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Cheryl C. Adeva,이현숙,김선하,전윤아,심규찬,Ngoc Ha Luong,강주원,김창수,조준현,안상낙 한국육종학회 2020 Plant Breeding and Biotechnology Vol.8 No.4
Quantitative trait loci (QTLs) for the starch-related traits amylose content (AC) and resistant starch (RS) content havereceived much attention due to the potential benefits of grains high in these starch levels. In this study, QTLs associated with AC andRS content were identified using 92 recombinant inbred lines (RILs) developed from a cross between two closely related japonicacultivars ‘Dodamssal’ and ‘Hwayeong’. One QTL on chromosome 2 for RS content and 2 QTLs for AC on chromosomes 2 and 6 weredetected. The F2 population derived from a cross between Hwayeong and two selected RILs were used to analyze the interactionbetween starch branching enzyme 3 (SBE3) and granule-bound starch synthase 1 (GBSS1). The combined effect of SBE3 and GBSS1 inthe F2 population suggested that these two genes behaved in an additive manner in increasing AC. Haplotype analysis based on twoSNPs in GBSS1 classified 117 rice accessions into three groups. At the first SNP site, all indica, Korean landrace, and weedy riceaccessions had the Wxaallele at the 5ʹ splice site of intron 1, whereas japonica accessions had the mutated Wxballele. This suggests thatthis splice-donor mutation is prevalent in japonica cultivars, but rare or absent in landrace and weedy rice cultivars. Landrace or weedyrice accessions harboring the Wxaallele could be employed in breeding programs to manipulate AC in cultivated japonica riceconsidering the difficulty and time to introduce desirable indica traits into japonica due to reproductive barriers.
Cheryl Adeva,강주원,심규찬,Ngoc Ha Luong,이현숙,이종희,안상낙 한국육종학회 2023 Plant Breeding and Biotechnology Vol.11 No.1
Amylose content is a key factor affecting the eating and cooking qualities of rice. In our previous study, protein disulfide isomerase like 1-1 (PDIL1-1) on chromosome 11 was a candidate gene for amylose content (AC) trait. Based on whole genome sequencing, polymorphisms were identified between Dodamssal and Hwayeong on PDIL1-1. In this study, the association of PDIL1-1 on AC was characterized. Haplotype analysis of 79 KNU accessions highlighted the presence of allelic patterns identifiable by the sequence variants between Dodamssal and Hwayeong. Identified SNPs and InDel were used to develop gene-based molecular markers for PDIL1-1. The 29 F2 plants and 160 Korean japonica cultivars were classified into two and three groups, respectively, based on the G/A SNP at position -4973180 and ATTCG/G at position -4974161. Our findings revealed that the G/A SNP at position -4973180 of PDIL1-1 plays a role in regulating the AC in japonica rice. This suggested that PDIL1-1 would be useful for fine-tuning the rice AC. To our knowledge, no studies of the allelic variation of the PDIL1-1 gene regulating AC have been reported worldwide. Furthermore, no research had reported the development of PDIL1-1 gene-based molecular markers.
Genetic Analysis of Anthocyanin Pigmentation in Sterile Lemma and Apiculus in Rice
김우진,Cheryl Adeva,이현숙,전윤아,심규찬,안상낙 한국육종학회 2020 Plant Breeding and Biotechnology Vol.8 No.4
Genetic analysis of genes that regulate the color pigmentation of sterile lemma and apiculus has been conducted. “Josaengjado” has small and round grains with purple leaf, sterile lemma and apiculus. In the F2 population from a cross betweenJosaengjado and Daeribbyeo 1, 246 and 182 plants exhibited purple and straw-white sterile lemma, respectively. It fitted a 9:7segregation ratio indicating that two complementary genes control the pigmentation in sterile lemma and apiculus. Genetic analysis wasperformed using the F2:3 and KASP (Kompetitive Allele-Specific PCR) markers. Genes for the coloration of leaf sheath, ligule, sterilelemma, and apiculus were detected on chromosomes 1 and 6. Sequence comparison showed a single nucleotide substitution C(Josaengjado) to A (Daeribbyeo 1) in the second exon of the Rd gene on chromosome 1 leading to a premature stop in Daeribbyeo 1. InC1, a 3-bp deletion in the second exon was detected in Daeribbyeo 1. Haplotype analysis was performed in the Rd and C1 genes of the78 rice accessions. 78 accessions were divided into 14 groups. A total of 11 and 1 mutation sites were detected in OsC1 and Rd,respectively. The haplotype analysis also confirmed that two complementary genes, Rd and OsC1 are necessary to express anthocyaninpigmentation in sterile lemma and apiculus. To our knowledge, this is the first report to identify genes for the coloration of sterile lemmain rice.
심규찬,김선하,Anh Quynh Le,이현숙,Cheryl Adeva,정윤아,Ngoc Ha Luong,김우진,Mirjalol Akhtamov,안상낙 한국육종학회 2019 Plant Breeding and Biotechnology Vol.7 No.2
Low-temperature germinability (LTG) is an important trait for rice direct seeding at temperate and high-altitude region. Previously, five QTLs (quantitative trait loci) for LTG were detected using an interspecific cross population between the Korea japonica cultivar Hwaseong and Oryza rufipogon (IRGSP#105491). O. rufipogon alleles at all loci increased the germination rate at the 13℃ condition. In this study, we tried to confirm and fine-map qLTG1 located on the short arm of chromosome 1. To map the qLTG1, two introgression lines, TR5 and TR20 were crossed to Hwaseong to develop F2:3 populations. QTL analysis confirmed the existence of the qLTG1 and it explained 55.5% and 29.9% of phenotypic variation in two populations, respectively. Substitution mapping using informative recombinant lines indicated that qLTG1 was located in 167-kb region between two SSR markers RM10310 and RM10326. This segment harbored 18 genes with nine of them were annotated with specific gene function. In addition, the O. rufipogon introgression in this region was associated with an increase in spikelets per panicle in the Hwaseong background. The results strongly indicate that the O. rufipogon alleles will be a valuable source of genes in improving japonica rice for low-temperature germinability and yield. To our knowledge, this is the first report to fine-map qLTG1 associated with LTG in rice considering that no QTL for LTG has not been reported near this QTL region from other biparental populations.
Ngoc Ha Luong,Yuna Jeong,심규찬,김선하,이현숙,Cheryl Adeva,Van Anh Do Thi,안상낙 한국육종학회 2019 Plant Breeding and Biotechnology Vol.7 No.3
Previously, we mapped the qSPP7 QTL affecting the number of spikelets per panicle (SPP) on rice chromosome 7 using near-isogenic line (NIL WH29001) derived from an interspecific cross between the japonica ‘Hwaseong’ and O. minuta. In the present study, we confirmed this QTL using progeny derived from a cross between IL102, a WH29001 sister line and Hwaseong. Genetic analysis determined that qSPP7 was located between a KASP marker KJ07-049 and RM21605. The O. minuta segment on chromosome 7 introgressed into the Hwaseong background was associated with an increase in SPP. The panicle structure of IL102 revealed that not only the number of SPP increased significantly, but also the number of branches per panicle increased as compared to Hwaseong suggesting that the donor allele of qSPP7 promotes branching in the genetic background of Hwaseong. Linkage analysis indicated that qEhd1 on chromosome 10 is involved in the difference in heading date of IL102 and Hwaseong. Experiments under 3 different day length conditions revealed that IL102 always showed earlier heading and higher SPP as compared to Hwaseong indicating that the effect of qSPP7 in the Hwaseong background was not dependent on photoperiod, and SPP increased in proportion to the number of days to heading.