Detection of Quantitative Trait Loci (QTL) Associated with the Fruit Morphology of Tomato

Adhikari, Pragya; McNellie, James P.; Panthee, Dilip R.

doi:10.3390/genes11101117

Cited by 15 publications

(9 citation statements)

References 35 publications

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“…Two SNP markers (SLA773077 and SLA773357) associated with multiple traits are italicized. Three major genes ( fw2.2 , lc , and ovate ) are shown on the left side of chromosome 2 and the MTAs reported in other studies are highlighted with a red color 2 , 7 , 27 , 28 , 32 – 35 …”

Section: Resultsmentioning

confidence: 98%

“…The GWAS panel used in this study consisted of determinate and semi-determinate tomato accessions that mostly originated from Southern and Western Asian countries. Therefore, this collection is more likely to represent different genetic backgrounds relative to the mapping populations of previous studies 2,7,27,28,[32][33][34][35] . For example, we found that the fruit height ranged from 25.82 to 86.30 mm with a mean of 52.22 mm, while another population showed 17.46-111.47 mm with a mean of 44.69 mm 28 .…”

Section: Discussionmentioning

confidence: 99%

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Genome-wide association study identifies QTL for eight fruit traits in cultivated tomato (Solanum lycopersicumL.)

Kim

Nguyen

Ahn³

et al. 2021

Horticulture Research

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Genome-wide association study (GWAS) is effective in identifying favorable alleles for traits of interest with high mapping resolution in crop species. In this study, we conducted GWAS to explore quantitative trait loci (QTL) for eight fruit traits using 162 tomato accessions with diverse genetic backgrounds. The eight traits included fruit weight, fruit width, fruit height, fruit shape index, pericarp thickness, locule number, fruit firmness, and brix. Phenotypic variations of these traits in the tomato collection were evaluated with three replicates in field trials over three years. We filtered 34,550 confident SNPs from the 51 K Axiom® tomato array based on < 10% of missing data and > 5% of minor allele frequency for association analysis. The 162 tomato accessions were divided into seven clusters and their membership coefficients were used to account for population structure along with a kinship matrix. To identify marker-trait associations (MTAs), four phenotypic data sets representing each of three years and combined were independently analyzed in the multilocus mixed model (MLMM). A total of 30 significant MTAs was detected over data sets for eight fruit traits at P < 0.0005. The number of MTA per trait ranged from one (brix) to seven (fruit weight and fruit width). Two SNP markers on chromosomes 1 and 2 were significantly associated with multiple traits, suggesting pleiotropic effects of QTL. Furthermore, 16 of 30 MTAs suggest potential novel QTL for eight fruit traits. These results facilitate genetic dissection of tomato fruit traits and provide a useful resource to develop molecular tools for improving fruit traits via marker-assisted selection and genomic selection in tomato breeding programs.

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Section: Resultsmentioning

confidence: 98%

Section: Discussionmentioning

confidence: 99%

Genome-wide association study identifies QTL for eight fruit traits in cultivated tomato (Solanum lycopersicumL.)

Kim

Nguyen

Ahn³

et al. 2021

Horticulture Research

View full text Add to dashboard Cite

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“…Individual alleles of these genes accounted for up to 71% of the particular shape variation in a broad sample of 368 wild and cultivated tomatoes [46]. Fruit weight was strongly co-localized across tomato and pepper QTLs, and a single fruit shape QTL was co-localized, suggesting that conserved components contribute to one, if not both, of the traits [38,39,[44][45][46][47][48][49][50][51]. Multiple QTLs for fruit length, width, and the fruit shape ratio (length: width) have been discovered on chromosomes 1-4, 8, 10, and 11 [39, 44, 48, 50].…”

Section: Genetic Diversity and Qtlsmentioning

confidence: 99%

Genetics and Genomics of Capsicum: Valuable Resources for Capsicum Development

Nankolongo¹,

Yllano²,

Arce³

et al. 2023

Capsicum - Current Trends and Perspectives

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Capsicum is a genetically diverse eudicot, diploid, and self-pollinating plant that grows well in slightly warmer environments. This crop is popular in different areas of the world due to its medicinal properties and economic potential. This chapter evaluated and analyzed the Capsicum’s biology and horticultural characteristics, genetic resources, genetic diversity, phylogenetic relationships, ploidy levels, chromosome structures, genome organization, important genes, and their applications. This chapter is indispensable in Capsicum frontier research, breeding, development, management, and utilization of this economically important and highly regarded crop worldwide.

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“…More recently, based on segregating populations obtained by crossing a plum tomato breeding line (NC 30P) and a grape tomato breeding line (NC-22L-1), QTL analysis and linkage mapping revealed the existence of a QTL on chromosome 10 regulating triangle fruit shape and two possible QTLs on chromosome 12 controlling obovoid shape [72].…”

Section: Evolution Of Breeding For Nutritional and Organoleptic Qualitymentioning

confidence: 99%

Breeding for Nutritional and Organoleptic Quality in Vegetable Crops: The Case of Tomato and Cauliflower

Natalini¹,

Acciarri²,

Cardi

2021

Agriculture

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Due to novel and more demanding consumers’ requirements, breeding of vegetable crops confronts new challenges to improve the nutritional level and overall appearance of produce. Such objectives are not easy to achieve considering the complex genetic and physiological bases. Overtime, plant breeders relied on a number of technologies and methods to achieve ever changing targets. F1 hybrid seed production allowed the exploitation of heterosis and facilitated the combination of resistance and other useful genes in a uniform outperforming variety. Mutagenesis and tissue culture techniques permitted to induce novel variation, overcome crossing barriers, and speed up the achievement of true-breeding lines. Marker-assisted selection was one of the milestones in fastening selection, starting from the early ’90s in almost all seed companies. Only recently, however, are novel omics tools and genome editing being used as cutting-edge techniques to face old and new challenges in vegetable crops, with the potential to increase the qualitative value of crop cultivation and solve malnutrition in 10 billion people over the next 30 years. In this manuscript, the evolution of breeding approaches in vegetable crops for quality is reviewed, reporting case studies in tomato (Solanum lycopersicum L.) and cauliflower (Brassica oleracea var. botrytis L.) as model systems for fleshy fruit and floral edible parts, respectively.

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Detection of Quantitative Trait Loci (QTL) Associated with the Fruit Morphology of Tomato

Cited by 15 publications

References 35 publications

Genome-wide association study identifies QTL for eight fruit traits in cultivated tomato (Solanum lycopersicumL.)

Genome-wide association study identifies QTL for eight fruit traits in cultivated tomato (Solanum lycopersicumL.)

Genetics and Genomics of Capsicum: Valuable Resources for Capsicum Development

Breeding for Nutritional and Organoleptic Quality in Vegetable Crops: The Case of Tomato and Cauliflower

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