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Identification of Wiener Model with Discontinuous Nonlinearities using Differential Evolution
Dong-Li Zhang,Ying-Gan Tang,Ju-Hai Ma,Xin-Ping Guan 제어·로봇·시스템학회 2013 International Journal of Control, Automation, and Vol.11 No.3
This paper deals with the identification of Wiener models with discontinuous nonlinearities. The identification of the Wiener model is formulated as an optimization problem. Differential evolution algorithm, a powerful and robust evolutionary algorithm, is used to search the optimal parameter of the Wiener model such that the error between the output of true model and that of the identified model is minimized. The proposed method can identify the parameters of linear dynamic subsystems and static nonlinear function of the Wiener model simultaneously, and overcome the difficulty of un-availability of the intermediated signal. Two application examples verify that the proposed method can accurately estimate the parameters of the Wiener model even in a low SNR environment.
Pan Ying-Hua,Nong Bao-Xuan,Chen Lei,Yang Xing-Hai,Xia Xiu-Zhong,Zhang Zong-Qiong,Qing Dong-Jin,Gao Ju,Huang Cheng-Cui,Li Dan-Ting,Deng Guo-Fu 한국유전학회 2023 Genes & Genomics Vol.45 No.7
Background Cold damage stress significantly affects rice growth (germination and seedling) and causes serious losses in yield in temperate and high-altitude areas around the globe. Objective This study aimed to explore the cold tolerance (CT) locus of rice and create new cold-tolerant germplasm. We constructed a chromosome segment substitution line (CSSL) with strong CT and fine mapped quantitative trait loci (QTLs) associated with CT by performing the whole-genome resequencing of CSSL with phenotypes under cold treatment. Methods A chromosome CSSL, including 271 lines from a cross between the cold-tolerant wild rice Y11 (Oryza rufipogon Griff.) and the cold-sensitive rice variety GH998, was developed to map QTLs conferring CT at the germination stage. The whole-genome resequencing was performed on CSSL for mapping QTLs of associated with CT at the germination stage. Results A high-density linkage map of the CSSLs was developed using the whole-genome resequencing of 1484 bins. The QTL analysis using 615,466 single-nucleotide polymorphisms (SNPs) led to the identification of 2 QTLs related to germination rate at low-temperature on chromosome 8 (qCTG-8) and chromosome 11 (qCTG-11). The qCTG-8 and qCTG-11 explained 14.55% and 14.31% of the total phenotypic variation, respectively. We narrowed down qCTG-8 and qCTG-11 to 195.5 and 78.83-kb regions, respectively. The expression patterns of important candidate genes in different tissues, and of RNA-sequencing (RNA-seq) in CSSLs, were identified based on gene sequences in qCTG-8 and qCTG-11 cold-induced expression analysis. LOC_Os08g01120 and LOC_Os08g01390 were identified as candidate genes in qCTG-8, and LOC_Os11g32880 was identified as a candidate gene in qCTG-11. Conclusions This study demonstrated a general method that could be used to identify useful loci and genes in wild rice and aid in the future cloning of candidate genes of qCTG-8 and qCTG-11. The CSSLs with strong CT were supported for breeding cold-tolerant rice varieties.
Bioconversion of Ginsenoside Rb1 to Compound K using Leuconostoc lactis DC201
Piao, Jin-Ying,Kim, Yeon-Ju,Quan, Lin-Hu,Yang, Dong-Uk,Min, Jin-Woo,Son, Seon-Heui,Kim, Sang-Mok,Yang, Deok-Chun The Plant Resources Society of Korea 2011 한국자원식물학회지 Vol.24 No.6
Ginseng (Panax ginseng) is frequently used in Asian countries as a traditional medicine. The major components of ginseng are ginsenosides. Among these, ginsenoside compound K has been reported to prevent the formation of malignancy and metastasis of cancer by blocking the formation of tumor and suppressing the invasion of cancer cells. In this study, ginsenoside $Rb_1$ was converted into compound K, via secreted ${\beta}$-glucosidase enzyme from the Leuconostoc lactis DC201 isolated, which was extracted from Kimchi. The strain DC201 was suspended and cultured in MRS broth at $37^{\circ}C$. Subsequently, the residue from the cultured broth supernatant was precipitated with EtOH and then dissolved in 20 mM sodium phosphate buffer (pH 6.0) to obtain an enzyme liquid. Meanwhile, the crude enzyme solution was mixed with ginsenoside $Rb_1$ at a ratio of 1:4 (v/v).The reaction was carried out at $30^{\circ}C$ and 190 rpm for 72 hours, and then analyzed by TLC and HPLC. The result showed that ginsenoside Rb1 was transformed into compound K after 72 hours post reaction.
