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Research Article

Substitution of a Dysfunctional pAMT Allele Results in Low-Pungency but High Levels of Capsinoid in Capsicum chinense ‘Habanero’

Plant Breeding and Biotechnology 2015;3(2):119-128.
Published online: June 30, 2015

Department of Plant Science and Plant Genomics and Breeding Institute, Seoul National University, Seoul 151-921, Korea

*Corresponding author: Byoung-Cheorl Kang, bk54@snu.ac.kr, Tel: +82-2-880-4563, Fax: +82-2-873-2056
• Received: June 17, 2015   • Revised: June 23, 2015   • Accepted: June 25, 2015

Copyright © 2015 The Korean Society of Breeding Science

This is an Open-Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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  • Capsinoids are the class of secondary metabolites identified in non-pungent peppers exhibiting the same bioactive properties as capsaicinoid. Previously, it has been demonstrated that capsinoid production is controlled by the capsaicin synthase (CS) gene and the putative-aminotransferase (pAMT) gene. In this study, we report that C. chinense ‘SNU11-001’ containing high levels of capsinoid has an early stop codon in pAMT resulted from 403 bp and 8 bp insertions deletion in the third and sixth exons. In order to know whether CS expression is correlated with the level of capsinoid, CS and pAMT expressions were determined using SNU11-001 and four Capsicum accessions with different pungency level. RT-PCR analysis showed higher transcription levels of CS in pungent accessions but no clear differences in pAMT expression. To investigate the effect of the substitution of the pAMT allele of C. chinense ‘Habanero’ with the dysfunctional pAMT allele of SNU11-001, an F2 population was constructed by a cross between aforementioned parental lines. Molecular markers were developed to distinguish CS and pAMT genotypes of SNU11-001 and Habanero and F2 plants were genotyped. All F2 plants having the pAMT genotype of SNU11-001 contained high levels of capsinoid while very low levels of capsaicinoid. There was no significant difference in levels of capsinoid among the F2 plants regardless of CS genotypes. This may be due to strong CS expression of both parental lines. In conclusion, our results show that it is possible to develop a new Habanero cultivar with high capsinoid content by introducing a dysfunctional pAMT allele.
The pungency is a unique characteristic of genus Capsicum caused by capsaicinoids in fruits. Capsaicinoids are alkaloids derived from placenta tissues of pepper and contain many biomedical functions such as antioxidation, cancer prevention, weight reduction, and cardiovascular regulation (Thiele et al. 2008; Xiu-Ju et al. 2011). Capsaicin, one of the capsaicinoid analogues, is synthesized by capsaicin synthase (CS) through condensation of vanillyl amine derived from the phenylpropanoids pathway and 8-methyl-6-nonenoic acid from the valine pathway. Vanillin is converted to vanillylamine by putative aminotransferase (pAMT) (Xiu-Ju et al. 2011).
Capsinoid, capsaicinioid-like substance was first reported by Yazawa in 1989. Capsiate, one of the capsinoid analogues, has the same structure as capsaicin except for replacement of a peptide bond (NH) by an ester bond (O). The replacement of peptide bond with ester bond causes nonpungency or low-pungency of capsinoid. Low-pungency of capsiate makes it more palatable and less toxic than capsaicin. Capsinoid are unstable and easily degraded in the aqueous phase. Therefore, capsinoid has advantage over capsaicinoid in biomedical uses (Sharma et al. 2013).
Several genetic studies have been conducted on biosynthesis of capsinoid. Biosynthesis of capsinoid is caused by mutations in the pAMT gene resulting in suppression of the formation vanillylamine from vanillin (Lang et al. 2009; Tanaka et al. 2010a). Dysfunction of pAMT shunts synthesis vanillylamine into vanillyl alcohol. Tanaka et al. (2010) identified several loss-of-function in pAMT alleles that rendered production of capsinoid in pepper. Capsaicin synthase encoded by the Pun1 locus is required for biosynthesis of both capsaiciniod and capsinoid (Han et al. 2013).
Quatitative control of capsinoid synthesis can be affected by other factors besides pAMT and CS. Capsaicinoid accumulation is affected by environmental conditions and genetic constitutions. Genetic studies on capsaicinoid content have been conducted using QTL analysis and molecular mapping. Six QTLs in capsaicinoid accumulation were identified explaining 31% of the phenotypic variation (Ben-Chaim et al. 2006). The same genetic factors controlling capsaicinoid accumulation may be involved in capsinoid accumulation. Genetic study of capsinoid biosynthesis has been performed since capsinoid was discovered in 1980s. However, quantitative control of capsinoid in pepper has not been elucidated.
The purpose of this research was to investigate the genetic factors affecting capsinoid accumulation and to test the possibility to develop a new Habanero cultivar with high capsinoid content by introducing a dysfuctional pAMT allele. To achieve the objectives, analysis of capsaicinoid and capsinoid content and genotype analysis of pAMT and CS were performed in an F2 population derived from crossed between C. chinense ‘SNU11-001’ and C. chinense ‘Habanero’.
Plant materials
A total of six Capsicum cultivars containing different levels of capsaicinoid and capsinoid were used. C. chinense ‘SNU11-001’ contains the highest level of capsinoid and the lowest level of capsaicinoid. C. annuum ‘Early Calwonder (ECW)’ produces no capsaicinoid and capsinoid. C. annuum ‘Yuwol-cho’ and C. annuum ‘Takanotsume’, which are Korean and Japanese landraces, respectively, have mild pungency. C. chinense ‘Habanero’ and ‘Jolokia’ are very pungent cultivars.
SNU11-001 and Habanero were used to construct a mapping population. Nine F1 and 215 F2 plants were grown in Seoul National University farm (Suwon, Korea).
pAMT and CS genotype analysis
For genotyping of pAMT of SNU11-001, two types of molecular markers were developed. To design SCAR markers, pAMT sequence was obtained from C. annuum genome database (http://cab.pepper.snu.ac.kr). The first primer set, at the third intron F and R, was designed to detect insertion of repeat sequence on the third intron of the pAMT gene which is specific to C. chinense. The second marker, the third intron Tcc-R3 and third intron (R), was designed to detect the transposable element on the third intron in the pAMT gene which is specific to SNU11-001.
