Metastasis associated genomic aberrations in stage II rectal cancer

Hong Zhao,Zhi-Zhou Shi,Rui Jiang,Dong-Bing Zhao,Hai-Tao Zhou,Jian-Wei Liang,Xin-Yu Bi,Jian-Jun Zhao,Zhi-Yu Li,Jian-Guo Zhou,Zhen Huang,Ye-Fan Zhang,Jian Wang,Xin Xu,Yan Cai,Ming-Rong Wang,Yu Zhang 한국유전학회 2016 Genes & Genomics Vol.38 No.11

Genomic aberrations of rectal carcinoma, especially DNA copy number changes associated with metastasis were largely unclear. We aim to identify the metastasis associated biomarkers in stage II rectal cancer. Formalin-fixed, paraffin-embedded primary tumor tissues of stage II rectal carcinoma were analyzed by array-based comparative genomic hybridization, and genomic aberrations were identified by Genomic Workbench and SAM software. Copy number changes and mRNA expressions were validated by Real-time PCR in an independent rectal cancer samples. The results showed that the most frequent gains in stage II rectal cancer were at 1q21.2-q23.1, 3p21.31, 11q12.2-q23.3, 12q24.11-q24.31, 12q13.11-q14.1 and losses in 18q11.2-q23, 17q21.33-q22, 13q31.1-q31.3, 21q21.1-q21.3, 8p23.3-p23.1 and 4q22.1-q23. Twenty-two amplifications and five homozygous deletions were also identified. We further found that S100A1 (1q21.3-q23.1), MCM7 (7q22.1) and JUND (19p13.11) were amplified and overexpressed in stage II rectal cancer. Interestingly, the genomic aberrations affected 14 signaling pathways including VEGF signaling pathway and fatty acid metabolism. Most importantly, loss of 13q31.1-q34 and gain of 1q44 were associated with distant metastasis. Our results indicated that these metastasis associated genomic changes may be useful to reveal the pathogenesis of rectal cancer metastasis and identify candidate biomarkers.

A κ-Carrageenase from a Newly Isolated Pseudoalteromonas-like Bacterium, WZUC10

Mao-hong Zhou,Jian-she Ma,Jun Li,Hai-ren Ye,Ke-xin Huang,Xiao-wei Zhao 한국생물공학회 2008 Biotechnology and Bioprocess Engineering Vol.13 No.5

A bacterial strain able to produce k-carrageenase, designated WZUC10, was isolated from a live specimen of the red alga Plocamium telfairiae collected in the East China Sea. The phylogenetic evidence and phenotypic features indicate that this strain belongs to the genus Pseudoalteromonas. WZUC10 requires NaCl for growth and k-carrageenan to induce k-carrageenase synthesis; galactose and lactose do not induce it. The optimal growth temperature is 23~27°C. The secreted enzyme, which has a molecular mass of 45 kDa, breaks down k-carrageenan into k-neocarratetraose sulfate and larger oli-gosaccharides with a repeating β-D-Galp4S-(1→4)-α-D-AnGalp structure, but cannot degrade k-neocarratetraose sulfate or k-neocarrahexaose sulfate into k-neocarrabiose sulfate. The enzyme retains 90% of its activity after 2 h at 40°C and is com-pletely inactivated after 7.5 min at 70°C. The enzyme’s optimal temperature is 30°C and its optimal pH is 7.5. The enzyme-catalyzed reaction follows Michaelis-Menten kinetics, with the Michaelis constant (Km) and the turnover number (k) being 0.015 mM and 125 s-¹, respectively. WZUC10 produces 50 U/mL k-carrageenase after cultivation at 25°C for 35 h on a me-dium containing 80 g/L glucose, 5 g/L corn steep liquor, 3 g/L k-carrageenan, and 15 g/L NaCl. k-Neocarratetraose sulfate was prepared simply with precipitation by ethanol:water (5:1, v/v).

