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Molecular Tagging of the Gene Controlling Fruit Peel Color in Tomato (Solanu lycopersicum L.)
Bichsaem Kim,Namhui Kim,Hyeogjun Kim,Dongyeop Han,Daen Kim,Younghoon Park 한국육종학회 2014 한국육종학회 심포지엄 Vol.2014 No.07
Fresh market tomato cultivars are divided largely based on fruit color appearance (red or pink), which is attributed by the trait of peel. It had been reported that mutation of the Slmyb12 gene suppresses synthesis of yellow-colored flavonoid (naringenin chalcone) in peel and causes pinkish tomato fruit. Whereas wild-type tomato plants synthesizing naringenin chalcone produce yellow-colored peel, which resulting in the fruit appearance to be red. The present study was performed to investigate the association between the Slmyb12 and fruit color of domestic tomato inbreed lines. A SCAR marker was developed from an Indel mutation site (72bp insertion in exon3) of the Slmyb12, and tested on 22 and 18 red and pink-fruited inbred lines, respectively. Unexpectedly, the results showed that all inbred lines tested had wild-type Slmyb12. The full length sequences of the Slmyb12 were cloned from two inbred lines (FCR1 and FCP1), but the sequence alignment did not identify any nucleotide variations within this gene. Furthermore, scanning of SNPs between FCR1 and FCP1 using SolCAP Tomato SNP array) found no SNPs for Slmyb12. To delimit the genomic region of the gene conferring fruit color of domestic tomato lines, we are analyzing SNPs in the genes adjacent to the Slmyb12 using an F2 population derived from FCR1 x FCP1. So far, one SNP located at 1,750kbp downstream from the stop codon of Slmyb12 was mapped using 54 F2 plants and 83% of phenotype-marker association was revealed, demonstrating that the fruit color is controlled bySlmyb12 indeed, or other neighboring gene(s) involved in the pathway of naringenin chalcone synthesis. Further study with more SNPs will clear up this question.
Namhui Kim,Juyeol Oh,Bichsaem Kim,Hyeogjun Kim,Dongyeop Han,Daen Kim,Younghoon Park 한국육종학회 2014 한국육종학회 심포지엄 Vol.2014 No.07
Most of the melon(Cucumis melo L.) breeding lines in Korea show andromonoecious (male-perfect flowers) sex expression, which requires laborious hand emasculation to produce the F1 seeds. There is a high demand for developing monoecious (male-female flowers) elite germplasm. The present study was carried out to develop molecular markers for selecting monoecious plants based on the CmACS-7 gene [a locus with 1-aminocyclopropane-1-carboxylic acid synthase(ACS) activity] responsible for ethylene synthesis and sex determination in melon. The full length sequences of the CmACS-7 were cloned from a monoecious inbred ‘Mo23’ and an andromonoecious inbred ‘Am24’. Sequence alignment revealed a major SNP(C170T) in exon1 and 18bp indel in intron4 of the CmACS-7, and a CAPS (SNP-C170T) and SCAR (ID4-18) were developed from the SNP and indel, respectively. A total of 453 F2 plants derived from ‘Mo23’ x ‘Am24’ were determined for their sex expression and genotyped using the SCAR marker. A Mendelian ratio of 3(monoecy): 1(andromonoecy) was observed from the F2 population, and sex type of 449 plants (except for four plants that showed incomplete monoecy) cosegregated with the SCAR marker, demonstrating that CmACS-7 is a single dominant gene conferring monoecy of ‘Mo23’. Allele variation of the CmACS-7 was evaluated by genotyping 114 melon accessions with diverse geographical origins using the CAPS and SCAR. C170T-SNP in exon1 of the CmACS-7 was highly conserved in melon germplasm and perfectly matched with the phenotype, whereas the 18bp-indel mutation in intron4 existed in various forms. The results demonstrated that CAPS marker SNP-C170T can be useful for marker-assisted selection(MAS) of monoecious melon plants
[PF-0006] Morphological characterization of mustard (Brassica juncea) germplasm from Korea
Seong-Hoon Kim(Seong-Hoon Kim),Bum-Soo Hahn(Bum-Soo Hahn),Ho Chul Ko(Ho Chul Ko),Onsook Hur(Onsook Hur),Aejin Hwang(Aejin Hwang),Bichsaem Kim(Bichsaem Kim),Yoon-Jung Lee(Yoon-Jung Lee),Parthiban Subra 한국육종학회 2022 한국육종학회 공동학술발표집 Vol.2022 No.-
Bichsaem Kim,Jihyun Hwang,Joon Young Kim,Byung Sup Kim,Sung Ran Min,Huijung Jung,Ill-Sup Nou,Younghoon Park 한국육종학회 2015 한국육종학회 심포지엄 Vol.2015 No.07
Fusarium crown root rot (FCRR) is a severe fungal disease caused by Fusarium oxysporum f. sp. radicis-lycopersici (FORL) in tomato. Resistance to FORL is conferred by single dominant locus Frl on chromosome 9, but its precise genomic location is not clearly determined. In this study, detailed location of Frl was assessed by using a set of molecular markers physically anchored on Chr.9 and F2 and RIL population derived from FORL-resistant inbred AV107-4 (S.lycopersicum) x susceptible L3708 (S. pimpinellifolium). Bioassay of the two populations with a FORL strain isolated from Korea resulted in single dominant heritance of the resistance. Two SCAR and 11 CAPS markers encompassing 3.6Mb~72Mb of Chr.9 were developed from the Tomato-EXPEN 2000 map and SolCAP SNP-array analysis. These markers were genotyped on 345 F2 plants. A high level of cosegregation with the resistance were observed for 5 markers which were mapped at a large physical interval of 5.1Mb (T1212) to 46.4Mb (SSR237), indicating that genetic recombination was highly suppressed in this region. Cosegregation of these markers with Frl was confirmed by using 126 RILs. The results implied that, in contrast with the previously reported long arm, Frl is present on a pericentromeric region of short arm of Chr. 9, in which crossing-over is severely suppressed. The marker set was further tested on 12 FORL-resistance or susceptibility commercial cultivars. Unlike the biparental populations, frequent linkage break was observed for T1212 and D4 in commercial cultivars. T1212 and D4 showed 50% and 100% match with the phenotype, respectively. D4, a CAPS, was converted to a high resolution melting (HRM) marker and tested on 55 breeding lines from private seed companies (Fig.3). All breeding lines showed the HRM genotype for resistance allele, indicating that D4 can be useful for selecting FORL-resistance tomato plants.
