• Korean Journal of Food Science and Technology
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• v.52 no.1
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• pp.40-45
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• 2020

Over 500 genetically modified organisms (GMOs) have been developed since 1996, of which nearly 44% have glufosinate herbicide-tolerant traits. Identification of specific markers that can be used to identify herbicide-tolerant traits is challenging as the DNA sequences of the gene(s) of a trait are highly variable depending on the origin of the gene(s), plant species, and developers. To develop specific PCR marker(s) for the detection of the glufosinate-tolerance trait, DNA sequences of several pat or bar genes were compared and a diverse combination of PCR primer sets were examined using certified reference materials or transgenic plants. Based on both the qualitative and quantitative PCR tests, a primer set specific for pat and non-specific for bar was developed. Additionally, a set of markers that can detect both pat and bar was developed, and the quantitative PCR data indicated that the primer pairs were sensitive enough to detect 0.1% of the mixed seed content rate.

• KOREAN JOURNAL OF CROP SCIENCE
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• v.59 no.2
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• pp.109-127
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• 2014

Maize is one of the most important food and feed crops in the world including Southeast Asia. In spite of numberous efforts with conventional breeding, the maize productions remain low and the loss of yields by drought and downy mildew are still severe in Asia. Genetic improvement of maize has been performed with molecular marker and genetic engineering. Because maize is one of the most widely studied crop for its own genome and has tremendous diversity and variant, maize is considered as a forefront crop in development and estimation of molecular markers for agricultural useful trait in genetics and breeding. Using QTL (Quantitative Trait Loci) and MAS (Marker Assisted Breeding), molecular breeders are able to accelerate the development of drought tolerance or downy mildew resistance maize genotype. The present paper overviews QTL/MAS approaches towards improvement of maize production against drought and downy mildew. We also discuss here the trends and importance of molecular marker and mapping population in maize breeding.

• Proceedings of the Korean Society of Crop Science Conference
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• 2022.10a
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• pp.17-17
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• 2022

Leaves are an important organism for photosynthesis and transpiration. The shape of leaf is crucial factor affecting plant architecture. V-shape leaf rolling is enhancing canopy photosynthesis by increasing the CO₂ penetration and the light capture by reducing the shadow between the leaves. Therefore, moderate leaf rolling is thought to more high grain yield per area than flat leaf. We investigated 278 KRICE_CORE accession's Adaxial Leaf Rolling Index (LRI) in first heading using the following equation. For each accession, genomic DNA was used for sequencing. We sequenced the genomics with ~8 X coverage to detect SNPS. Raw reads were aligned against the rice reference (IRGSP 1.0) for SNP identification and genotype calling. To generate genotype data for GWAS, SNPs were filtered with minor allele frequency 0.05. Finally, 841,134 high-quality SNPs were used for our GWAS. The significant threshold was -log10(P)>7.23. From the results, 2 significance SNP were detected. Considering the LD block of 250kbp, 60 candidate gene were selected including Hypothetical gene and Conserved gene. In this poster, we analyzed candidate gene affecting adaxial Leaf Rolling through single-trait GWAS.

• Proceedings of the Korean Society of Crop Science Conference
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• 2022.10a
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• pp.243-243
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• 2022

Leaves are an important organism for photosynthesis and transpiration. The shape of leaf is crucial factor affecting plant architecture. V-shape leaf rolling is enhancing canopy photosynthesis by increasing the CO₂ penetration and the light capture by reducing the shadow between the leaves. Therefore, moderate leaf rolling is thought to more high grain yield per area than flat leaf. We investigated 278 KRICE CORE accession's Adaxial Leaf Rolling Index (LRI) in first heading using the following equation. For each accession, genomic DNA was used for sequencing. We sequenced the genomics with ~8 X coverage to detect SNPS. Raw reads were aligned against the rice reference (IRGSP 1.0) for SNP identification and genotype calling. To generate genotype data for GWAS, SNPs were filtered with minor allele frequency 0.05. Finally, 841,134 high-quality SNPs were used for our GWAS. The significant threshold was -log10(P) >7.23. From the results, 2 significance SNP were detected. Considering the LD block of 250kbp, 60 candidate gene were selected including Hypothetical gene and Conserved gene. In this poster, we analyzed candidate gene affecting adaxial Leaf Rolling through single-trait GWAS.

• Proceedings of the Korean Society of Crop Science Conference
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• 2022.10a
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• pp.27-27
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• 2022

(-)-Epicatechin (EC), a primary form of flavan-3ol and a building block of proanthocyanidins, has health benefits as it is a potent antioxidant. So far, no quantitative trait loci (QTLs) associated with EC have yet been identified in soybean. In this study, QTLs for EC and hilum color were identified in recombinant inbred lines (RILs) derived from the varieties Jinpung and IT109098 using high-resolution single nucleotide polymorphism linkage mapping. This revealed two major QTLs for EC content, qEC06 and qEC08. qEC06 spanned the T Locus encoding flavonoid 3'-hydroxylase. qEC08, located near the I locus on Chr08, was also a major QTL for hilum color; however, allelic stacking of qEC08 and I revealed no relationship between I and EC content. RILs with IT 109098 alleles at both qEC06 and qEC08 had higher EC content than other lines. These results will enable the production of soybean varieties with high EC content via marker-assisted selection.

