• BMB Reports
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• 제56권10호
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• pp.569-574
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• 2023

Aberrant DNA methylation plays a pivotal role in the onset and progression of colorectal cancer (CRC), a disease with high incidence and mortality rates in Korea. Several CRC-associated diagnostic and prognostic methylation markers have been identified; however, due to a lack of comprehensive clinical and methylome data, these markers have not been validated in the Korean population. Therefore, in this study, we aimed to obtain the CRC methylation profile using 172 tumors and 128 adjacent normal colon tissues of Korean patients with CRC. Based on the comparative methylome analysis, we found that hypermethylated positions in the tumor were predominantly concentrated in CpG islands and promoter regions, whereas hypomethylated positions were largely found in the open-sea region, notably distant from the CpG islands. In addition, we stratified patients by applying the CpG island methylator phenotype (CIMP) to the tumor methylome data. This stratification validated previous clinicopathological implications, as tumors with high CIMP signatures were significantly correlated with the proximal colon, higher prevalence of microsatellite instability status, and MLH1 promoter methylation. In conclusion, our extensive methylome analysis and the accompanying dataset offers valuable insights into the utilization of CRC-associated methylation markers in Korean patients, potentially improving CRC diagnosis and prognosis. Furthermore, this study serves as a solid foundation for further investigations into personalized and ethnicity-specific CRC treatments.

• Clinical and Experimental Pediatrics
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• 제51권3호
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• pp.315-322
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• 2008

목 적 : PWS의 두 가지 대표적 유전형인 미세결실형과 mUPD (15)형에서, 유전형에 따른 표현형의 차이와 성장 호르몬 투여 효과의 차이를 비교해 보고자 하였다. 방 법 : 1990년 1월부터 2007년 1월까지 서울아산병원에서 15번 염색체의 미세 결실에 대한 FISH 검사 및 메틸화-특이 PCR 검사를 통해 PWS로 확진된 53명의 환자를 대상으로 하였다. 출생시 부모의 연령, 출생 체중, PWS의 주요 표현형인 신생아 시기의 저긴장증, 수유 문제, 남아의 경우 잠복 고환, 발달 지연 및 정신 지체, 저신장, 저색소증, 사시, 척추측만증 등의 유무, 성장 호르몬 치료 전과 치료 후의 신장, 체중, 체질량 지수의 변화를 조사하였고 미세결실형 군과 mUPD(15)형 군으로 나누어 유전형에 따른 차이를 분석하였다. 결 과 : 유전학적 검사상 53명의 대상 환아 모두 미세결실형 또는 mUPD(15)형으로 진단되었으며, 미세결실형은 39명, mUPD (15)형은 14명이었다. 평균 진단 연령은 $4.51{\pm}5.19$세였다. 출생 당시 부모의 연령은 mUPD(15)형 군에서 유의하게 높았으며(P=0.0001), 저색소증(P=0.0001)과 신생아기의 수유 부전(P=0.049)은 미세결실형에서 유의하게 많았으나, 그 외의 조사된 표현형에서는 두 군 간에 통계적으로 의미 있는 차이는 없었다. 성장 호르몬은 20명의 환아[미세결실형 14명, mUPD(15)형 6명]에게 평균 $27.9{\pm}11.9$개월 동안 투여되었다. 두 유전형 간에 성장 호르몬 치료 전 및 치료 후의 신장 SDS, 체중 SDS, 체질량지수, IGF-1, IGFBP3, 신장 증가 속도, 체중 증가 속도의 값에는 의미 있는 차이가 없었다. 결 론 : PWS의 주요한 두 유전형의 비교에서, 부모의 연령은 mUPD(15)형에서 의미 있게 높았으며 신생아기 수유 부전과 저색소증은 결실형에서 의미 있게 많았다. 성장 호르몬의 치료 효과에서는 두 유전형 간에 의미 있는 반응의 차이는 없었다. 향후 두 유전자형과 다른 표현형들(예를 들면 행동, 발달, 지능 등) 과의 연관성에 관한 전향적 연구가 더 필요할 것으로 생각된다.

