• Journal of Microbiology
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• 제38권2호
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• pp.66-73
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• 2000

To investigate the genetic relationship among 12 species belonging to the Fusarium section Martiella, Dlaminia, Gibbosum, Arthrosporiella, Liseola and Elegans, the internal transcribed spacer(ITS) regions of ribosomal DNA (rDNA) were amplified with primer pITS1 and pITS4 using the polymerase chain reaction(PCR). After the amplified products were digested with 7 restriction enzymes, restriction fragment length polymorphism (RFLP) patterns were analyzed. The partial nucleotide sequences of the ITS region were determined and compared. Little variation was observed in the size of the amplified product having sizes of 550bp or 570bp. Based on the RFLP analysis, the 12 species studied were divided into 5 RFLP types. In particular, strains belonging to the section Martiella were separated into three RFLP types. Interestingly, the RFLP type of F. solani f. sp. piperis was identical with that of isolates belonging to the section Elegans. In the dendrogram derived from RFLP analysis of the ITS region, the Fusarium spp. examined were divided into two major groups. In general, section Martiella excluding F. solani f. sp. piperis showed relatively low similarity with the other section. The dendrogram based on the sequencing analysis of the ITS2 region also gave the same results as that of the RFLP analysis. As expected, 5.8S, a coding region, was highly conserved, whereas the ITS2 region was more variable and informative. The difference in the ITS2 region between the length of F. solani and its formae speciales excluding F. solani f. sp. piperis and that of other species was caused by the insertion/deletion of nucleotides in positions 143-148 and 179-192.

• Journal of Crop Science and Biotechnology
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• 제10권2호
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• pp.98-105
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• 2007

Phylogenetic relationships in Korean watermelons were evaluated by genetic similarity coefficients using 15 SSR(simple sequence repeat), 14 SCAR(sequence characterized amplified region) and 14 CAPS(sequence characterized amplified region) markers. The SSR markers were selected from previously reported melon and watermelon SSRs through testing polymorphisms within a set of commercial $F_1$ varieties. The SCAR and CAPS markers were developed from polymorphic AFLP(amplified fragment length polymorphism) markers between inbred lines 'BN4001' and 'BN4002'. From the AFLP analysis, 105 polymorphic fragments were identified between the inbred lines using 1,440 primer combinations of EcoRI+CNNN and XbaI+ANNN. Based on the sequencing data of these polymorphic fragments, we synthesized sequence specific primer pairs and detected clear and reliable polymorphisms in 27 primer pairs by indels(insertion/deletion) or RFLP(restriction fragment length polymorphism). A total of 43 sequence-based PCR markers were obtained and polymorphic information content(PIC) was analyzed to measure the informativeness of each marker in watermelon varieties. The average PIC value of SCAR markers was 0.41, which was similar to that of SSR markers. Genetic diversity was also estimated by using these markers to assess the phylogenetic relationships among commercial varieties of watermelon. These markers differentiated 26 Korean watermelon varieties into two major phylogenetic groups, but this grouping was not significantly correlated with their morphological and physiological characteristics. The mean genetic similarity was 66% within the complete set of 26 commercial varieties. In addition, these sequence-based PCR markers were reliable and useful to identify cultivars and genotypes of watermelon.

• 한국균학회지
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• 제49권1호
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• pp.33-44
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• 2021

본 연구에서는 국내에 유통되고 있는 40개 표고 품종들로부터 산백향과 설백향의 구분이 가능한 CAPS 마커를 개발하였다. 제한효소 Hha I 과 HpyCH4IV를 이용한 밴드 패턴 분석을 통해 각각 산백향과 설백향을 다른 균주들과 구분하여 구별성을 확보할 수 있었다. 본 연구에서 개발된 CAPS 마커는 표고의 품종들 간에 유전적 다양성을 부여함으로써, 품종을 보호할 수 있는 분자생물학적 근거가 될 수 있다. 이로써 향후 유전자원에 대한 국가간 분쟁을 미연에 방지할 수 있을 것이다.

• Tuberculosis and Respiratory Diseases
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• 제48권2호
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• pp.155-165
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• 2000

