• 미생물학회지
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• 제39권3호
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• pp.123-127
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• 2003

Sphingomonas chungbuken교 DJ77은 phenanthrene을 단일 탄소원과 에너지원으로 이용하여 살아갈 수 있다. pUPXS는 phenanthrene과 naphthalene분해를 위해 필요한 2-hydroxychromene-2-carboxylate (HCCA) isomerase를 암호화하는phnS유전자를 포함한다. 본 논문에서는 phnS유전자가 포함된 3271 bp의 염기 서열을 결정하였다. 이 유전자는 ATG를 개시코돈으로 사용하며, TAA를 종결 코돈으로 사용하고 있다. 또한 개시 코돈의 5 bp앞쪽으로 GGAA라는 ribosomal binding site를 갖는다. phnS는 총 594 bP의 open reading frame을 포함하며,158개의 아미노산으로 구성되었다. phns를 구성하는 아미노산서열은 S. aromaticivorans F199의 유사서열과 87％의 유사성을 나타냈다. phns 유전자는 biphenyl dioxygenase를 구성하는 2,3-dihydroxybiphenyl 1,2-dioxygenase를 암호화하는 phnQ와 ferredoxin를 암호화 하는 phnR과 같은 operon을 이루며, 이들 유전자의 downstream에 위치하고 있다.

• Investigative and Clinical Urology
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• 제59권6호
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• pp.371-375
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• 2018

Purpose: To compare patients with sepsis due to obstructive urolithiasis (Sep-OU) and underwent drainage by percutaneous nephrostomy (PCN) or a double-J (DJ)-ureteral stent and to identify predictive risk factors of DJ stent failure in these patients. Materials and Methods: We reviewed our records from January 2013 to July 2018 and identified 286 adult patients with Sep-OU out of which 36 had bilateral involvement, thus total 322 renal units were studied. Urologic residents in training carried out both ureteral stenting and PCN tube placement. Demographic data and stone characteristics were recorded along with Charlson comorbidity index. For predicting risk factors of DJ stent failure, those variables that had a p-value <0.1 in univariate analysis were combined in a multinomial regression analysis model. Results: The patients with PCN placement were significantly older than those with DJ stent placement (p=0.001) and also had significant number of units with multiple calculi (p=0.018). PCN was also placed more frequently in those patients with a upper ureteric calculi (p<0.05). On multinomial regression analysis multiple calculi (p=0.014; odds ratio [OR], 4.878; 95% confidence interval [CI], 1.377-17.276) and larger calculi size (p=0.040; OR, 0.974; 95% CI, 0.950-0.999) were the significant predictors of DJ stent failure. Conclusions: In patients with sepsis from obstructive urolithiasis due to larger and multiple calculi a PCN placement might be better suited although this data requires further prospective randomized studies to be extrapolated.

• BMB Reports
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• 제42권3호
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• pp.172-177
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• 2009

Phosphoglucose isomerase (PGI) is involved in synthesizing extracellular polysaccharide (EPS). The gene encoding PGI in Sphingomonas chungbukensis DJ77 was cloned and expressed in E. coli, and the protein was characterized. The pgi gene from DJ77 is 1,503 nucleotides long with 62% GC content and the deduced amino acid sequence shows strong homology with PGIs from other sources. The molecular masses of PGI subunit and native form were estimated to be 50 kDa and 97 kDa, respectively. Four potentially important residues (H361, R245, E330 and K472) were identified by homology modeling. The mutations, H361A, R245A, E330A, R245K and E330D resulted in decrease in Vmax by hundreds fold, however no significant change in Km was observed. These data suggest that the three residues (H361, R245Aand E330) are likely located in the active site and the size as well as the spatial position of side chains of R245 and E330 are crucial for catalysis.

• Archives of Pharmacal Research
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• 제23권2호
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• pp.187-195
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• 2000