• BMB Reports
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• 제52권1호
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• pp.56-63
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• 2019

Aging is a complex and progressive process characterized by physiological and functional decline with time that increases susceptibility to diseases. Aged-related functional change is accompanied by a low-grade, unresolved chronic inflammation as a major underlying mechanism. In order to explain aging in the context of chronic inflammation, a new integrative concept on age-related chronic inflammation is necessary that encompasses much broader and wider characteristics of cells, tissues, organs, systems, and interactions between immune and non-immune cells, metabolic and non-metabolic organs. We have previously proposed a novel concept of senescent (seno)-inflammation and provided its frameworks. This review summarizes senoinflammation concept and additionally elaborates modulation of senoinflammation by calorie restriction (CR). Based on aging and CR studies and systems-biological analysis of Omics big data, we observed that senescence associated secretory phenotype (SASP) primarily composed of cytokines and chemokines was notably upregulated during aging whereas CR suppressed them. This result further strengthens the novel concept of senoinflammation in aging process. Collectively, such evidence of senoinflammation and modulatory role of CR provide insights into aging mechanism and potential interventions, thereby promoting healthy longevity.

• 농업과학연구
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• 제49권3호
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• pp.431-440
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• 2022

Hanwoo cattle are a unique and historical breed in Korea that have been genetically improved and maintained by the national evaluation and selection system. The aim of this study was to provide information that can help improve the accuracy of the estimated breeding values in Hanwoo cattle by showing the difference between the imputation reference chip platforms of genomic data and the scaling factor of the genetic relationship matrix (GRM). In this study, nine sets of data were compared that consisted of 3 reference platforms each with 3 different scaling factors (-0.5, 0 and 0.5). The evaluation was performed using MTG2.0 with nine different GRMs for the same number of genotyped animals, pedigree, and phenotype data. A five multi-trait model was used for the evaluation in this study which is the same model used in the national evaluation system. Our results show that the Hanwoo custom v1 platform is the best option for all traits, providing a mean accuracy improvement by 0.1 - 0.3%. In the case of the scaling factor, regardless of the imputation chip platform, a setting of -1 resulted in a better accuracy increased by 0.5 to 1.6% compared to the other scaling factors. In conclusion, this study revealed that Hanwoo custom v1 used as the imputation reference chip platform and a scaling factor of -0.5 can improve the accuracy of the estimated breeding value in the Hanwoo population. This information could help to improve the current evaluation system.

• Journal of Microbiology and Biotechnology
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• 제8권5호
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• pp.490-496
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• 1998

Random amplified polymorphic DNA (RAPD) markers were used to survey genetic variability among 34 Botrytis cinerea isolates from nine different host plants in Korea. For RAPD analysis, 115 arbitrary decamer primers were initially screened for polymorphic major DNA bands with 11 representative B. cinerea isolates. Eleven primers that initially detected polymorphisms were tested a second time with additional 23 isolates of B. cinerea as well as one isolate of Botrytis squamosa as an outgroup. The RAPD analyses revealed that all isolates except one showed different molecular phenotypes. Dendrograms obtained from dissimilarity matrices using the unweighted paired group method of arithmetic means (UPGMA) showed the 36.4% to 90.0% similarity among all B. cinerea isolates. The B. squamosa isolate showed the least similarity to all B. cinerea isolates. The cluster analyses indicated no correlation among all the characteristics examined including molecular phenotypes, host and geographic origins, year of isolation, or pathogenicity. The RAPD data suggest that a high level of genetic variation exists among Korean populations of B. cinerea and it seems to be caused by heterokaryosis among preexisting molecular phenotypes.

• Molecules and Cells
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• 제39권11호
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• pp.827-833
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• 2016

Regulator of calcineurin 1 (RCAN1) binds to calcineurin through the PxIxIT motif, which is evolutionarily conserved. SP repeat phosphorylation in RCAN1 is required for its complete function. The specific interaction between RCAN1 and calcineurin is critical for calcium/calmodulin-dependent regulation of calcineurin serine/threonine phosphatase activity. In this study, we investigated two available deletion rcan-1 mutants in Caenorhabditis elegans, which proceed differently for transcription and translation. We found that rcan-1 may be required for calcineurin activity and possess calcineurin-independent function in body growth and egg-laying behavior. In the genetic background of enhanced calcineurin activity, the rcan-1 mutant expressing a truncated RCAN-1 which retains the calcineurin-binding PxIxIT motif but misses SP repeats stimulated growth, while rcan-1 lack mutant resulted in hyperactive egg-laying suppression. These data suggest rcan-1 has unknown functions independent of calcineurin, and may be a stimulatory calcineurin regulator under certain circumstances.