연구배경: Nramp1 단백은 NRAMP1 유전자에 의하여 합성되며, 이 유전자의 다형성은 결핵균에 대한 숙주의 선천적 내성을 감소시킨다. 본 연구에서는 일차 감염에 의한 결핵성 흉막염 환자에서 NRAMP1 유전자 다형성과 결핵의 일차 감염과의 관계를 고찰하였다. 방 법: 특별한 병력 없이 흉막 조직 검사를 통해 진단된 56명의 결핵성 흉막염군과 건강한 45명의 건강 대조군을 대상으로 인트론 4의 G/C 접돌연변이(469+14G/C, INT4), 543번 코돈의 aspartic acid(Asp)에서 asparagine(Asn)으로의 변이(D543N), 및 3' 비해독 영역의 TGTG 결손(1729+55del4, 3'UTR) 등의 NRAMP1 유전자 다형성의 반도를 중합효소 연쇄반응기법(PCR)과 중합효소 연쇄반응-제한효소 절단 길이 다형성(PCR-RFLP)을 이용하여 조사하였다. 결 과: 흉막염군과 건강 대조군에서의 NRAMP1 유전자 다형성의 빈도는, INT4 와 3'UTR 다형성의 경우 흉막염군에서 변이형의 빈도가 유의하게 높았으나(p=0.001, p=0.023), D543N 의 경우는 양군에서 유의한 차이가 없었다(p=0.079). 야생형과 변이형 유전자형의 교차비(odds ratio)는, INT4, 3'UTR의 경우 흉막염 환자가 변이형의 유전자형일 확률이 건강 대조군에 비해 통계적으로 유의하게 높았으나, D543N의 경우는 유의하지 않았다. INT4와 3'UTR의 결합 분석(combined analysis) 결과, 흉막염 환자가 INT4C 대립 형질을 포함할 확률과 INT4 C 대립 형질과 3'UTR del 대립 형질을 모두 포함할 확률이 통계적으로 유의하게 높았다. 결 론: 결핵성 흉막염 환자에서, 결핵 이환과 NRAMP1 유전자 다형성 중 INT4와 3'UTR과는 유의한 상관 관계가 있었으나, D543N과는 유의성이 없었으며, 흉막염 환자가 변이형 유전자형일 확률도 INT4 및 3'UTR의 경우 통계적으로 유의하게 높았으나. D543N의 경우는 높지 않았다. INT4와 3'UTR의 결합 분석결과 흉막염 환자가 INT4 C 대립 형질용 포함할 확률과 INT4 C와 3'UTR del 대립 형질을 모두 포함할 확률이 통계적으로 유의하게 높았다.

• Tuberculosis and Respiratory Diseases
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• 제46권2호
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• pp.241-250
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• 1999

연구배경: ACE 억제제는 고혈압 및 신장질환의 치료제로서, 투약 중 발생하는 건성 기침은 이 약제의 사용을 제한하는 부작용으로 알려져 있다. ACE 억제제로 인한 건성 기침의 발생 빈도는 ACE의 활성도가 낮은 사람에서 높고, 그 활성도는 ACE 유전자의 다형성과 관계가 있다는 가설이 있으나, 그간의 국내외 임상 연구들은 그에 대해 각각 상이한 보고를 하고 있다. 이에 본 연구는 국내의 ACE 억제제를 투약 받고 있는 신장 질환 환자들을 대상으로, 건성 기침의 발생 반도와 ACE의 활성도를 결정하는 유전자 다형성과의 관계를 고찰하고자 하였다. 방 법: 1998년 8월 현재, 외래에서 ACE 억제제를 투약 받고 있는 339명의 환자들을 대상으로, 투약 중 건성 기침을 호소하고, 약제 중단 후 기침이 소실된 환자들을 기침 발생군, 기침을 호소하지 않은 환자들을 기침 미발생군으로 하였다. 환자들의 병력, 투약력, 증상 등의 임상적 특성은 의무기획을 이용하여 조사하였고, ACE 유전자 다형성은 환자들의 말초 혈액에서 얻은 DNA 의 종합효소 연쇄반응기법 (PCR) 과 전기영동(electrophoresis)으로 결정하였다. 결 과: 기침 발생군은 37명으로, 빈도는 10.9% 이었고, 미발생군은 302명이었다. 양군간에 연령, 기저 질환, ACE 억제제의 종류 및 용량에 있어서 유의한 차이는 없었으나, 남녀 비는 기침 발생군에서 M : F=24.3% : 75.7%, 미발생군에서는 49.7% : 50.3%로, 기침 발생군에서 여성의 비율이 유의하게 높았다(p=0.004). ACE 유전자 다형성의 유전자형의 비는 기침발생군에서 I:I : I/D : D/D=16.2% : 18.9% : 64.9%, 미발생군에서 18.9% : 18.2% : 62.9%로 양군간에 유의한 차이가 없었으며(p= 0.926), I allele과 D allele의 비도 기침 발생군에서 I : D=25.7% : 74.3%, 미발생군에서 28.0% : 72.0%로 유의한 차이를 보이지 않았다 (p=0.676). 결 론: ACE 억제제를 사용하고 있는 환자에서, 건성 기침의 발생 빈도는 10.9%이었고, 여성에서 유의하게 높았으며, ACE 억제제에 의한 기침과 ACE 유전자 다형성과는 관련성이 없었다.

• 보존과학연구
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• 통권25호
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• pp.47-74
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• 2004

We investigated the nucleotide substitution and insertion polymorphism of the hypervariable region Ⅰ and Ⅱ in mt DNA by sequencing ancient DNA from 51 ancient bones and teeth excavated at Nuk-do and Yimdang-dong in Korea. It revealed 35 sequence types from the ancient Korean. Of these, different sequences were 34 sequences. There were 19 and 38 base substitutions in HVI and HVⅡ, respectively. Some substitutions were characteristic of East Asian populations as compared with data reported on Caucacianpopulations,16051, 16150, 16172, 16223 in region I and 73, 263 in region II were noted as polymorphic sites, respectively. These were distributed evenly along the control region, though the frequency of each site was variable. Nucleotide substitution rather than insertion and deletion was the prevalent pattern of variation. Insertion of cytosine between312 and 315 in region HVⅡ were detected up to 98% in 51 ancient bone samples. This sequence data represents a phylogenetic tree using NTI DNA Suite computer program. The phylogenetic tree showed that mt DNA sequences of Nuk-do bones were relative to west Siberian and Indonesian. The usefulness of mt DNA sequencing in ancient Korean population excavated atarchaeological sites is based on biological and historical evidence for origin and migration of ancient Korean.