Nucleotide sequence extending 2,3-dihydroxybiphenyl 1,2-dioxygenase gene (pcbC) and 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase gene (pcbD) of Pseudomonas sp. DJ-12 was previously analyzed and the two genes were present in the order of pcbD-pcbC preceded by a promoter from Pseudomonas sp. DJ-12. In this study, a 3.8-kb nucleotide sequence located downstream of the pcbC gene was analyzed to have three open reading frames (ORFs) that are designated as orf1, pcbE and orf2 genes. All of the ORFs were preceded by each ribosome-binding sequence of 5-GGAXA-3 (X=G or A). However, no promoter-like sequence and transcription terminator sequence were found in the analyzed region, downstream of pcbC gene. Therefore, the gene cluster appeared to be present in the order of pcbD-pcbC-orf1-pcbE-orf2 as an operon, which is unique organization characterized so far in biphenyl- and PCB-degrading bacteria. The orf1 gene was composed of 1,224 base pairs which can encode a polypeptide of molecular weight 44,950 containing 405 amino acid residues. A deduced amino acid sequence of the orf1 gene product exhibited 21-33％ identity with those of indole dioxygenase and phenol hydroxylase components. The pcbE gene was composed of 783 base pairs encoding 2-hydroxypenta-2,4-dienoate hydratase involved in the 4-chlorobiphenyl catabolism. The orf2 gene was composed of 1,017 base pairs encoding a polypeptide of molecular weight 37,378 containing 338 amino acid residues. A deduced amino acid sequence of the orf2 gene product exhibited 31％ identity with that of a nitrilotriacetate monooxygenase component.

• Biotechnology and Bioprocess Engineering:BBE
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• 제6권1호
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• pp.56-60
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• 2001

The pcbC gene encoding (4-chloro-)2,3-dihydroxybiphenyl dioxygenase was cloned from the genomic DNA of Pseudomonas sp. P20 using pKT230 to construct pKK1. A recombinant strain, E. coli KK1, was selected by transforming the pKK1 into E. coli XL1-Blue. Another recombinant strain, Pseudomonas sp. DJP-120, was obtained by transferring the pKK1 of E. coli KK1 into Pseudomonas sp. DJ-12 by conjugation. Both recombinant strains showed a 23.7 to 26.5 fold increase in the degradation activity to 2,3-dihydroxybiphenyl compared with that of the natural isolate, Pseudomonas sp. DJ-12. The DJP-120 strain showed 24.5, 3.5, and 4.8 fold higher degradation activities to 4-chlorobiphenyl, catechol, and 3-methylcatechol than DJ-12 strain, respectively. The pKK1 plasmid of both strains and their ability to degrade 2,3-dihydroxybiphenyl were stable even after about 1,200 generations.

• 한국미생물·생명공학회지
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• 제25권4호
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• pp.367-373
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• 1997

One of the three components of the phenanthrene dioxygenase which is required for conversion of phenanthrene to cis-phenanthrene dihydrodiol, Rieske-type ferredoxin encoded by phnR has been cloned and sequenced from Pseudomonas sp. strain DJ77. The gene phnR is positioned at the downstream of phnQ encoding 2,3-dihydroxybiphenyl 1,2-dioxygenase. The PhnR ferredoxin contains 108 amino acids with a Mr of 11,355. The deduced amino acid sequence of the PhnR ferredoxin is 35-79% identical to those of homologous ferredoxins encoded by various genes.

• Journal of Microbiology
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• 제39권4호
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• pp.334-337
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• 2001

The degradative pathway of homoprotocatechuate (HPC) is the bacterial routhe wherby 3,4-dihydrox-yphenylactic acid is catabolized to pyruvate and succinate by a series of sequential reactions . The HPC is catalzed by homoprotocatechuate 2, 3-dioxygenase(HPC-2,3O) to from 5-carboxymethy1-2-hydroxy-muco semialdehyde. In this study, the hha D gene encoding. HPC, 2, 3O was Cloned from the chromo-somal DNA of Pseudomonas sp. DJ-12 and its nucleotide sequence was analyzed. The open reding frame of hpaD gene was found to be composed of 864 nucleotide pairs and to encode a poypetide with 287 amino acide residues. The deduced amino acid sequence of the HPC-2,3O from Pseudomonas. sp. DJ-12 exhibited 60~64% homology with those of the corresponding enzymes from E. coli. Salmonella enterica, and Klebsiella pneumoniae.

• 미생물학회지
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• 제41권1호
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• pp.8-12
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• 2005

S. chungbukensis DJ77의 genome project수행 결과 다당류 생 합성 에 관련된 유전자들의 염기서열을 찾아내었다. 본 논문에서는 이러한 유전자들 중 sphigan형 다당류 생합성에 관여하는 glucosyl-isoprenyl phosphate-transferase를 암호화 하는 유전자의 완전한 서열을 결정하였고, spsB로 명명하였다. 이 유전자는 ATG를 개시코돈으로 사용하며, TGA를 종결코돈으로 사용하고 있다. 또한 총 1392 bp의 open reading frame을 포함하며, 463개의 아미노산으로 구성되어있다. SpsB를 구성하는 아미노산 서열은 동일한 속의 sphingan 형성 균주인 Sphingomonas spp S88의 SpsB와 $50\%$, Sphingomonas paucimobilis ATCC 31461의 GelB와 $48\%$의 유사성을 나타내었다.