To distinguish the CS genotype between SNU11-001 and Habanero, two CAPS markers were developed. First marker was designed in the first exon using Alu1 site and the other marker was designed in the second exon using Rsa1 site. The latter marker was used for the CS genotyping, since it showed clearer band pattern than the former.
To determine the pAMT genotype of SNU11-001, polymerase chain reaction was performed in a 25 μl final volume containing 50 ng template DNA concentration, 10 pmol of reverse and forward primers, dNTP, 10x Hipi buffer and 1 unit of Taq polymerase.
PCR was performed with following conditions: 94ºC preheating for 5 minutes followed by 35 cycles of 94 ºC for 30 seconds, 60ºC for 30 seconds, 72ºC for 1 minutes and a final extension of 10 minutes at 72ºC. PCR condition to determine the CS genotype was similar to that of the pAMT genotype analysis. Except the annealing temperature which was standardized at 57ºC.
DNA extraction
Total genomic DNA was extracted from young leaves by CTAB method as described previously (Han et al. 2013). Nanodrop (Nanodrop Technology, Inc., Wilmington, DE, USA) was used to determine the concentration of genomic DNA. DNA samples were dissolved in the final volume of 30 μl in TE buffer (pH7.0).
RNA Isolation and cDNA synthesis
Total RNA was isolated from the placenta 20 days after fruit setting by TRIzol reagent (Invitrogen, Korea) method (Han et al. 2013). RNA samples were diluted in RNAse- free water (Hybrid-R, GeneAll Biotechnology, Seoul, Korea). RNA concentration was measured at Nanodrop. To synthesize cDNA, reverse-transcriptional PCR was performed in a 20μl PCR volume containing M-MLV 5x reaction buffer, dNTP, M-MLV RT 200 units and mixture of mRNA and oligo dT for 1 hour at 42ºC.
HPLC analysis of capsaicinoid and capsinoid
Three fruits from individual plants were harvested from all Capsicum accessions and SNU11-001 x Habanero F1 and F2 plants. Whole fruits including seeds were chopped and stored at −20ºC. HPLC analysis was performed in the Foundation of Agri. Tech. Commercialization and Transfer (FACT, Suwon, Korea) according to the method described by Han et al. (2013).
Capsaicinoid and capsinoid content of the five cultivars
HPLC analysis was executed to measure capsaicinoid and capsinoid concentrations of five cultivars; SNU11-001, ECW, Yuwol-cho, Takanotsume and Habanero (Table 1, Fig. 1). It was assumed that CS transcriptional level might be correlated with capsaicinoid content. Capsaicinoid and capsinoid content were measured at four different stages. Habanero contained the highest capsaicinoid concents (9195.3 ± 591.29 μg/gDW) among five cultivars at stage 2. Yuwol-cho and Takanotsume showed similar capsaicinoid levels, 3433.52 ± 588.23 μg/gDW and 3153.73 ± 518.04 μg/gDW, respectively. However, capsaicinoid content of Takanotsume was higher than those of Yuwol-cho at stage 3 and 4. ECW and SNU11-001 was marked with nondetectable capsaicinoid (16.13 ± 7.15 μg/gDW). On the other hand, the highest capsinoid level (6855.98 ± 1795.53 μg/gDW) was detected in SNU11-001 followed by Habanero, whereas no capsinoid was detected in ECW.
Construction of segregating populations for capsinoid study
To investigate relationship between capsinoid production and Nonitalic activity, four F1 populations using SNU11-001 and four cultivars showing various levels of pungency (ECW, Yuwolcho, Takanotsume, Habanero) were constructed. In the interspecific crosses, C. annuum lines were used as a maternal parent and others as paternal parents to reduce the cross incompatibility. Only one F2 population was developed derived from the cross between SNU11-001 and Habanero due to interspecific cross incompatibility.
pAMT and CS expression patterns
pAMT and CS expression patterns were tested in five cultivars. The primers for pAMT and CS were designed using an allele-specific sequences. The cDNA of pAMT and CS were amplified as 1455 bp and 1206 bp in size, respectively. cDNAs were prepared from RNA extracted from fruits after 20 and 45 days after fruit set were used (Fig. 2).
pAMT transcripts were amplified at immature stage in all cultivars. Two pAMT transcripts with different sizes were detected in SNU11-001. The nonpungent cultivar ECW also expressed the pAMT gene. However, at mature stage, no pAMT expression was detected in all cultivars except Habanero. The CS gene was not expressed in ECW as expected. CS expression was detected in other cultivars including SNU11-001 at the immature stage. Habanero showed the highest CS expression among the tested cultivars. By contrast, almost no CS transcript was detected at the mature stage in all cultivars.
cDNA sequence analysis of pAMT and CS
Two partial pAMT transcripts were obtained from SNU11-001 (Fig. 3). The longer transcript 1,118 bp in size contained a 403 bp insertion and 8 bp deletion in the third and sixth exons. The longer transcript was similar to that of Aji Dulce strain 2 (Tanaka et al. 2010b). The smaller transcript had 45 bp deletion and 8 bp insertions. Both transcripts contained an early stop codon.
To identify sequence differences of CS between SNU11- 001 and Habanero, full sequences of the coding region in both cultivars were obtained (Fig. 4) and 4 SNPs were identified. Three SNPs resulted in amino-acid changes but one was a synonymous mutation. First two non-synonymous mutations were located in the first exon whereas the other was occurred in the second exon.
pAMT and CS marker development and genotype analysis
Two molecular markers were designed. One marker was developed for the pAMT gene to detect the pAMT mutant and the other marker was based on the CS gene to distinguish CS of SNU11-001 and Habanero. pAMT marker was designated as SNU-pAMT669. The insertion of transposable element (Tcc) on the third intron of the pAMT gene was specific to SNU11-001. This SCAR marker was developed from the sequence of Tcc in the third intron of SNU11-011 (Fig. 5). Therefore, the primer set differentiated pAMT mutant cultivars which contain Tcc element. On the other hand, CS marker was developed to discriminate between normal CS in two cultivars using a SNP (Fig. 6). This marker set was based on the synonymous mutation in second exon which can be detected by Rsa1 site. This CAPS marker was used to genotype CS alleles in SNU11-001 x Habanero F2 population.