• Asian-Australasian Journal of Animal Sciences
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• 제25권7호
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• pp.927-934
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• 2012

The efficiency of insertion and/or deletion (indels) polymorphisms as genetic markers was evaluated by genotyping 102 indels loci in native chicken populations from Myanmar and Indonesia as well as Red jungle fowls and Green jungle fowls from Java Island. Out of the 102 indel markers, 97 were polymorphic. The average observed and expected heterozygosities were 0.206 to 0.268 and 0.229 to 0.284 in native chicken populations and 0.003 to 0.101 and 0.012 to 0.078 in jungle fowl populations. The coefficients of genetic differentiation (Gst) of the native chicken populations from Myanmar and Indonesia were 0.041 and 0.098 respectively. The genetic variability is higher among native chicken populations than jungle fowl populations. The high Gst value was found between native chicken populations and jungle fowl populations. Neighbor-joining tree using genetic distance revealed that the native chickens from two countries were genetically close to each other and remote from Red and Green jungle fowls of Java Island.

• Asian Pacific Journal of Cancer Prevention
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• 제15권1호
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• pp.287-290
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• 2014

Objective: Genetic variation is considered to strongly impact on detoxification of carcinogens and therefore is related to cancer risk. However, findings for the null genotypes of GSTT1 and GSTM1 have not always been consistent. Therefore the present meta-analysis was conducted. Methods: We accessed the reported study at different research areas and used various databases, including PubMed and Wanfang Med Onlion from 1990 to May 1st 2013. We calculated the odds ratio (OR), 95% confidence interval (CI) and P value for oral cancer by using Review Manager 5.1 and STATE 12. Results: We found that there was no increased oral cancer risk among subjects carrying GSTM1 and GSTT1 null genotype (OR=1.35, 95%CI=0.68-2.68, P=0.39) and (OR=1.41, 95%CI=0.72-2.77, P=0.31) in the Chinese population. In contrast, in studies in India a significant correlation between GSTM1 null genotype and oral cancer was observed (OR=1.59, 95%CI=1.20-2.11, P=0.001), but not in GSTT1 (OR=1.21, 95% CI=0.84-1.74, P=0.31). Conclusion: We discovered that GSTM1 deletion polymorphism had a significant effect on the susceptibility of oral cancer in the Indian population.

• Asian Pacific Journal of Cancer Prevention
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• 제14권1호
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• pp.87-89
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• 2013

Glutathione S-transferases (GSTs) constitute a multigene family of multifunctional phase II metabolic enzymes. GSTT1, an important member of this group has a wide range of substrates including carcinogens. Total homozygous deletion or null genotype resulting in total lack of enzyme activity exists in populations for this enzyme. Since the null genotype may contribute to lower detoxification of carcinogens, this genotype is expected to increase cancer risk. The frequency of the GSTT1 null genotype is known to vary significantly among populations. However, little is known about its distribution in the hilly Kumaun region of northern India. Therefore, in this study, we determined the prevalence of the GSTT1 null polymorphism in the Kumaun popilation by conducting duplex PCR in 365 voluntary healthy individuals. The GSTT1 null genotype was detected in 18.4% of the individuals. Since GSTs play significant role in xenobiotic metabolism, the present data on GSTT1 genotype distribution should contribute in understanding genetic association with cancer risk in this understudied population.

• Journal of Crop Science and Biotechnology
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• 제10권4호
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• pp.237-242
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• 2007

Genome duplication(i.e. polyploidy) is a common phenomenon in the evolution of plants. The objective of this study was to achieve a comprehensive understanding of genome duplication for SNP discovery by Thymine/Adenine(TA) cloning for confirmation. Primer pairs were designed from 793 EST contigs expressed in the roots of a supernodulating soybean mutant and screened between 'Pureunkong' and 'Jinpumkong 2' by direct sequencing. Almost 27% of the primer sets were failed to obtain sequence data due to multiple bands on agarose gel or poor quality sequence data from a single band. TA cloning was able to identify duplicate genes and the paralogous sequences were coincident with the nonspecific peaks in direct sequencing. Our study confirmed that heterogeneous products by the co-amplification of a gene family member were the main cause of obtaining multiple bands or poor quality sequence data in direct sequencing. Counts of amplified bands on agarose gel and peaks of sequencing trace suggested that almost 27% of nonrepetitive soybean sequences were present in as many as four copies with an average of 2.33 duplications per segment. Copy numbers would be underestimated because of the presence of long intron between primer binding sites or mutation on priming site. Also, the copy numbers were not accurately estimated due to deletion or tandem duplication in the entire soybean genome.