Isolation and Characterization of a Novel Heterotrophic Nitrifying and Aerobic Denitrifying Bacterium Pseudomonas stutzeri KTB for Bioremediation of Wastewater

Mao-hong Zhou,Hai-ren Ye,Xiao-wei Zhao 한국생물공학회 2014 Biotechnology and Bioprocess Engineering Vol.19 No.2

A novel heterotrophic nitrifying and aerobicdenitrifying bacterium, KTB, was isolated from activatedsludge flocci collected from a biological aerated filteraccording to the modified Takaya method and identified asPseudomonas stutzeri by 16S rDNA gene sequence analysis. When shaking-cultured in the presence of 4.331 mmol/L ofnitrate, 4.511 mmol/L of nitrite and 4.438 mmol/L ofammonium, the strain grew fast, with μmax being 0.42, 0.45,and 0.56/h, and displayed high nitrogen removal efficiency,with nitrogen removal rate being 0.239, 0.362, and 0.361mmol/L/h and nitrogen removal ratio being 99.1, 100.0,and 100.0% in 18 h, respectively. The removal mainlyoccurred in the logarithmic phase. Nitrite accumulation didnot affect denitrification performance. Nitrate concentrationwas below the detectable limit during the whole growthcycle when ammonium was used as sole nitrogen source. It tolerated high DO level and exhibited excellent aggregationability. A possible pathway involved in the nitrogenremoval process, which demonstrated a full nitrificationand denitrification route, was speculated. The strain mightbe a great candidate for biological removal of nitrogencompounds from wastewater.

A Fluorescent Recombinase Aided Amplification Assay for Detection of Babesia microti

Lin, Hong,Zhao, Song,Ye, Yuying,Shao, Lei,Jiang, Nizhen,Yang, Kun The Korea Society for Parasitology and Tropical Me 2022 The Korean Journal of Parasitology Vol.60 No.3

Babesia microti is one of the most common causative agents of babesiosis. A sensitive and rapid detection is necessary for screening potentially infected individuals. In this study, B. microti cytochrome c oxidase subunit I (cox1) was selected as the target gene, multiple primers were designed, and optimized by a recombinase-aided amplification (RAA) assay. The optimal primers and probe were labeled with fluorescein. The sensitivity of fluorescent RAA (fRAA) was evaluated using gradient diluents of the cox1 recombinant plasmid and genomic DNA extracted from whole blood of B. microti infected mice. The specificity of fRAA was assessed by other transfusion transmitted parasites. The analytical sensitivity of the fRAA assay was 10 copies of recombinant plasmid per reaction and 10 fg/µl B. microti genomic DNA. No cross-reaction with any other blood-transmitted parasites was observed. Our results demonstrated that the fRAA assay would be rapid, sensitive, and specific for the detection of B. microti.

Mutations in AP22.65 Accelerate Flowering in Arabidopsis thaliana

Ji Hong Xing,Feng Ru Wang,Jiao Jia,Jing Zhang,Li Li,Zhan Chen,Qiao Yun Weng,Ping Yang,Ye Zhang,Bin Zhao,He Long Si,Jin Gao Dong,Jian Min Han 한국식물학회 2013 Journal of Plant Biology Vol.56 No.1

Identification of the gene(s) responsible for floweringtime in Arabidopsis has significant implications. We used theT-DNA insertion library of Arabidopsis thaliana to screen anearly-flowering mutant that exhibits accelerated floweringunder short-day conditions. AP22.65, a novel flowering-timegene in that species, was isolated and identified via genomewalkingand bioinformatics analysis. The flowering time ofAP22.65-complementing plants was similar to that of theCol-0 wild type (WT). Conversely, its overexpression delayedflowering. Consistent with this phenotype, expression ofAP22.65 was decreased in the ap22.65-1 mutant, recoveredin AP22.65-complementing plants, and increased in AP22.65-overexpressing plants. Compared with the WT, expressionlevels of critical genes in different flowering pathways, i.e.,SPY, FLC, GI, CO, FT, and LFY, were down-regulated inloss-of-function mutants. Expression of AP22.65 was distributedin flowers, siliques, rosette leaves, and whole seedlings. Therefore, this gene may be a negative regulator of Arabidopsisflowering.

Numerical Analysis of Solid-Liquid Two-Phase Abrasive Flow in Microcutting Polycrystalline Materials Based on Molecular Dynamics

Jun-Ye Li,Wen-Qing Meng,Kun Dong,Xin-Ming Zhang,Wei-Hong Zhao 한국정밀공학회 2018 International Journal of Precision Engineering and Vol.19 No.11

Abrasive flow polishing plays an important role as a type of precision nanomachining technology. In this study, the polishing mechanism of abrasive flow was studied using numerical simulations based on molecular dynamics. In order to study the polishing mechanism of polycrystalline materials, the molecular dynamics simulation of three kinds of polycrystalline materials was carried out. The cutting force, energy, friction coefficient, and surface morphology (during the microcutting process) of the three workpiece materials were analyzed. The analysis shows that the adhesion of atoms in the contact area on the workpiece surface will be affected by liquid phase and the type of abrasive particles, and then the surface quality polished by the abrasive flow will also be influenced. The onset of an abrasive flow polishing process involving plastic deformation (including the nucleation and migration of dislocations, grain boundary shape deformation, and deformation twinning) was observed on the workpiece surface. Defects strongly competed with each other in the form of interactions of dislocations and the grain boundaries, resulting in the migration of twin boundaries. A further analysis of the numerical results for different cutting depths and abrasive properties of the workpiece materials will be useful for understanding the different cutting effects.