pAMT and CS genotyping analysis was performed for SNU11-001 x Habanero F2 plant using SCAR and CAPS markers described above. Out of 215 F2 individuals, 76, 84, and 49 plants turned out to have pAMT/pAMT, pAMT/pamt, and pamt/pamt genotypes, respectively (Table 2). Overall, the segregation ratio did not fit an expected ratio 1:2:1 (p<0.05) and the number of pAMT/pamt heterozygote was less than expected. When F2 plants were subjected to CS genotyping, CSS/CSs, CSH/CSH and CSS/CSH genotypes were 50, 150 and 108, respectively (Table 3).
Capsinoid and capsaicinoid content in plants having the pamt/pamt genotype
Capsaicinoid and capsinoid content was measured for 42 pamt/pamt plants (Table 4). All tested plants contained very low levels of capsaicinoid whereas capsinoid content were relatively high ranging from 1485.61 ± 115.58 to 6050.75 ± 698.74 μg/gDW (Table 4). Capsinoid content in plant No. 76 was marked approximately 4 times higher as compared to No. 170. Capsinoid content of No. 76 was comparable to that of SNU11-001 (Table 4).
Using the 42 pamt/pamt plants, correlation between the CS genotype with capsinoid content was investigated. Capsinoid content in plants having CSS/CSS, CSH/CSH and CSS/CSH were 3033.95d with, 2664.02 ± 198.43, and 2933.66 ± 309.53 μg/gDW, respectively (Table 4). These results demonstrate that there is no significant difference in capsinoid content between CS genotypes.
This research was conducted to investigate the genetic factors affecting capsinoid accumulation and to test the possibility to develop pepper cultivars with high capsinoid content by introducing a dysfuctional pAMT allele. We showed that substitution of the pAMT allele of ‘Habanero’ with the dysfuctional pAMT allele of ‘SNU11-001’ results in high levels of capsinoid in F2 plants.
In this study we identified and used a pepper accession C. chinense ‘SNU11-001’. cDNA sequence structure of SNU11-001 is similar to Aji Dulce strain 2 in that SNU11- 001 has Tcc element in third intron and 8 bp insertion (Tanaka et al. 2010b). However, SNU11-001 is distinguished from Aji Dulce strain 2, since SNU11-001 has additional 45 bp deletion and remarkably higher capsinoid content as compared to Aji Dulce strain 2. Furthermore, capsinoid content was higher because it was measured in whole fruits of SNU11-001 while it was extracted from placenta and seeds in Aji Dulce strain 2 (Tanaka et al. 2010b). It is expected that SNU11-001 would be useful for breeding cultivars with high capsinoid content.
A similar study was reported by a Japanese research group (Tanaka et al. 2014). A cultivar named ‘Maru Salad’ was developed by crossing non-pungent pepper ‘Murasaki’ and ‘CH-19 Sweet’ which also has a dysfunctional pAMT allele. This cultivar contains approximately 700 μg/gDW capsinoid, which is much lower than those of ‘CH-19 Sweet’ (5825 ± 286 μg/gDW) and of F2 plants derived from SNU11-001. In this study, Habanero was selected to generate a population because of its high levels of capsaicinoid. It was assumed that the strong CS activity of Habanero causing high content of capsaicinoid could also contribute to capsinoid content.
However, we cannot rule out other factors that are also involved in the control of capsinoid content because plants with CSS/CSS, CSH/CSH and CSS/CSH contained almost similar concentration of capsinoid (3033.95 ± 383.82 μg/gDW, 2622.69 ± 207.26 μg/gDW and 2933.66 ± 309.53 μg/gDW, respectively). Other genes in capsaicin or capsinoid pathway could be Pal, Ca4h, Comt, and Kas (Curry et al. 1999; Aluru et al. 2003). If the factors causing high capsaicinoid content in Habanero had have the same effect on capsinoid content, QTL responsible for capsaicinoid might also control accumulation of capsinoid (Blum et al. 2003; Ben-chaim et al. 2006). For further study, F2 populations using SNU11-001 and other cultivars with various pungency levels need to be developed to validate the relationship between CS expression levels and capsinoid content.
This work was supported by a grant (code: 0636-20140011) from the Vegetable Breeding Research Center through R&D Convergence Center Support Program, Ministry for Food, Agriculture, Forestry and Fisheries and by the Next-GenerationBioGreen 21 Program (Plant Molecular Breeding Center, No. PJ009083), Rural Development Administration, Republic of Korea.
Fig. 1
Comparison of (A) capsaicinoid and (B) capsinoid content according to fruit developmental stages in five cultivars.
pbb-03-119f1.jpg
Fig. 2
pAMT and CS expression patterns in five cultivars by RT-PCR. Immature and mature stages correspond to 20 and 45 days after fruit set respectively. Actin was used as control. S SNU11-001, E ECW, Y Yuwol-cho, T Takanotsume, H Habanero.
pbb-03-119f2.jpg
Fig. 3
Two types of loss-of-function pAMT in SNU11-001. (A) Two types of pAMT transcript were detected in SNU11-001. (B) The longer transcript contains a 403 bp insertion between the third and the fourth exons and another 8 bp insertion but smaller transcript has 45 bp deletion and 8 bp insertion.
pbb-03-119f3.jpg
Fig. 4
Amino acid sequence alignment of the CS gene in SNU11-001 and Habanero. Four mutations were detected. Three of them in the box are non-synonymous mutation and another marked with triangle is synonymous mutation.
pbb-03-119f4.jpg
Fig. 5
Development of molecular markers to select pAMT mutant. (A) The SCAR marker set was designed from the sequence of Tcc in the third intron of SNU11-001 to select pAMT mutant plant. (B) PCR analysis of pAMT marker. Striped box corresponds to exon and black bar indicates marker.
pbb-03-119f5.jpg
Fig. 6
Development of molecular markers to distinguish the CS genotypes of SNU11-001 and Habanero. (A) SNP position and restriction sites distinguishing SNU-001 and Habanero. The CAPS marker set was developed in the second exon using Rsa 1 site to distinguish CS genotypes of SNU11-001 and Habanero. (B) CS marker analysis using SNU-001, Habanero, and F1 hybrids
pbb-03-119f6.jpg
Table 1
Comparison of capsaicinoid and capsinoid content in five cultivars by HPLC analysis.
Table 1
Capsicum cultivars species Stagey) Capsaicinoid (μg/gDW) Capsinoid (μg/gDW)

