Genetic mapping of semi-polar metabolites in pepper fruits (Capsicum sp.): towards unravelling the molecular regulation of flavonoid quantitative trait loci

Y. Wahyuni, V. Stahl-Hermes, A.R. Ballester, C.H. de Vos, R.E. Voorrips, A. Maharijaya, J.W. Molthoff, A.M. Víquez Zamora, E. Sudarmonowati, A.C.M. Arisi, R.J. Bino, A.G. Bovy

Research output: Contribution to journalArticleAcademicpeer-review

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Abstract

Untargeted LCMS profiling of semi-polar metabolites followed by metabolite quantitative trait locus (mQTL) analysis was performed in ripe pepper fruits of 113 F2 plants derived from a cross between Capsicum annuum AC1979 (no. 19) and Capsicum chinense No. 4661 Selection (no. 18). The parental accessions were selected based on their variation in fruit morphological characteristics and fruit content of some target phytonutrients. Clear segregation of fruit colour and fruit metabolite profiles was observed in the F2 population. The F2 plants formed three clusters based on their metabolite profiles. Of the total of 542 metabolites, 52 could be annotated, including a range of flavonoids, such as flavone C-glycosides, flavonol O-glycosides and naringenin chalcone, as well as several phenylpropanoids, a capsaicin analogue, fatty acid derivatives and amino acid derivatives. Interval mapping revealed 279 mQTLs in total. Two mQTL hotspots were found on chromosome 9. These two chromosomal regions regulated the relative levels of 35 and 103 metabolites, respectively. Analysis also revealed an mQTL for a capsaicin analogue, located on chromosome 7. Confirmation of flavonoid mQTLs using a set of six flavonoid candidate gene markers and their corresponding expression data (expression QTLs) indicated the Ca-MYB12 transcription factor gene on chromosome 1 and the gene encoding flavone synthase (FS-2) on chromosome 6 as likely causative genes determining the variation in naringenin chalcone and flavone C-glycosides, respectively, in this population. The combination of large-scale metabolite profiling and QTL analysis provided valuable insight into the genomic regions and genes important for the production of (secondary) metabolites in pepper fruit. This will impact breeding strategies aimed at optimising the content of specific metabolites in pepper fruit
Original languageEnglish
Pages (from-to)503-518
JournalMolecular Breeding
Volume33
Issue number3
DOIs
Publication statusPublished - 2014

Fingerprint

Capsicum
Quantitative Trait Loci
sweet peppers
flavone
Flavonoids
chromosome mapping
quantitative trait loci
Fruit
flavonoids
metabolites
fruits
Genes
Capsaicin
flavones
chromosomes
glycosides
chalcone
naringenin
capsaicin
Chromosomes, Human, Pair 9

Keywords

  • l. var. acuminatum
  • tomato fruit
  • frankliniella-occidentalis
  • capsaicinoid content
  • mass-spectrometry
  • annuum
  • expression
  • metabolomics
  • glycosides
  • biodiversity

Cite this

Wahyuni, Y. ; Stahl-Hermes, V. ; Ballester, A.R. ; de Vos, C.H. ; Voorrips, R.E. ; Maharijaya, A. ; Molthoff, J.W. ; Víquez Zamora, A.M. ; Sudarmonowati, E. ; Arisi, A.C.M. ; Bino, R.J. ; Bovy, A.G. / Genetic mapping of semi-polar metabolites in pepper fruits (Capsicum sp.): towards unravelling the molecular regulation of flavonoid quantitative trait loci. In: Molecular Breeding. 2014 ; Vol. 33, No. 3. pp. 503-518.
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abstract = "Untargeted LCMS profiling of semi-polar metabolites followed by metabolite quantitative trait locus (mQTL) analysis was performed in ripe pepper fruits of 113 F2 plants derived from a cross between Capsicum annuum AC1979 (no. 19) and Capsicum chinense No. 4661 Selection (no. 18). The parental accessions were selected based on their variation in fruit morphological characteristics and fruit content of some target phytonutrients. Clear segregation of fruit colour and fruit metabolite profiles was observed in the F2 population. The F2 plants formed three clusters based on their metabolite profiles. Of the total of 542 metabolites, 52 could be annotated, including a range of flavonoids, such as flavone C-glycosides, flavonol O-glycosides and naringenin chalcone, as well as several phenylpropanoids, a capsaicin analogue, fatty acid derivatives and amino acid derivatives. Interval mapping revealed 279 mQTLs in total. Two mQTL hotspots were found on chromosome 9. These two chromosomal regions regulated the relative levels of 35 and 103 metabolites, respectively. Analysis also revealed an mQTL for a capsaicin analogue, located on chromosome 7. Confirmation of flavonoid mQTLs using a set of six flavonoid candidate gene markers and their corresponding expression data (expression QTLs) indicated the Ca-MYB12 transcription factor gene on chromosome 1 and the gene encoding flavone synthase (FS-2) on chromosome 6 as likely causative genes determining the variation in naringenin chalcone and flavone C-glycosides, respectively, in this population. The combination of large-scale metabolite profiling and QTL analysis provided valuable insight into the genomic regions and genes important for the production of (secondary) metabolites in pepper fruit. This will impact breeding strategies aimed at optimising the content of specific metabolites in pepper fruit",
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author = "Y. Wahyuni and V. Stahl-Hermes and A.R. Ballester and {de Vos}, C.H. and R.E. Voorrips and A. Maharijaya and J.W. Molthoff and {V{\'i}quez Zamora}, A.M. and E. Sudarmonowati and A.C.M. Arisi and R.J. Bino and A.G. Bovy",
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Genetic mapping of semi-polar metabolites in pepper fruits (Capsicum sp.): towards unravelling the molecular regulation of flavonoid quantitative trait loci. / Wahyuni, Y.; Stahl-Hermes, V.; Ballester, A.R.; de Vos, C.H.; Voorrips, R.E.; Maharijaya, A.; Molthoff, J.W.; Víquez Zamora, A.M.; Sudarmonowati, E.; Arisi, A.C.M.; Bino, R.J.; Bovy, A.G.