( Xin Liu ),( Ying Dong ),( Jingquan Wang ),( Long Li ),( Zhenmin-zhong ),( Yun-pan Li ),( Shao-jun Chen ),( Yu-cai Fu ),( Wen-can Xu ),( Chi-ju Wei ) 한국미생물생명공학회(구 한국산업미생물학회) 2017 Journal of microbiology and biotechnology Vol.27 No.6
Vesicular stomatitis virus G glycoprotein (VSV-G) has been widely used for pseudotyping retroviral, lentiviral, and artificial viral vectors. The objective of this study was to establish a potential approach for large-scale production of VSV-G. To this end, VSV-G was cloned with an N-terminal His-tag into Pichia pastoris expression vector pPIC3.5K. Three clones (Mut<sup>s</sup>) containing the VSV-G expression cassette were identified by PCR. All clones proliferated normally in expansion medium, whereas the proliferation was reduced significantly under induction conditions. VSV-G protein was detected in cell lysates by western blot analysis, and the highest expression level was observed at 96 h post induction. VSV-G could also be obtained from the condition medium of yeast protoplasts. Furthermore, VSV-G could be incorporated into Ad293 cells and was able to induce cell fusion, leading to the transfer of cytoplasmic protein. Finally, VSV-G-mediated DNA transfection was assayed by flow cytometry and luciferase measurement. Incubation of VSV-G lysate with the pGL3-control DNA complex increased the luciferase activity in Ad293 and HeLa cells by about 3-fold. Likewise, incubation of VSV-G lysate with the pCMV-DsRed DNA complex improved the transfection efficiency into Ad293 by 10% and into HeLa cells by about 1-fold. In conclusion, these results demonstrate that VSV-G could be produced from P. pastoris with biofunctionalities, demonstrating that large-scale production of the viral glycoprotein is feasible.
Zhang, Li-Ying,Yuan, You-Qing,Zhou, Dong-Ming,Wang, Zi-Yan,Ju, Song-Guang,Sun, Yu,Li, Jun,Fu, Jin-Xiang Asian Pacific Journal of Cancer Prevention 2016 Asian Pacific journal of cancer prevention Vol.17 No.1
In this investigation, global DNA methylation patterns and the specific methylation status of 5 genes were studied in DNA from peripheral blood (PB) and impact on progression free survival (PFS) and overall-survival (OS) in patients with de novo or relapsed acute myeloid leukemia (AML) treated with decitabine-based regimens waas assessed. DNA was isolated from PB samples at the time of -1, 1, and 7 days of chemotherapy. Global methylation was determined by ELISA, and the CpG island DNA methylation profile of 5 genes using a DNA methylation PCR system. Our data demonstrated that patients with a high level of 5-mC had a poor prognosis after demethylation therapy and those who have low levels of 5-mC in PB achieved higher CR and better SO, but there was no significant correlation found between the 5-mC levels and other clinical features before treatment except the disease status. Higher methylation status of Sox2 and Oct4 genes was associated with differential response to demethylation therapy. A relatively low methylation percentage in one or both of these two genes was also associated with longer OS after decitabine based chemotherapy. We also suggest that global DNA and Oct-4/Sox2 methylation might impact on the pathogenesis of leukemia and play an important role in the initiation and progression. Moreover, dynamic analysis of 5-mC and Oct-4/Sox2 in peripheral blood nucleated cells of leukemia patients may provide clues to important molecular diagnostic and prognostic targets.