Capsaicin Dihydrocapsaicin Total Capsiate Dihydrocapsiate Total
SNU11-001 C. chinense 1 17.9±5.26 15.5±4.79 33.4±10.04 2910.43±974.2 647.85±138.33 3558.28±1112.54
2 16.13±4.28 0 16.13±7.15 6106.47±1609.48 749.52±186.96 6855.98±1795.53
3 25.72±6.6 24.36±11.4 50.09±17.94 6669.92±613.8 771.88±90.47 7441.81±693.84
4 17.72±5.08 17.31±2.99 35.03±7.94 4352.9±925.64 487.96±110.79 4840.86±1032.86

ECW C. annuum 1 - - - - - -
2 ndx) nd nd nd nd nd
3 nd nd nd nd nd nd
4 nd nd nd nd nd nd

Yuwol-cho C. annuum 1 116.52±10.29 125.45±4.09 241.97±6.19 87.59±3.58 22.9±3 110.48±0.59
2 1572.32±325.99 1861.19±317.44 3433.52±588.23 273.17±145.78 79.21±15.7 352.37±159.43
3 717.43±84.11 1063.48±152.96 1780.9±235.44 101.74±29.01 18.81±2.89 120.55±31.74
4 516.92±204.75 841.51±186.46 1358.44±391.21 30.25±8.13 12.53±0.27 42.78±7.86

Takanotsume C. annuum 1 - - - - - -
2 1632.78±203.98 1520.95±322.53 3153.73±518.04 364.53±21.62 85.46±8.32 449.98±29.49
3 1362.76±92.97 1563.18±161.88 2925.93±324.81 275.4±22.97 82.58±7.09 357.98±29.96
4 1780.93±174.57 2172.31±359.59 3953.24±399.23 187.81±36.12 40±6.76 227.81±42.84

Habanero C. chinense 1 4771.1±677.47 4211.51±474.46 8982.62±1130.04 470.63±83.72 118.47±16.52 589.1±99.95
2 4655.94±566.67 4539.36±53.88 9195.3±591.29 488.82±102.01 114.84±23.02 603.66±128.81
3 2113.27±0* 2227.2±0* 4340.47±0* 169.34±0* 45.75±0* 215.1±0*
4 2456.59±143.4 2651.17±140.63 5107.75±277.74 255.44±59.45 58.28±6.37 313.71±65.54

x)nd=not detected

y)stage, 1: 23 days after fruit set, 2: 30 days after fruit set, 3: 37 days after fruit set, 4: 45 days after fruit set

*indicates that this experiment was not repeated.