송·명시기 적의翟衣의 형제와 변화

자오펑(Zhao Feng)(赵丰),왕이예훙(Wang Ye Hong)(王业宏) 국립고궁박물관 2012 古宮文化 Vol.- No.5

적의는 꿩무늬로 장식된 최상의 여성 예복으로 중국의 상고시기로부터 기원하였다. 중국 각 황조에서 다른 형식으로 존재하였으며 송·명에 이르기까지 제작되었다. 진奏 이전 척의의 형태논 상의하상上衣下裳의 형태가 아니었다. 머리장식[首飾]은 보요步搖와 유사하였고, 백색소사白色素紗를 중의中衣로 하였다. 진奏·한漢시기 의례용 복식 제도를 바꾸며 현색[玄],순색[純]을 귀히 여기게 되면서 꿩무늬 장식은 없어지거나 약화되었다. 그러나 위魏에서는 이와는 달리 다시 문양을 수놓았다. 북주北周시기는 후에 송·명의 적의가 발전하고 성숙할 수 있었던 중요한 시기이자 적의가 가장 풍부했던 시기이다. 수隋는 북주의 복식 제도를 이어받았으며, 『수서隋書』 예의칠禮儀七 에 기록된 황후의 휘의褘衣는 중국 초기 사료 중 적의에 대해 가장 상세히 기술한자료로수의 복식제도는 당唐에 직접적으로 영향을 끼쳤다. 『무덕武德令』에 기록된 황후 예복은 수의 제도와 일치한다고 볼 수 있다. 송대에 적의 제도가 완비되었다는 것은 동 시기 회화자료로 검증되었다. 명 홍무洪武 원년에는 송의 제도를 참고하여 황후 관복冠服을 제작하였고 후에 몇 차례 개정하였다. 명대의 척의 제도는 사료, 유물, 회화를 통해 명확히 검증되었고, 이들 자료에 근거해 명대 척의를 일정 부분을 복원할 수 있었다. 중국의 적의는 한국 복식제도에 큰 영향을 끼쳤고, 한국 각 시기의 적의는 기본적으로 송·명의 적의와 일치한다. 실물로 다수 보존되고 있는 한국의 적의논 중국 적의 발전과정 연구에 중요한 의미를 갖는 참고자료이다. Diyi is the traditional Chinese formal attire embroidered with pheasants. It was worn by empresses and other women of the royal household since the beginning of recorded history. It assumed different forms through the dynasties and remained in use until the Song and Ming dynasties. Before the Qin dynasty, it was not an upper garment and skirt. The hair ornaments that went with it were similar to buyao, and white, thin silk was worn as zhongyi (inner garment). The ceremonial costume changed during the Qin and Han dynasties. Black and solid colors were then highly valued, and the pheasant pattern disappeared or was used less commonly. In the Wei-state period, all the patterns returned. The Northern Zhou dynasty was an important period that led to the development and maturing of diyi during the later Song and Ming dynasties, and it was then that diyi was the most varied. Northen Zhou s costumes were adopted by Sui. The most detailed description of diyi from early Chinese history is of huiyi, empresses ceremonial dress, in the Book of Sui (Record of Rites Volume 7). It shows that Sui costumes had a direct impact on Tang. Empresses ceremonial dress recorded in the Code of the Wude Reign from early Tang was basically the same as that of Sui. The Song diyi was relatively complete, and this is confirmed by paintings of the same period. In the first year of the reign of Ming Emperor Hongwu, it was decided that empresses formal attire would be made with reference with Sui dress. Several changes were made to it later. The Ming diyi was very distinct, as is confirmed by literature, actual examples of clothing, and paintings of the period. These materials would allow for restoration of the Ming diyi to a certain degree. Chinese diyi had a great influence on Korea s costumes. The diyi of each of Korea s dynasties was basically the same as those of Song and Ming, and many examples of diyi remain extant. They are very important for research on the development of the Chinese diyi.