Ha, Sun-Hwa,Liang, Ying Shi,Jung, Harin,Ahn, Mi-Jeong,Suh, Seok-Cheol,Kweon, Soon-Jong,Kim, Dong-Hern,Kim, Young-Mi,Kim, Ju-Kon Blackwell Publishing Ltd 2010 PLANT BIOTECHNOLOGY JOURNAL Vol.8 No.8
<P>Summary</P><P>Coordination of multiple transgenes is essential for metabolic engineering of biosynthetic pathways. Here, we report the utilization of two bicistronic systems involving the 2A sequence from the foot-and-mouth disease virus and the internal ribosome entry site (IRES) sequence from the crucifer-infecting tobamovirus to the biosynthesis of carotenoids in rice endosperm. Two carotenoid biosynthetic genes, phytoene synthase (<I>Psy</I>) from <I>Capsicum</I> and carotene desaturase (<I>CrtI</I>) from <I>Pantoea,</I> were linked via either the synthetic 2A sequence that was optimized for rice codons or the IRES sequence under control of the rice globulin promoter, generating <I>PAC</I> (<I><U>P</U>sy-2<U>A</U>-<U>C</U>rtI</I>) and <I>PIC</I> (<I><U>P</U>sy-<U>I</U>RES-<U>C</U>rtI</I>) constructs, respectively. The transgenic endosperm of <I>PAC</I> rice had a more intense golden color than did <I>PIC</I> rice, demonstrating that 2A was more efficient than IRES in coordinating gene expression. The 2A and IRES constructs were equally effective in driving transgene transcription. However, immunoblot analysis of CRTI, a protein encoded by the downstream open reading frame of the bicistronic constructs, revealed that 2A was ninefold more effective than IRES in driving translation. The <I>PAC</I> endosperms accumulated an average of 1.3 &mgr;g/g of total carotenoids, which was ninefold higher than was observed for <I>PIC</I> endosperms. In particular, accumulation of &bgr;-carotene was much higher in <I>PAC</I> endosperms than in <I>PIC</I> endosperms. Collectively, these results demonstrate that both 2A and IRES systems can coordinate the expression of two biosynthetic genes, with the 2A system exhibiting greater efficiency. Thus, the 2A expression system described herein is an effective new tool for multigene stacking in crop biotechnology.</P>
Jiang, Xiao-Ting,Ma, Ying-Yu,Guo, Kun,Xia, Ying-Jie,Wang, Hui-Ju,Li, Li,He, Xu-Jun,Huang, Dong-Sheng,Tao, Hou-Quan Asian Pacific Journal of Cancer Prevention 2014 Asian Pacific journal of cancer prevention Vol.15 No.21
Background: This study aimed to summarize the potential diagnostic value of serum DKK1 levels in cancer detection. Materials and Methods: Serum DKK1 was measured using enzyme-linked immunosorbent assay in a case-control study. Then we performed a meta-analysis and the pooled sensitivity, specificity, diagnostic odds ratio, and summary receiver operating characteristic (sROC) curves were used to evaluate the overall test performance. Results: Serum DKK1 levels were found to be significantly upregulated in gastric cancer as compared to controls. ROC curve analysis revealed an AUC of 0.636, indicating the test has the potential to diagnose cancer with poor accuracy. The summary estimates of the pooled sensitivity, specificity and diagnostic odds ratio in meta-analysis were 0.55 with a 95% confidence interval (CI) (0.53-0.57), 0.86 (95%CI, 0.84-0.88) and 12.25 (95%CI, 5.31-28.28), respectively. The area under the sROC was 0.85. Subgroup analysis revealed that the diagnostic accuracy of serum DKK1 in lung cancer (sensitivity: 0.69 with 95%CI, 0.66-0.74; specificity: 0.95 with 95%CI, 0.92-0.97; diagnostic odds ratio: 44.93 with 95%CI, 26.19-77.08) was significantly higher than for any other cancer. Conclusions: Serum DKK1 might be useful as a noninvasive method for confirmation of cancer diagnosis, particularly in the case of lung cancer.
감염증에서 위점막의 Toll-like Receptor 4 발현
박준용 ( Joon Yong Park ),한동수 ( Dong Soo Han ),김보현 ( Bo Hyun Kim ),강은경 ( Eun Kyung Kang ),이영춘 ( Ying Chun Li ),이항락 ( Hang Lak Lee ),김진배 ( Jin Bae Kim ),손주현 ( Joo Hyun Sohn ),최호순 ( Ho Soon Choi ),강정옥 ( Ju 대한소화기학회 2003 대한소화기학회지 Vol.41 No.3
Background/Aims: Toll-like receptors (TLRs) represent a pattern recognition receptors with an ability of specific recognition of pathogens. TLRs appear to respond to pathogens and induce NF- kB activation. TLR2 and 4 seem to be related to the initiation of immune response against gram negative and positive bacteria. We investigated the effect of Helicobacter pylori (H. pylori) infection on the expression of TLRs on the gastric mucosa. Methods: For 35 endoscopic gastric mucosa samples, histologic grading of H. pylori infection and inflammatory cell infiltration were performed. The mRNA expression of TLR2, 3, and 4 was examined by RT-PCR. Immunohistochemistry demonstrated the distribution of TLR2 and 4 in gastric mucosal biopsies. Results: H. pylori positive gastric mucosa expressed higher TLR4/GAPDH ratio than H. pylori negative gastric mucosa (p=0.035), while no significant difference in the expression of TLR2 and 3 was detected (p=0.129, p=0.176). The severity of neutrophil infiltration showed a significant positive correlation with TLR4/GAPDH ratio (p=0.045, r=0.342). Immunohistochemistry using anti-TLR4 and anti-TLR2 antibody revealed the expression of TLR4 in the epithelial cells of H. pylori-infected gastric mucosa. Conclusions: H. pylori infection induces TLR4 expression in the human gastric epithelium, which suggests a certain role of TLR4 in the mucosal inflammatory reaction to H. pylori infection. (Korean J Gastroenterol 2003;41:171-176)