Table 2
Genotype analysis of pAMT and CS.
Table 2
F2 (SNU11-001 x Habanero) Pop. size Expected ratio pAMT genotype χ2 (p value) CS genotype Undetermined χ 2 (p value)


pamt/pamt pAMT/pamt pAMT/pAMT CSS/CSS CSS/CSH CSH/CSH

1:2:1 49 84 76 14.7674 (0.00062130) 6
215
1:2:1 50 108 50 7 0.308 (0.8574)

CSS indicates CS of SNU11-001 type and CSH corresponds to CS of Habanero type.

Table 3
Inheritance pattern of pAMT and CS in SNU11-001 x Habanero F2 population.
Table 3
pAMT genotype Number of individuals CS genotype Number of individuals
pamt/pamt 49 CSS/CSS 14
CSS/CSH 25
CSH/CSH 10

pAMT/pAMT
pAMT/pamt
160 CSS/CSS 36
CSS/CSH 83
CSH/CSH 40
Table 4
Capsaicinoid and capsinoid content in pamt/pamt F2 plants with different CS genotypes.
Table 4
pamt mutant individual CS type Capsaicinoid (μg/gDW) Capsinoid (μg/gDW)


Capsaicin Dihydrocapsaicin Capsaicinoid Capsiate Dihydrocapsiate Capsinoid
6 CSS/CSH 50.15noid7 56.64noid8 106.79oid.85 2461.66id50.09 628.466id 3090.06id53.29
15 CSH/CSH 31.4806id1 38.6306id8 70.1106id15 1639.35id80.97 536.255id.65 2175.61id27.96
18 CSS/CSH 39.5561id6 46.9761id46 86.5261id07 2602.74id10.73 380.784id.37 2983.52id28.45
23 CSS/CSH 30.9352id 28.3752id2 59.3752id2 2132.12±284.9 608.632±284 2740.75±284.9t
26 CSS/CSS 15.3475±28 13.8875±28 29.2275±28 1968.62±284.9t 357.522±284. 2326.15±284.9t
38 CSS/CSH 36.1315±28 50.9915±284 87.1215±284 2400.28±284.9t 417.548±284. 2817.82±284.9t
39 CSS/CSH 17.3482±284 20.6482±28 56.97±30.67 1660.430.67.9 222.2430.67 1993.720.67.9t
42 CSS/CSH 23.1.720. 30.45720.6 48.93720.67 2584.320.67.9t 530.2820.67.9 3114.620.67.9
48 CSS/CSS 23.0562 14.0862 37.1362 2679.750. 363.8450 3043.590.
64 CSS/CSS 6.25.590. 6.46.590. 12.71590.6 2233.2±177.1 335.33±177.1 2568.52177.19t
66 CSS/CSS 41.4652177 38.0652177. 79.5252177. 1821.85177.19t 476.295177.1 2298.14177.19t
69 CSS/CSS 37.8.1 45.5714 83.3714 2023.7117 368.5611 2392.2717
76 CSS/CSH 48.0427177 46.1627177 94.262717 4965.44177.19t 1085.31±96.63 6050.75±96.63t
83 CSS/CSS 38.7575±9 37.7275±96 76.4775±96 4126.75±96.63 609.025±96.6 4735.72±96.63t
91 CSH/CSH 16.8.72± 4.87.72±9 21.6772±96 3955.06±96.63t 679.286±96.6 4634.34±96.63t
93 CSS/CSH 2.73.34±9 4.31.34±9 7.04.34± 2025.29±96.63t 316.079±96.6 2341.36±96.63t
96 CSH/CSH 18.4936±9 14.1936±96 32.6736±96 1444.06±96.63 396.946±96. 1841946±96
99 CSS/CSH 19.3946±9 21.7646±96 41.0646±96. 3352.42±96.63t 620.182±96.6 3972.62±96.63
102 CSS/CSH 27.9.62±9 32.3262±96 60.2262±96 1358.05±96.612 185.675±96.6 1543.71±96.612
105 CSS/CSH 24.9271±9 20.5971±9 45.5171±96. 2807.51±96.612 351.311±96.6 3158.81±96.612
112 CSS/CSH 31.9381±9 42.1681±96 74.0981±9 2935.99±96.612 364.329±96.6 3300.31±96.612
113 CSH/CSH 37.1431±96 38.2731±96 75.4131±96 3280.82±316.12 455.382±316. 3736.22±316.1
116 CSS/CSH 25.6522±31 15.3822±31 41.0222±31 1504.93±316.12 396.943±316 1901.87±316.12
124 CSS/CSS 36.9487±31 28.2287±31 65.1687±31 4521.08±316.12e 416.358±316. 4937.43±316.12
137 CSS/CSH 13.0743±31 15.7843±31 28.8443±31 2075.93±316.1 437.743±316. 2513.64±316.1
138 CSS/CSH 50.8464±31 54.8264±31 105.664±316 2436.68±316.12 511.158±316. 2947.84±316.12
143 CSS/CSH 42.0384±31 54.4884±316 96.5884±31 1313.25±316.12 477.325±316. 1790.57±316.12
144 CSS/CSH 41.5357±19 54.6757±19 96.2757±1 2147.34±196.12 416.634±19 2563.94±196.12
158 CSH/CSH 70.3594±19 41.3594±1 111.654±196. 4570.33±196.12 625.233±196. 5195.55±196.12
162 CSS/CSH 35.6255±19 48.5755±19 84.1855±19 2381.47±196.12 313.657±196 2695.13±196.12
164 CSS/CSH 18.0213 12.2213 30.2413 1295.06±1 518.116± 1813.17±1
169 CSH/CSH 37.6217±19 53.0917±19 90.7117±19 2488.37±196.12 310.027±196. 2798.47±196.1
170 CSS/CSH 104.647±196 28.8747±19 133.477±196. 1234.92±196.12 250.792±196 1485.61±196.12
172 CSS/CSH 14.75±7.74 38.59±7.746 53.33±7.74 1490.46.746.12 291.666.746. 1782.12.746.12
176 CSH/CSH 33.7912.74 33.5812.74 67.3712.746 1967.44.746.12 347.384.746. 2314.81.746.12
187 CSH/CSH 11.7481.74 12.1981.74 23.9481.746 1607.09.746.1 244.929.746. 1852.02.746.1
189 CSS/CSH 111.742.746. 46.174 157.832.746. 2026832.746 445.222.746. 2471.22.746.12
190 CSS/CSS 39.8222.74 71.5222.7 111.322.746. 1841.77.746.12 339.517.746. 2181.28.746.12
195 CSS/CSS 22.1728.74 26.6128.746 48.7828.746 2160.44.746.12 382.494.746. 2542.93±242.4
204 CSH/CSH 63.7493±242 54.3793±242 118.113±242. 2408.69±242.42 348.919±242 2757.59±242.42
205 CSS/CSH 27.3759±24 56.5359±242 83.9159±242 1890.82±242.4 419.542±242.4 2310.35±242.42
213 CSS/CSS 31.3635±24 45.6335±24 77.6335 1998.59±242.42 311.94±33.04 2310.5333.0442