• Proceedings of the Korean Society of Crop Science Conference
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• 2022.04a
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• pp.110-110
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• 2022

Rice is the world's most important food crop and a major source of nutrition for about two thirds of populations. Northern Vietnam is one of the most important centers of genetic diversity for cultivated rice. In this study, we determined the genetic diversity and population structure of 79 rice landraces collected from northern Vietnam and 19 rice accessions collected from different countries. In total, 98 rice accessions could be differentiated into japonica and indica with moderate genetic diversity and a polymorphism information content of 0.382. We also detected subspecies-specific markers to classify rice (Oryza sativa L.) into indica and japonica. Additionally, we detected five marker-trait associations and rare alleles that can be applied in future breeding programs. Most interestingly, analysis of molecular variance (AMOVA) found genetic differentiation was related to geographical regions with an overall PhiPT (analog of fixation index FST) value of 0.130. More emphasis was given to provide signatures and infer explanations about the role of geographical isolation and environmental heterogeneity in genetic differentiation among regions in landraces from northern Vietnam. Our results suggest that rice landraces in northern Vietnam have a dynamic genetic system that can create different levels of genetic differentiation among regions, but also maintain a balanced genetic diversity between regions.

• Asian-Australasian Journal of Animal Sciences
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• v.16 no.6
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• pp.789-793
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• 2003

An investigation was conducted on 729 Hariana cows maintained at Government Livestock Farm, Hisar, from 1973 to 1999, with an objective to compare the efficiency of various selection indices for attaining desired genetic gains in the index traits. The various traits included were age at first calving (AFC), service period (SP), calving interval (CI), days to first service (DFS), number of services per conception (NSPC), lactation milk yield (LY), peak yield (PY), dry period (DP). Except for LY, PY and AFC the heritabilities of all other traits were low. Desirable associations among reproductive traits are supportive of the fact that any one of these traits incorporated in simultaneous selection is expected to cause correlated response in other traits. Production traits (LY and PY) were positively correlated, while DP had low negative genetic correlation with LY, and high genetic correlation with PY. Thus, DP can be taken as additional criteria in selection index for better over all improvement. Almost all production traits except DP had low negative correlation with AFC, SP, DFS and CI meaning that reduction in reproduction traits up to certain level may increase production performance. While, the correlation of NSPC with LY and PY was moderate positive. Among four trait indices I23: incorporating PY, AFC, SP and NSPC and among three trait indices I1: incorporating LY, AFC and SP were the best as these required least number of generations (4.87 and 1.35, respectively) to attain desired goals. Next in order of preference were PY or LY along with DP and SP as the best indices (I20 and I16) of which, index with PY may be preferred instead of LY as it produced considerably high correlated response in LY and reduction in NSPC as well.

• Korean Journal of Agricultural Science
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• v.45 no.2
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• pp.238-247
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• 2018

The overall consumption of meat is increasing as the level of national income increases. The end weight is a trait closely associated with dressed meat. Genome-wide association study (GWAS) is an effective method of analyzing genetic variation and gene identification associated with a number of natural alternative traits because it can detect variations. So this paper did a GWAS analysis to identity the location on the genome related to the end weight in purebred landrace pigs and to explore the relevant candidate gene. This study identified a significant single nucleotide poly morphism (SNP) marker in chromosome 6 (ASGA0029422, $p=1.22{\times}10^{-6}$). Adhesion G protein-coupled receptor L2 (ADGRL2) was found to be the candidate gene at the identified SNP marker location. ADGRL2 genes have been found to be associated with cell development in relation to the external and internal environment of a cell. In addition, genotype and statistical analyses were done on nine variations on the exon of ADGRL2. The results show that the SNP marker (ASGA0029422, $p=1.32{\times}10^{-6}$) was significant, but the significance of the nine variations on the ADGRL2 exon was not verified. However, by performing further experiments and functional studies on other SNPs showing possible genetic ADGRL-Exon mutations, objects with high associations of high-end weights can be selected.

• Korean Journal of Agricultural Science
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• v.49 no.3
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• pp.407-420
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• 2022

Chicken dominates meat consumption because it is low in fat and high in protein and has less or no religious and cultural barriers. Recently, meat quality traits have become the focus of the poultry industry more than ever. Currently, poultry farming is focusing on meat quality to satisfy meat consumer preferences, which are mostly based on high-quality proteins and a low proportion of saturated fatty acids. Meat quality traits are polygenic traits controlled by many genes. Thus, it is difficult to improve these traits using the conventional selection method because of their low to moderate heritability. These traits include pH, colour, drop loss, tenderness, intramuscular fat (IMF), water-holding capacity, flavour, and many others. Genome-wide association studies (GWAS) are an efficient genomic tool that identifies the genomic regions and potential candidate genes related to meat quality traits. Due to their impact on the economy, meat quality traits are used as selection criteria in breeding programs. Various genes and markers related to meat quality traits in chickens have been identified. In chickens, GWAS have been successfully done for intramuscular fat (IMF) content, ultimate pH (pHu) and meat and skin colour. Moreover, GWAS have identified 7, 4, 4 and 6 potential candidate genes for IMF, pHu, meat colour and skin colour, respectively. Therefore, the current review summarizes the significant genes identified by genome-wide association studies for meat quality traits in chickens.

• Molecules and Cells
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• v.37 no.8
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• pp.575-584
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• 2014

Potassium is a macronutrient that is crucial for healthy plant growth. Potassium availability, however, is often limited in agricultural fields and thus crop yields and quality are reduced. Therefore, improving the efficiency of potassium uptake and transport, as well as its utilization, in plants is important for agricultural sustainability. This review summarizes the current knowledge on the molecular mechanisms involved in potassium uptake and transport in plants, and the molecular response of plants to different levels of potassium availability. Based on this information, four strategies for improving potassium use efficiency in plants are proposed; 1) increased root volume, 2) increasing efficiency of potassium uptake from the soil and translocation in planta, 3) increasing mobility of potassium in soil, and 4) molecular breeding new varieties with greater potassium efficiency through marker assisted selection which will require identification and utilization of potassium associated quantitative trait loci.