A versatile PCR marker for pungency in Capsicum spp.

Rodríguez-Maza, María J.; Garcés-Claver, Ana; Park, Soung-Woo; Kang, Byoung-Cheorl; Arnedo-Andrés, M. S.

doi:10.1007/s11032-011-9672-9

Cited by 19 publications

(12 citation statements)

References 29 publications

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“…A subpopulation of Capsicum core collections was used for GWAS (Lee et al ., ). To reduce the effect of the major gene controlling pungency, Pun1 , all accessions were genotyped using the MAP1 marker (Rodríguez‐Maza et al ., ; Stewart et al ., ). A total of 208 accessions were selected, including 140 from the CC240 core collection (Lee et al ., ) and 68 additional accessions (Table S6).…”

Section: Methodsmentioning

confidence: 97%

QTL mapping and GWAS reveal candidate genes controlling capsaicinoid content in Capsicum

Han

Lee

et al. 2018

Plant Biotechnology Journal

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SummaryCapsaicinoids are unique compounds produced only in peppers (Capsicum spp.). Several studies using classical quantitative trait loci (QTLs) mapping and genomewide association studies (GWAS) have identified QTLs controlling capsaicinoid content in peppers; however, neither the QTLs common to each population nor the candidate genes underlying them have been identified due to the limitations of each approach used. Here, we performed QTL mapping and GWAS for capsaicinoid content in peppers using two recombinant inbred line (RIL) populations and one GWAS population. Whole‐genome resequencing and genotyping by sequencing (GBS) were used to construct high‐density single nucleotide polymorphism (SNP) maps. Five QTL regions on chromosomes 1, 2, 3, 4 and 10 were commonly identified in both RIL populations over multiple locations and years. Furthermore, a total of 109 610 SNPs derived from two GBS libraries were used to analyse the GWAS population consisting of 208 C. annuum‐clade accessions. A total of 69 QTL regions were identified from the GWAS, 10 of which were co‐located with the QTLs identified from the two biparental populations. Within these regions, we were able to identify five candidate genes known to be involved in capsaicinoid biosynthesis. Our results demonstrate that QTL mapping and GBS‐GWAS represent a powerful combined approach for the identification of loci controlling complex traits.

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Section: Methodsmentioning

confidence: 97%

QTL mapping and GWAS reveal candidate genes controlling capsaicinoid content in Capsicum

Han

Lee

et al. 2018

Plant Biotechnology Journal

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120

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“…Additional information on the markers positions in chromosomes were retrieved from Barchi et al [47] , Wu et al [39] , Mimura et al [41] , Sugita et al [42] , Nicolai et al [48] , and through the SOL Genomics Network ( http://solgenomics.net/ ). The putative presence of the pungency trait in the Capsicum accessions was assessed by using the molecular marker MAP1, which was developed based on a DNA sequence with high similarity to Pun1 locus [49] . PCR amplification and detection of microsatellite markers were performed according to the methodology reported by Schuelke [50] based on the fluorescently labelling of universal primers.…”

Section: Methodsmentioning

confidence: 99%

New Insights into Capsicum spp Relatedness and the Diversification Process of Capsicum annuum in Spain

et al. 2014

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The successful exploitation of germplasm banks, harbouring plant genetic resources indispensable for plant breeding, will depend on our ability to characterize their genetic diversity. The Vegetable Germplasm Bank of Zaragoza (BGHZ) (Spain) holds an important Capsicum annuum collection, where most of the Spanish pepper variability is represented, as well as several accessions of other domesticated and non-domesticated Capsicum spp from all over the five continents. In the present work, a total of 51 C. annuum landraces (mainly from Spain) and 51 accessions from nine Capsicum species maintained at the BGHZ were evaluated using 39 microsatellite (SSR) markers spanning the whole genome. The 39 polymorphic markers allowed the detection of 381 alleles, with an average of 9.8 alleles per locus. A sizeable proportion of alleles (41.2%) were recorded as specific alleles and the majority of these were present at very low frequencies (rare alleles). Multivariate and model-based analyses partitioned the collection in seven clusters comprising the ten different Capsicum spp analysed: C. annuum, C. chinense, C. frutescens, C. pubescens, C. bacatum, C. chacoense and C. eximium. The data clearly showed the close relationships between C. chinense and C. frutescens. C. cardenasii and C. eximium were indistinguishable as a single, morphologically variable species. Moreover, C. chacoense was placed between C. baccatum and C. pubescens complexes. The C. annuum group was structured into three main clusters, mostly according to the pepper fruit shape, size and potential pungency. Results suggest that the diversification of C. annuum in Spain may occur from a rather limited gene pool, still represented by few landraces with ancestral traits. This ancient population would suffer from local selection at the distinct geographical regions of Spain, giving way to pungent and elongated fruited peppers in the South and Center, while sweet blocky and triangular types in Northern Spain.

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“…In addition, there is no solid information about the transcription mechanism of these genetic markers on the complex metabolic pathway of CAPS. 48,[101][102][103] Pun1 regulation has been associated with the quantity of CAPS produced by a certain cultivar and their susceptibility to undergo modications in their CAPS prole when exposed to environmental stress conditions. A slight modication in its transcription among the different cultivars can cause the heterogeneous behavior in the CAPS prole observed within each species, a fact that determined that the genotype should be considered as the most important factor (among the three previously cited) affecting the CAPS content.…”

Section: Factors Affecting Caps Concentrationmentioning

confidence: 99%

“…A slight modication in its transcription among the different cultivars can cause the heterogeneous behavior in the CAPS prole observed within each species, a fact that determined that the genotype should be considered as the most important factor (among the three previously cited) affecting the CAPS content. 52,97,[102][103][104][105][106][107] When considering the external factors that can inuence the CAPS content those that are emphasized are the temperature, amount of sunlight, soil fertility and water availability. 64,108,109 Temperature and sunlight have been reported to present negative and positive correlations in accordance with the type of cultivar, although there is no homogeneity in the behavior of species.…”

Section: Factors Affecting Caps Concentrationmentioning

confidence: 99%