Capsaicinoid and capsinoid concentration at 30 days after fruit set was measured. Four plants (22, 51, 134 and 184) were not determined.

*indicates that this experiment was not repeated.

S: SNU11-001 H: Habanero.

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Substitution of a Dysfunctional pAMT Allele Results in Low-Pungency but High Levels of Capsinoid in Capsicum chinense ‘Habanero’
Plant Breed. Biotech.. 2015;3(2):119-128.   Published online June 30, 2015
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Substitution of a Dysfunctional pAMT Allele Results in Low-Pungency but High Levels of Capsinoid in Capsicum chinense ‘Habanero’
Plant Breed. Biotech.. 2015;3(2):119-128.   Published online June 30, 2015
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Substitution of a Dysfunctional pAMT Allele Results in Low-Pungency but High Levels of Capsinoid in Capsicum chinense ‘Habanero’
Image Image Image Image Image Image
Fig. 1 Comparison of (A) capsaicinoid and (B) capsinoid content according to fruit developmental stages in five cultivars.
Fig. 2 pAMT and CS expression patterns in five cultivars by RT-PCR. Immature and mature stages correspond to 20 and 45 days after fruit set respectively. Actin was used as control. S SNU11-001, E ECW, Y Yuwol-cho, T Takanotsume, H Habanero.
Fig. 3 Two types of loss-of-function pAMT in SNU11-001. (A) Two types of pAMT transcript were detected in SNU11-001. (B) The longer transcript contains a 403 bp insertion between the third and the fourth exons and another 8 bp insertion but smaller transcript has 45 bp deletion and 8 bp insertion.
Fig. 4 Amino acid sequence alignment of the CS gene in SNU11-001 and Habanero. Four mutations were detected. Three of them in the box are non-synonymous mutation and another marked with triangle is synonymous mutation.
Fig. 5 Development of molecular markers to select pAMT mutant. (A) The SCAR marker set was designed from the sequence of Tcc in the third intron of SNU11-001 to select pAMT mutant plant. (B) PCR analysis of pAMT marker. Striped box corresponds to exon and black bar indicates marker.
Fig. 6 Development of molecular markers to distinguish the CS genotypes of SNU11-001 and Habanero. (A) SNP position and restriction sites distinguishing SNU-001 and Habanero. The CAPS marker set was developed in the second exon using Rsa 1 site to distinguish CS genotypes of SNU11-001 and Habanero. (B) CS marker analysis using SNU-001, Habanero, and F1 hybrids
Substitution of a Dysfunctional pAMT Allele Results in Low-Pungency but High Levels of Capsinoid in Capsicum chinense ‘Habanero’

Comparison of capsaicinoid and capsinoid content in five cultivars by HPLC analysis.