• Asian Pacific Journal of Cancer Prevention
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• 제16권5호
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• pp.2009-2011
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• 2015

Objective: Glutathione S-transferase M 1 (GSTM1) is implicated as a risk factor for prostate cancer. However, this issue is not clear in Chinese population. This systemic analysis was conducted to evaluate the effect of GSTM1 null genotypes on prostate cancer risk in Chinese. Methods: Published studies investigating the associations between GSTM1 null genotypes and the risk of prostate cancer in China were identified by using a predefined search strategy. Main statisticals were pooled and estimated according to the primarily reported data. Results: The prevalence of the GSTM1 null genotype was higher in prostate cancer patients than in controls, with significance. Conclusion: The GSTM1 null genotypes is associated with increased risk of prostate cancer in Chinese.

• Genomics & Informatics
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• 제12권3호
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• pp.121-126
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• 2014

Medication adherence is generally defined as the extent of voluntary cooperation of a patient in taking medicine as prescribed. Adherence to long-term treatment with chronic disease is essential for reducing disease comorbidity and mortality. However, medication non-adherence in chronic disease averages 50%. This study was conducted a genome-wide association study to identify the genetic basis of medication adherence. A total of 235 medication non-adherents and 1,067 medication adherents with hypertension or diabetes were used from the Korean Association Resource project data according to the self-reported treatment status of each chronic disease, respectively. We identified four single nucleotide polymorphisms with suggestive genome-wide association. The most significant single nucleotide polymorphism was rs6978712 (chromosome 7, $p=4.87{\times}10^{-7}$), which is located proximal to the GCC1 gene, which was previously implicated in decision-making capability in drug abusers. Two suggestive single nucleotide polymorphisms were in strong linkage disequilibrium ($r^2$ > 0.8) with rs6978712. Thus, in the aspect of decision-making in adherence behavior, the association between medication adherence and three loci proximal to the GCC1 gene seems worthy of further research. However, to overcome a few limitations in this study, defining the standardized phenotype criteria for self-reported adherence should be performed before replicating association studies.

• Interdisciplinary Bio Central
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• 제3권1호
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• pp.4.1-4.7
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• 2011

Forty-seven wild accessions of Lotus japonicus Regal (Japanese trefoil) indigenous to Japan were investigated for nine morphological characters. Average temperature and annual precipitation were negatively correlated with stem color and seed weight. On the other hand, latitude was positively correlated with these traits. Consequently, accessions from sites at higher latitudes with low temperatures and precipitation tend to have dark red stems and heavy seeds. Cluster analysis based on nine morphological characters classified 47 wild accessions into six major groups. Cluster I included four accessions of tall and erect plants. These plants are phenotypically similar to commercial variety 'Empire'. Cluster II consisted of three accessions of creep plants with pale red stems. Cluster III contained 24 accessions that had average values for all morphological characters evaluated. Cluster IV included two accessions of erect plants with rounded leaflets and dark red stems. Cluster V included four accessions of small, creep plants with pale red stems. Cluster VI included seven accessions of small and erect plants, a phenotype that also applies to ?Gifu B-129?, which is used as experimental strain worldwide. These data were deposited into LegumeBase, an online database (http://www.legumebase.brc.miyazaki-u.ac.jp/) supported by the National BioResource Project (NBRP) in Japan.

• 대한구순구개열학회지
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• 제10권2호
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• pp.81-88
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• 2007

Cleft lip and palate (CLP) is one of the most prevalent congenital craniofacial anomalies. It has a significantly greater incidence of dental abnormalities in number, size, shape, and eruption of the teeth. Knout-out mouse model can identify several genes which play an important role in tooth agenesis. Since disruption of these genes has been confirmed to result in tooth agenesis in humans, CLP associated with hypodontia may be the best models for isolated tooth agenesis. According to the studies of dental abnormalities in CLP, the severity of dental defect is known to be influenced by the CLP phenotype. The cumulative data obtained from mouse and human genetic studies indicated that MSX1, PAX9 and AXIN2 are considered as candidate genes in non-syndromic hypodontia, while Shh, Pitx2, Irf6, p63 and EDA pathway genes are involved in syndromic one. We expect that genetic approach of CLP can offer the basis for tooth regeneration and be a new target in hypodontia therapy.