In: Molecular Breeding, Vol. 33, No. 3, 2014, p. 503-518.

Research output: Contribution to journalArticleAcademicpeer-review

TY - JOUR

T1 - Genetic mapping of semi-polar metabolites in pepper fruits (Capsicum sp.): towards unravelling the molecular regulation of flavonoid quantitative trait loci

AU - Wahyuni, Y.

AU - Stahl-Hermes, V.

AU - Ballester, A.R.

AU - de Vos, C.H.

AU - Voorrips, R.E.

AU - Maharijaya, A.

AU - Molthoff, J.W.

AU - Víquez Zamora, A.M.

AU - Sudarmonowati, E.

AU - Arisi, A.C.M.

AU - Bino, R.J.

AU - Bovy, A.G.

PY - 2014

Y1 - 2014

N2 - Untargeted LCMS profiling of semi-polar metabolites followed by metabolite quantitative trait locus (mQTL) analysis was performed in ripe pepper fruits of 113 F2 plants derived from a cross between Capsicum annuum AC1979 (no. 19) and Capsicum chinense No. 4661 Selection (no. 18). The parental accessions were selected based on their variation in fruit morphological characteristics and fruit content of some target phytonutrients. Clear segregation of fruit colour and fruit metabolite profiles was observed in the F2 population. The F2 plants formed three clusters based on their metabolite profiles. Of the total of 542 metabolites, 52 could be annotated, including a range of flavonoids, such as flavone C-glycosides, flavonol O-glycosides and naringenin chalcone, as well as several phenylpropanoids, a capsaicin analogue, fatty acid derivatives and amino acid derivatives. Interval mapping revealed 279 mQTLs in total. Two mQTL hotspots were found on chromosome 9. These two chromosomal regions regulated the relative levels of 35 and 103 metabolites, respectively. Analysis also revealed an mQTL for a capsaicin analogue, located on chromosome 7. Confirmation of flavonoid mQTLs using a set of six flavonoid candidate gene markers and their corresponding expression data (expression QTLs) indicated the Ca-MYB12 transcription factor gene on chromosome 1 and the gene encoding flavone synthase (FS-2) on chromosome 6 as likely causative genes determining the variation in naringenin chalcone and flavone C-glycosides, respectively, in this population. The combination of large-scale metabolite profiling and QTL analysis provided valuable insight into the genomic regions and genes important for the production of (secondary) metabolites in pepper fruit. This will impact breeding strategies aimed at optimising the content of specific metabolites in pepper fruit

AB - Untargeted LCMS profiling of semi-polar metabolites followed by metabolite quantitative trait locus (mQTL) analysis was performed in ripe pepper fruits of 113 F2 plants derived from a cross between Capsicum annuum AC1979 (no. 19) and Capsicum chinense No. 4661 Selection (no. 18). The parental accessions were selected based on their variation in fruit morphological characteristics and fruit content of some target phytonutrients. Clear segregation of fruit colour and fruit metabolite profiles was observed in the F2 population. The F2 plants formed three clusters based on their metabolite profiles. Of the total of 542 metabolites, 52 could be annotated, including a range of flavonoids, such as flavone C-glycosides, flavonol O-glycosides and naringenin chalcone, as well as several phenylpropanoids, a capsaicin analogue, fatty acid derivatives and amino acid derivatives. Interval mapping revealed 279 mQTLs in total. Two mQTL hotspots were found on chromosome 9. These two chromosomal regions regulated the relative levels of 35 and 103 metabolites, respectively. Analysis also revealed an mQTL for a capsaicin analogue, located on chromosome 7. Confirmation of flavonoid mQTLs using a set of six flavonoid candidate gene markers and their corresponding expression data (expression QTLs) indicated the Ca-MYB12 transcription factor gene on chromosome 1 and the gene encoding flavone synthase (FS-2) on chromosome 6 as likely causative genes determining the variation in naringenin chalcone and flavone C-glycosides, respectively, in this population. The combination of large-scale metabolite profiling and QTL analysis provided valuable insight into the genomic regions and genes important for the production of (secondary) metabolites in pepper fruit. This will impact breeding strategies aimed at optimising the content of specific metabolites in pepper fruit

KW - l. var. acuminatum

KW - tomato fruit

KW - frankliniella-occidentalis

KW - capsaicinoid content

KW - mass-spectrometry

KW - annuum

KW - expression

KW - metabolomics

KW - glycosides

KW - biodiversity

U2 - 10.1007/s11032-013-9967-0

DO - 10.1007/s11032-013-9967-0

M3 - Article

VL - 33

SP - 503

EP - 518

JO - Molecular Breeding

JF - Molecular Breeding

SN - 1380-3743

IS - 3

ER -