Capsicum cultivars species Stagey) Capsaicinoid (μg/gDW) Capsinoid (μg/gDW)

Capsaicin Dihydrocapsaicin Total Capsiate Dihydrocapsiate Total
SNU11-001 C. chinense 1 17.9±5.26 15.5±4.79 33.4±10.04 2910.43±974.2 647.85±138.33 3558.28±1112.54
2 16.13±4.28 0 16.13±7.15 6106.47±1609.48 749.52±186.96 6855.98±1795.53
3 25.72±6.6 24.36±11.4 50.09±17.94 6669.92±613.8 771.88±90.47 7441.81±693.84
4 17.72±5.08 17.31±2.99 35.03±7.94 4352.9±925.64 487.96±110.79 4840.86±1032.86

ECW C. annuum 1 - - - - - -
2 ndx) nd nd nd nd nd
3 nd nd nd nd nd nd
4 nd nd nd nd nd nd

Yuwol-cho C. annuum 1 116.52±10.29 125.45±4.09 241.97±6.19 87.59±3.58 22.9±3 110.48±0.59
2 1572.32±325.99 1861.19±317.44 3433.52±588.23 273.17±145.78 79.21±15.7 352.37±159.43
3 717.43±84.11 1063.48±152.96 1780.9±235.44 101.74±29.01 18.81±2.89 120.55±31.74
4 516.92±204.75 841.51±186.46 1358.44±391.21 30.25±8.13 12.53±0.27 42.78±7.86

Takanotsume C. annuum 1 - - - - - -
2 1632.78±203.98 1520.95±322.53 3153.73±518.04 364.53±21.62 85.46±8.32 449.98±29.49
3 1362.76±92.97 1563.18±161.88 2925.93±324.81 275.4±22.97 82.58±7.09 357.98±29.96
4 1780.93±174.57 2172.31±359.59 3953.24±399.23 187.81±36.12 40±6.76 227.81±42.84

Habanero C. chinense 1 4771.1±677.47 4211.51±474.46 8982.62±1130.04 470.63±83.72 118.47±16.52 589.1±99.95
2 4655.94±566.67 4539.36±53.88 9195.3±591.29 488.82±102.01 114.84±23.02 603.66±128.81
3 2113.27±0* 2227.2±0* 4340.47±0* 169.34±0* 45.75±0* 215.1±0*
4 2456.59±143.4 2651.17±140.63 5107.75±277.74 255.44±59.45 58.28±6.37 313.71±65.54

x)nd=not detected

y)stage, 1: 23 days after fruit set, 2: 30 days after fruit set, 3: 37 days after fruit set, 4: 45 days after fruit set

*indicates that this experiment was not repeated.

Genotype analysis of pAMT and CS.

F2 (SNU11-001 x Habanero) Pop. size Expected ratio pAMT genotype χ2 (p value) CS genotype Undetermined χ 2 (p value)


pamt/pamt pAMT/pamt pAMT/pAMT CSS/CSS CSS/CSH CSH/CSH

1:2:1 49 84 76 14.7674 (0.00062130) 6
215
1:2:1 50 108 50 7 0.308 (0.8574)

CSS indicates CS of SNU11-001 type and CSH corresponds to CS of Habanero type.

Inheritance pattern of pAMT and CS in SNU11-001 x Habanero F2 population.

pAMT genotype Number of individuals CS genotype Number of individuals
pamt/pamt 49 CSS/CSS 14
CSS/CSH 25
CSH/CSH 10

pAMT/pAMT
pAMT/pamt
160 CSS/CSS 36
CSS/CSH 83
CSH/CSH 40

Capsaicinoid and capsinoid content in pamt/pamt F2 plants with different CS genotypes.

pamt mutant individual CS type Capsaicinoid (μg/gDW) Capsinoid (μg/gDW)