• Nutrition Research and Practice
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• 제9권3호
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• pp.235-241
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• 2015

BACKGROUND/OBJECTIVES: Doenjang, Korean traditional fermented soybean paste has been reported to have an anti-obesity effect. Because adipose tissue is considered a major source of inflammatory signals, we investigated the protective effects of Doenjang and steamed soybean on oxidative stress and inflammation in adipose tissue of diet-induced obese mice. MATERIALS/METHODS: Male C57BL/6J mice were fed a low fat diet (LF), a high-fat diet (HF), or a high-fat containing Doenjang diet (DJ) or a high-fat containing steamed soybean diet (SS) for 11 weeks. RESULTS: Mice fed a DJ diet showed significantly lower body and adipose tissue weights than those in the HF group. Although no significant differences in adipocyte size and number were observed among the HF diet-fed groups, consumption of Doenjang alleviated the incidence of crown-like structures in adipose tissue. Consistently, we observed significantly reduced mRNA levels of oxidative stress markers (heme oxygenase-1 and $p40^{phox}$), pro-inflammatory adipokines (tumor necrosis factor alpha and macrophage chemoattractant protein-1), macrophage markers (CD68 and CD11c), and a fibrosis marker (transforming growth factor beta 1) by Doenjang consumption. Gene expression of anti-inflammatory adipokine, adiponectin was significantly induced in the DJ group and the SS group compared to the HF group. The anti-oxidative stress and anti-inflammatory effects observed in mice fed an SS diet were not as effective as those in mice fed a DJ diet, suggesting that the bioactive compounds produced during fermentation and aging may be involved in the observed health-beneficial effects of Doenjang. CONCLUSIONS: Doenjang alleviated oxidative stress and restored the dysregulated expression of adipokine genes caused by excess adiposity. Therefore, Doenjang may ameliorate systemic inflammation and oxidative stress in obesity via inhibition of inflammatory signals of adipose tissue.

• 한국지하수토양환경학회지:지하수토양환경
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• 제18권4호
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• pp.19-31
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• 2013

To figure out the decay characteristics of naturally occurring radionuclides, eight sampled groundwaters from a monitoring borehole having high levels of uranium and radon concentrations in a two mica granitic area have analyzed by liquid scintillation counters (LSC) for over 1 year. In December 2011, three groundwater samples (DJ1, DJ2, DJ3) were obtained from each aquifer system located at -20 m, -40 m, -60 m of the monitoring borehole below the ground surface, respectively. Five samples (DJ4, DJ5, DJ6, DJ7, DJ8) were additionally gained from each aquifer positioned -20 m, -40 m, -60 m, -100 m, -105 m of the borehole in February 2012, respectively. Temporal variation characteristics of uranium and radon concentrations have showed over maximum 2.1 times and 1.4 times fluctuations of the values in the same sampling intervals over time, respectively. The intervals of -40 m and -105 m in the borehole have the highest values of uranium and radon concentrations, respectively. This may imply that the concentrations of naturally occurring radionuclides such as uranium and radon in groundwater have been changed over time and indicate that the qualities of groundwaters from the aquifers developed at each interval in the borehole are different each other. This discrepancy, moreover, could be caused by behaviour differences between uranium which is in ionic status having a half life of 4.6 billion years and is transported along with the flowing groundwater, and radon which is in gaseous status having a 3.82 day's half life in the aquifer systems. Physicochemical characteristics of groundwaters from the aquifer systems could be identified by the results of the on-situ measuring items such as pH and Eh, and the major ionic contents. The CPM values of eight groundwater samples analysed by LSC over one year have shown not to follow the theoretical decay curve of the radon. The CPM values of the samples have ranged from 2 to 7.5 after it had passed two months when the theoretical CPM values of the radon started zero since the initial analysis. Alpha and beta particle spectrums have shown the peaks of radium-226, however they have not revealed any peaks of radon and it's daughter products such as polonium-218 and 214, bismuth-214 for the late stage of the analysis. This implies that the groundwater from the borehole may contain radium-226 having a half life of 1,600 years which decays continuously.