Prognostic Significance of Beclin-1 Expression in Colorectal Cancer: a Meta-analysis

Han, Ye,Xue, Xiao-Feng,Shen, Hu-Gang,Guo, Xiao-Bo,Wang, Xu,Yuan, Bin,Guo, Xing-Po,Kuang, Yu-Ting,Zhi, Qiao-Ming,Zhao, Hong Asian Pacific Journal of Cancer Prevention 2014 Asian Pacific journal of cancer prevention Vol.15 No.11

Objective: Beclin-1 has recently been observed as an essential marker of autophagy in several cancers. However, the prognostic role of Beclin-1 in colorectal neoplasia remains controversial. Our study aimed to evaluate the potential association between Beclin-1 expression and the outcome of colorectal cancer patients. Materials and Methods: All related studies were systematically searched in Pubmed, Embase, Springer and Chinese National Knowledge Infrastructure databases (CNKI), and then a meta-analysis was performed to determine the association of Beclin-1 expression with clinical outcomes. Finally, a total of 6 articles were included in our analysis. Results: Our data showed that high Beclin-1 expression in patients with CRC was associated with poor prognosis in terms of tumor distant metastasis (OR=2.090, 95%CI=1.061-4.119, p=0.033) and overall survival (RR=1.422, 95%CI=1.032-1.959, p=0.031). However, we did not found any correlation between Beclin-1 over-expression and tumor differentiation (OR=1.711, 95%CI=0.920-3.183, p=0.090). In addition, there was no evidence of publication bias as suggested by Egger's tests for tumor distant metastasis (p=1.000), differentiation (p=1.000) and OS (p=0.308). Conclusions: Our present meta-analysis indicated that elevated Beclin-1 expression iss associated with tumor metastasis and a poor prognosis in patients with CRC. Beclin-1 might serve as an efficient prognostic indicator in CRC, and could be a new molecular target in CRC therapy.

Peptide Domain Involved in the Interaction between Membrane Protein and Nucleocapsid Protein of SARS-associated Coronavirus

Fang, Xiaonan,Ye, Linbai,Timani, Khalid Amine,Li, Shanshan,Zen, Yingchun,Zhao, Meng,Zheng, Hong,Wu, Zhenghui Korean Society for Biochemistry and Molecular Biol 2005 Journal of biochemistry and molecular biology Vol.38 No.4

Severe acute respiratory syndrome (SARS) is an emerging infectious disease associated with a novel coronavirus (CoV) that was identified and molecularly characterized in 2003. Previous studies on various coronaviruses indicate that protein-protein interactions amongst various coronavirus proteins are critical for viral assembly and morphogenesis. It is necessary to elucidate the molecular mechanism of SARS-CoV replication and rationalize the anti-SARS therapeutic intervention. In this study, we employed an in vitro GST pull-down assay to investigate the interaction between the membrane (M) and the nucleocapsid (N) proteins. Our results show that the interaction between the M and N proteins does take place in vitro. Moreover, we provide an evidence that 12 amino acids domain (194-205) in the M protein is responsible for binding to N protein. Our work will help shed light on the molecular mechanism of the virus assembly and provide valuable information pertaining to rationalization of future anti-viral strategies.

Enhanced photocatalytic performance of TiO2 nanowires by substituting noble metal particles with reduced graphene oxide

Fei Yuchen,Ye Xiaofang,Al-Baldawy Aseel Shaker,Wan Jing,Lan Jinshen,Zhao Jingtian,Wang Ziyun,Qu Shanzhi,Hong Rongdun,Guo Shengshi,Huang Shengli,Li Shuping,Kang Junyong 한국물리학회 2022 Current Applied Physics Vol.44 No.-

Noble metal particles have been embedded in semiconductors to improve photocatalysis efficiently, but the high cost made this approach difficult to apply widely in industry. Herein titanium dioxide/reduced graphene oxide (TiO2/rGO) nanowires in a core-shell structure were prepared. The physicochemical properties and photocatalytic performance of the specimen were characterized in comparison with TiO2 and TiO2/Pt nanowires. The rGO layer and Pt nanoparticles increased chemical states of the components, reduced bandgap energy of the nanowires, enhanced visible light absorption, improved conductance and capacitance significantly. The methylene blue as catalyzed by TiO2/Pt and TiO2/rGO nanowires was degraded to 7.9% and 8.4% in an hour, but retained 25.7% by the TiO2 nanowires. The properties and function of TiO2/rGO nanowires were close to those of TiO2/Pt nanowires, while the rGO price was much lower than that of Pt, which was of great significance for the photocatalytic application of TiO2 heterojunction materials in industry.