation of these traits. The analysis was performed by evaluation of fruit quality traits during three consecutive seasons in an F1 progeny of 194 siblings, which were obtained from the intraspecific cross between the yellow-flesh peach “O'Henry” and the white-flesh nectarine NR-053. The main result was the construction of a genetic linkage map with 499 markers (486 SNPs, 11 SSRs, and two morphological markers) spanning 717.6 cM, with an average distance between markers of 1.5 cM/cluster. The analysis allowed the identification of consistent QTLs for SSC and M in the linkage group LG5 and for MD in LG1, LG2, LG5, and LG6. A large number of genes were annotated in QTL intervals, which was reduced by selecting the genes with at least one SNP, which caused an amino acid variation. For SSC, the data identified four transcription factors, one gene involved directly with the sugar accumulation process, and one cell wall remodeling-related gene. For MD, 23 cell wall-related genes, three jasmonic acid-linked genes, eight transcription factors, and one ripening-related gene were identified. Finally, only one cell wall gene was identified that was associated with M. In conclusion, these results improve our understanding of the genetic control of fruit quality traits with commercial relevance in P. persica and specifically in the O × N mapping population.",
keywords = "Candidate, Genes, Genetic linkage map, Prunus persica, Quality, Traits",
author = "Gerardo Nu{\~n}ez-Lillo and Crist{\'o}bal Balladares and Catalina Pavez and Claudio Urra and D. Sanhueza and E. Vendramin and Dettori, {Maria Teresa} and Pere Ar{\'u}s and Ignazio Verde and Francisca Blanco-Herrera and Reinaldo Campos-Vargas and Claudio Meneses",
year = "2019",
month = "11",
day = "17",
doi = "10.1016/j.scienta.2019.108734",
language = "English",
volume = "257",
journal = "Scientia Horticulturae",
issn = "0304-4238",
publisher = "Elsevier",

}

High-density genetic map and QTL analysis of soluble solid content, maturity date, and mealiness in peach using genotyping by sequencing. / Nuñez-Lillo, Gerardo; Balladares, Cristóbal; Pavez, Catalina; Urra, Claudio; Sanhueza, D.; Vendramin, E.; Dettori, Maria Teresa; Arús, Pere; Verde, Ignazio; Blanco-Herrera, Francisca; Campos-Vargas, Reinaldo; Meneses, Claudio.

En: Scientia Horticulturae, Vol. 257, 108734, 17.11.2019.

Resultado de la investigación: Article

TY - JOUR

T1 - High-density genetic map and QTL analysis of soluble solid content, maturity date, and mealiness in peach using genotyping by sequencing

AU - Nuñez-Lillo, Gerardo

AU - Balladares, Cristóbal

AU - Pavez, Catalina

AU - Urra, Claudio

AU - Sanhueza, D.

AU - Vendramin, E.

AU - Dettori, Maria Teresa

AU - Arús, Pere

AU - Verde, Ignazio

AU - Blanco-Herrera, Francisca

AU - Campos-Vargas, Reinaldo

AU - Meneses, Claudio

PY - 2019/11/17

Y1 - 2019/11/17

N2 - Peach (Prunus persica) is one of the most important temperate fruit trees in the world, based on its production and cultivated area. Consumer acceptance is the principal objective of multiple breeding programs and it is dependent on many factors. Among these factors, an important role is played by the soluble solids content (SSC) and the postharvest performance represented by mealiness (M) susceptibility as a chilling injury disorder. Additionally, a major maturity date (MD) QTL has been reported to have a pleiotropic effect on both M and SSC. The aim of this work was QTL identification of SSC, MD, and M and to identify adequate candidate genes that are linked to regulation of these traits. The analysis was performed by evaluation of fruit quality traits during three consecutive seasons in an F1 progeny of 194 siblings, which were obtained from the intraspecific cross between the yellow-flesh peach “O'Henry” and the white-flesh nectarine NR-053. The main result was the construction of a genetic linkage map with 499 markers (486 SNPs, 11 SSRs, and two morphological markers) spanning 717.6 cM, with an average distance between markers of 1.5 cM/cluster. The analysis allowed the identification of consistent QTLs for SSC and M in the linkage group LG5 and for MD in LG1, LG2, LG5, and LG6. A large number of genes were annotated in QTL intervals, which was reduced by selecting the genes with at least one SNP, which caused an amino acid variation. For SSC, the data identified four transcription factors, one gene involved directly with the sugar accumulation process, and one cell wall remodeling-related gene. For MD, 23 cell wall-related genes, three jasmonic acid-linked genes, eight transcription factors, and one ripening-related gene were identified. Finally, only one cell wall gene was identified that was associated with M. In conclusion, these results improve our understanding of the genetic control of fruit quality traits with commercial relevance in P. persica and specifically in the O × N mapping population.

AB - Peach (Prunus persica) is one of the most important temperate fruit trees in the world, based on its production and cultivated area. Consumer acceptance is the principal objective of multiple breeding programs and it is dependent on many factors. Among these factors, an important role is played by the soluble solids content (SSC) and the postharvest performance represented by mealiness (M) susceptibility as a chilling injury disorder. Additionally, a major maturity date (MD) QTL has been reported to have a pleiotropic effect on both M and SSC. The aim of this work was QTL identification of SSC, MD, and M and to identify adequate candidate genes that are linked to regulation of these traits. The analysis was performed by evaluation of fruit quality traits during three consecutive seasons in an F1 progeny of 194 siblings, which were obtained from the intraspecific cross between the yellow-flesh peach “O'Henry” and the white-flesh nectarine NR-053. The main result was the construction of a genetic linkage map with 499 markers (486 SNPs, 11 SSRs, and two morphological markers) spanning 717.6 cM, with an average distance between markers of 1.5 cM/cluster. The analysis allowed the identification of consistent QTLs for SSC and M in the linkage group LG5 and for MD in LG1, LG2, LG5, and LG6. A large number of genes were annotated in QTL intervals, which was reduced by selecting the genes with at least one SNP, which caused an amino acid variation. For SSC, the data identified four transcription factors, one gene involved directly with the sugar accumulation process, and one cell wall remodeling-related gene. For MD, 23 cell wall-related genes, three jasmonic acid-linked genes, eight transcription factors, and one ripening-related gene were identified. Finally, only one cell wall gene was identified that was associated with M. In conclusion, these results improve our understanding of the genetic control of fruit quality traits with commercial relevance in P. persica and specifically in the O × N mapping population.

KW - Candidate

KW - Genes

KW - Genetic linkage map

KW - Prunus persica

KW - Quality

KW - Traits

UR - http://www.scopus.com/inward/record.url?scp=85070222943&partnerID=8YFLogxK

U2 - 10.1016/j.scienta.2019.108734

DO - 10.1016/j.scienta.2019.108734

M3 - Article

VL - 257

JO - Scientia Horticulturae

JF - Scientia Horticulturae

SN - 0304-4238

M1 - 108734

ER -