Capsaicin Dihydrocapsaicin Capsaicinoid Capsiate Dihydrocapsiate Capsinoid
6 CSS/CSH 50.15noid7 56.64noid8 106.79oid.85 2461.66id50.09 628.466id 3090.06id53.29
15 CSH/CSH 31.4806id1 38.6306id8 70.1106id15 1639.35id80.97 536.255id.65 2175.61id27.96
18 CSS/CSH 39.5561id6 46.9761id46 86.5261id07 2602.74id10.73 380.784id.37 2983.52id28.45
23 CSS/CSH 30.9352id 28.3752id2 59.3752id2 2132.12±284.9 608.632±284 2740.75±284.9t
26 CSS/CSS 15.3475±28 13.8875±28 29.2275±28 1968.62±284.9t 357.522±284. 2326.15±284.9t
38 CSS/CSH 36.1315±28 50.9915±284 87.1215±284 2400.28±284.9t 417.548±284. 2817.82±284.9t
39 CSS/CSH 17.3482±284 20.6482±28 56.97±30.67 1660.430.67.9 222.2430.67 1993.720.67.9t
42 CSS/CSH 23.1.720. 30.45720.6 48.93720.67 2584.320.67.9t 530.2820.67.9 3114.620.67.9
48 CSS/CSS 23.0562 14.0862 37.1362 2679.750. 363.8450 3043.590.
64 CSS/CSS 6.25.590. 6.46.590. 12.71590.6 2233.2±177.1 335.33±177.1 2568.52177.19t
66 CSS/CSS 41.4652177 38.0652177. 79.5252177. 1821.85177.19t 476.295177.1 2298.14177.19t
69 CSS/CSS 37.8.1 45.5714 83.3714 2023.7117 368.5611 2392.2717
76 CSS/CSH 48.0427177 46.1627177 94.262717 4965.44177.19t 1085.31±96.63 6050.75±96.63t
83 CSS/CSS 38.7575±9 37.7275±96 76.4775±96 4126.75±96.63 609.025±96.6 4735.72±96.63t
91 CSH/CSH 16.8.72± 4.87.72±9 21.6772±96 3955.06±96.63t 679.286±96.6 4634.34±96.63t
93 CSS/CSH 2.73.34±9 4.31.34±9 7.04.34± 2025.29±96.63t 316.079±96.6 2341.36±96.63t
96 CSH/CSH 18.4936±9 14.1936±96 32.6736±96 1444.06±96.63 396.946±96. 1841946±96
99 CSS/CSH 19.3946±9 21.7646±96 41.0646±96. 3352.42±96.63t 620.182±96.6 3972.62±96.63
102 CSS/CSH 27.9.62±9 32.3262±96 60.2262±96 1358.05±96.612 185.675±96.6 1543.71±96.612
105 CSS/CSH 24.9271±9 20.5971±9 45.5171±96. 2807.51±96.612 351.311±96.6 3158.81±96.612
112 CSS/CSH 31.9381±9 42.1681±96 74.0981±9 2935.99±96.612 364.329±96.6 3300.31±96.612
113 CSH/CSH 37.1431±96 38.2731±96 75.4131±96 3280.82±316.12 455.382±316. 3736.22±316.1
116 CSS/CSH 25.6522±31 15.3822±31 41.0222±31 1504.93±316.12 396.943±316 1901.87±316.12
124 CSS/CSS 36.9487±31 28.2287±31 65.1687±31 4521.08±316.12e 416.358±316. 4937.43±316.12
137 CSS/CSH 13.0743±31 15.7843±31 28.8443±31 2075.93±316.1 437.743±316. 2513.64±316.1
138 CSS/CSH 50.8464±31 54.8264±31 105.664±316 2436.68±316.12 511.158±316. 2947.84±316.12
143 CSS/CSH 42.0384±31 54.4884±316 96.5884±31 1313.25±316.12 477.325±316. 1790.57±316.12
144 CSS/CSH 41.5357±19 54.6757±19 96.2757±1 2147.34±196.12 416.634±19 2563.94±196.12
158 CSH/CSH 70.3594±19 41.3594±1 111.654±196. 4570.33±196.12 625.233±196. 5195.55±196.12
162 CSS/CSH 35.6255±19 48.5755±19 84.1855±19 2381.47±196.12 313.657±196 2695.13±196.12
164 CSS/CSH 18.0213 12.2213 30.2413 1295.06±1 518.116± 1813.17±1
169 CSH/CSH 37.6217±19 53.0917±19 90.7117±19 2488.37±196.12 310.027±196. 2798.47±196.1
170 CSS/CSH 104.647±196 28.8747±19 133.477±196. 1234.92±196.12 250.792±196 1485.61±196.12
172 CSS/CSH 14.75±7.74 38.59±7.746 53.33±7.74 1490.46.746.12 291.666.746. 1782.12.746.12
176 CSH/CSH 33.7912.74 33.5812.74 67.3712.746 1967.44.746.12 347.384.746. 2314.81.746.12
187 CSH/CSH 11.7481.74 12.1981.74 23.9481.746 1607.09.746.1 244.929.746. 1852.02.746.1
189 CSS/CSH 111.742.746. 46.174 157.832.746. 2026832.746 445.222.746. 2471.22.746.12
190 CSS/CSS 39.8222.74 71.5222.7 111.322.746. 1841.77.746.12 339.517.746. 2181.28.746.12
195 CSS/CSS 22.1728.74 26.6128.746 48.7828.746 2160.44.746.12 382.494.746. 2542.93±242.4
204 CSH/CSH 63.7493±242 54.3793±242 118.113±242. 2408.69±242.42 348.919±242 2757.59±242.42
205 CSS/CSH 27.3759±24 56.5359±242 83.9159±242 1890.82±242.4 419.542±242.4 2310.35±242.42
213 CSS/CSS 31.3635±24 45.6335±24 77.6335 1998.59±242.42 311.94±33.04 2310.5333.0442

Capsaicinoid and capsinoid concentration at 30 days after fruit set was measured. Four plants (22, 51, 134 and 184) were not determined.

*indicates that this experiment was not repeated.

S: SNU11-001 H: Habanero.

Table 1 Comparison of capsaicinoid and capsinoid content in five cultivars by HPLC analysis.

nd=not detected

stage, 1: 23 days after fruit set, 2: 30 days after fruit set, 3: 37 days after fruit set, 4: 45 days after fruit set

indicates that this experiment was not repeated.

Table 2 Genotype analysis of pAMT and CS.

CSS indicates CS of SNU11-001 type and CSH corresponds to CS of Habanero type.

Table 3 Inheritance pattern of pAMT and CS in SNU11-001 x Habanero F2 population.
Table 4 Capsaicinoid and capsinoid content in pamt/pamt F2 plants with different CS genotypes.

Capsaicinoid and capsinoid concentration at 30 days after fruit set was measured. Four plants (22, 51, 134 and 184) were not determined.

indicates that this experiment was not repeated.

S: SNU11-001 H: Habanero.