Kim, Bichsaem,Kim, Nahui,Kang, Jumsoon,Choi, Youngwhan,Sim, Sung-Chur,Min, Sung Ran,Park, Younghoon Korean Society of Horticultural Science 2015 원예과학기술지 Vol.33 No.4
Yellow or transparent fruit peel color is caused by the accumulation or lack of naringenin chalcone (NG, C) in fruit peel and determines the red or pink appearance of tomato fruit, respectively. NGC biosynthesis is regulated by the SlMYB12 gene of the Y locus on chromosome 1, and DNA markers derived from SlMYB12 would be useful for marker-assisted selection (MAS) of tomato fruit color. To develop a gene-based marker, 4.9 kb of the SlMYB12 gene including a potential promoter region was sequenced from the red-fruited (YY) line 'FCR' and pink-fruited (yy) line 'FCP'. Sequence alignment of these SlMYB12 alleles revealed no sequence variations between 'FCR' and 'FCP'. To identify SlMYB12-linked single nucleotide polymorphisms (SNPs), 'FCR' and 'FCP' were genotyped using a SolCAP Tomato SNP array and CAPS markers (CAPS-456, 531, 13762, and 38123) were developed from the four SNPs (solcap_snp_sl_456, 531, 13762, and 38123) most closely flanking the SlMYB12. These CAPS markers were mapped using $F_2$ plants derived from 'FCR' ${\times}$ 'FCP'. The map positions of the fruit peel color locus (Y) were CAPS-13762 (0 cM) - 456 (11.09 cM) - Y (15.71 cM) - 38123 (17.82 cM) - 531 (30.86 cM), and the DNA sequence of SlMYB12 was physically anchored in the middle of CAPS-456 and CAPS-38123, indicating that fruit peel color in domesticated tomato is controlled by SlMYB12. A total of 64 SolCAP tomato germplasms were evaluated for their fruit peel color and SNPs located between solcap_snp_sl_456 and 38123. Seven SNPs that were detected in this interval were highly conserved for pink-fruited accessions and specific to transparent fruit peel traits, as depicted by a phenetic tree of 64 accessions based on the seven SNPs.
Bichsaem Kim,Nahui Kim,Jumsoon Kang,Youngwhan Choi,Sung-Chur Sim,Sung Ran Min,Younghoon Park 한국원예학회 2015 원예과학기술지 Vol.33 No.4
Yellow or transparent fruit peel color is caused by the accumulation or lack of naringenin chalcone (NG, C) in fruit peel and determines the red or pink appearance of tomato fruit, respectively. NGC biosynthesis is regulated by the SlMYB12 gene of the Y locus on chromosome 1, and DNA markers derived from SlMYB12 would be useful for marker-assisted selection (MAS) of tomato fruit color. To develop a gene-based marker, 4.9 kb of the SlMYB12 gene including a potential promoter region was sequenced from the red-fruited (YY) line ‘FCR’ and pink-fruited (yy) line ‘FCP’. Sequence alignment of these SlMYB12 alleles revealed no sequence variations between ‘FCR’ and ‘FCP’. To identify SlMYB12-linked single nucleotide polymorphisms (SNPs), ‘FCR’ and ‘FCP’ were genotyped using a SolCAP Tomato SNP array and CAPS markers (CAPS-456, 531, 13762, and 38123) were developed from the four SNPs (solcap_snp_sl_456, 531, 13762, and 38123) most closely flanking the SlMYB12. These CAPS markers were mapped using F2 plants derived from ‘FCR’ × ‘FCP’. The map positions of the fruit peel color locus (Y) were CAPS-13762 (0 cM) - 456 (11.09 cM) - Y (15.71 cM) - 38123 (17.82 cM) - 531 (30.86 cM), and the DNA sequence of SlMYB12 was physically anchored in the middle of CAPS-456 and CAPS-38123, indicating that fruit peel color in domesticated tomato is controlled by SlMYB12. A total of 64 SolCAP tomato germplasms were evaluated for their fruit peel color and SNPs located between solcap_snp_sl_456 and 38123. Seven SNPs that were detected in this interval were highly conserved for pink-fruited accessions and specific to transparent fruit peel traits, as depicted by a phenetic tree of 64 accessions based on the seven SNPs.