Bioinformatic prediction and analysis of glucolipid metabolic regulation by miR-34a in Megalobrama amblycephala

Ling‑Hong Miao,Wen‑Jing Pan,Yan Lin,Bo Liu,Ming‑Chun Ren,Qun‑Lan Zhou,Xian‑Ping Ge 한국유전학회 2017 Genes & Genomics Vol.39 No.12

The objective of this study was to analyze the target genes and regulatory function of miR-34a in Megalobrama amblycephala using second-generation highthroughput sequencing and bioinformatic tools. Functional enrichment analysis was performed by gene ontology. MiR- 34a and target gene expression levels were measured in M. amblycephala fed normal and high-carbohydrate diets. The results revealed that miR-34a was highly conserved in several species, and miR-34a of M. amblycephala has a close evolutionary relationship to that of zebrafish and common carp. miRanda, TargetScan, RNAhybrid predicted 5,185, 6,282 and 2,168 target genes, respectively, and 645 target genes were in common. According to annotation information, the target genes were enriched in phosphate metabolism, glycerophospholipid metabolism, Golgi vesicle transport, cell division, and other biological processes (P < 0.05). Pathway enrichment analysis revealed that these target genes were mainly enriched in alpha-linolenic acid and linoleic acid metabolism, ether lipid metabolism, VEGF signaling pathway, Fc epsilon RI signaling pathway, GnRH signaling pathway, and MAPK signaling pathway (P < 0.05). The regulatory role of miR-34a was more significant in the liver than in the brain of M. amblycephala. MiR-34a regulates glucose lipid homeostasis induced by high glucose diets by upregulating hepatic PI3K/Akt, FOXO, and TOR signaling pathways.

sanN encoding a Dehydrogenase is Essential for Nikkomycin Biosynthesis in Streptomyces ansochromogenes

( Hong Bo Ling ),( Guo Jun Wang ),( Jin E Li ),( Hua Rong Tan ) 한국미생물 · 생명공학회 2008 Journal of microbiology and biotechnology Vol.18 No.3

Characterizations of Ru/ZnO catalysts with different Ru contents for selective hydrogenation of crotonaldehyde

Bo Li,Meng-Fei Luo,Geng-Shen Hu,Ling-Yun Jin,Xiao Hong,Ji-Qing Lu 한국공업화학회 2013 Journal of Industrial and Engineering Chemistry Vol.19 No.1

Ru catalysts supported on ZnO with different Ru contents were prepared by an impregnation method and were applied to the vapor-phase selective hydrogenation of crotonaldehyde. The catalysts were characterized by X-ray powder diffraction (XRD), NH3 temperature-programmed desorption (NH3-TPD),transmission electron microscopy (TEM) and temperature-programmed oxidation (TPO). It was found that with increasing Ru contents in the Ru/ZnO catalysts, the activity (TOF), surface acidity amount and deactivation rate increased and the selectivity to crotyl alcohol increased first and then decreased. The 3Ru/ZnO catalyst showed the highest selectivity to crotyl alcohol (up to 88.0%) for the hydrogenation of crotonaldehyde. The initial TOF values of the catalysts depended on the strength of surface acidity and the Ru particle sizes. The more Lewis acid sites made catalysts deactivate more easily. It was assumed that the deactivation was due to the formation of organic compounds deposition and poison effect of CO strongly adsorbed on the Ru atoms.

Effect of structural phase transformations under pressure on electronic and optical properties of CuInS2

Bo Gao,Hong-Tao Xue,Fu-Ling Tang,Yu-Wen Cheng 한국물리학회 2017 Current Applied Physics Vol.17 No.11

First-principles plane-wave calculations were employed to study the phase transitions, electronic and optical properties of chalcopyrite CuInS2 (CIS) under pressure, which is a promising semiconductor compound material for nonlinear optical, photovoltaic and bio-applications. From the variations of Gibbs free energy and volume with pressure, we confirmed an experimentally found phase transformation of CIS from tetragonal I42d structure into the cubic Fm3m phase. It occurs at 7.9 GPa with a volume reduction of 15.6%, which are comparable with the experimental values of 9.5 GPa and 12%. A new possible phase transition of CIS from the cubic Fm3m structure to the orthorhombic Cmcm structure under higher pressure was predicted occurring at 49.6 GPa with a volume reduction about 0.64%. Using the more accurate HSE06 functional, we found that the growth rate of energy gap with pressure (dEg/dP) for the I42d phase is about 24.8 meV/GPa, very close to the experimental value of 24 meV/GPa. The calculated electronic properties for Fm3m and Cmcm phases show that CIS is a metallic material under high pressure, rather than a semiconductor. The optical absorption spectra indicate that with the increase of pressure the absorption edge of CIS becomes smaller while the optical energy gap is larger.

Study on the differential gene expression of elm leaves fed on by Tetraneura akinire Sasaki

Hai‑bo Lu,Ling‑pin Jin,Dong Wei,Zhi‑hong Huang 한국유전학회 2019 Genes & Genomics Vol.41 No.12

Background To study the essential molecular mechanism of gall formation is very important. Objective To investigate the differential gene expression in leaves fed on by Tetraneura akinire Sasaki and to provide a basis for the better understanding of the essential molecular mechanism of gall formation. Methods The infected leaves of the elm were divided into three periods: initial formation period (T2), growth and differentiation period (T3), and cracking period (T4). The untouched leaves were used as the control (T1). RNA-Seq was performed, and the high-quality sequences were mapped to the reference genome and the elm gene database to obtain the gene expression profiles. The expression level of each gene was calculated by the RPKM method. A combination of FDR ≤ 0.01 and the absolute value of |log2 ratio (T/CK)| ≥ 2 was used as the threshold to determine the significance of gene expression. Finally, GO and pathway enrichment analyses were used to identify the significantly enriched functional classification and metabolic pathways in DEGs. Results The results revealed that approximately 244 mRNAs were detected between T1 and T2, including 192 up-regulated and 52 down-regulated mRNAs; approximately 175 mRNAs were detected between T1 and T3, including 145 up-regulated and 30 down-regulated mRNAs; and approximately 372 mRNAs were detected between T1 and T4, including 360 up-regulated and 12 down-regulated mRNAs. Approximately 34 differentially expressed genes were identified by Venn analysis. Comparing the three infection periods to the control, there were 28 up-regulated and six down-regulated mRNAs. Additionally, 562 genes were used for cluster analysis, which revealed that the gene expression in T2 and T3 changed greatly. Genes related to cell proliferation and respiration, such as microtubulin and 6-phosphoric acid fructose kinase were mainly up-regulated during the T2 period. Genes encoding lipoxygenase, glutathione-S-transferase, superoxide dismutase and protease inhibitor were up-regulated during T2 and T3. Genes encoding lignocellulose synthase were up-regulated during T4, which suggests the reinforcement of the cell wall to improve the resistance to the damage of the Tetraneura akinire Sasaki. Conclusions The results showed that the feeding of Tetraneura akinire Sasaki caused the differential expression of elm genes and influenced cellular energy metabolism. These changes in physiological response and gene expression of the elm compose the physiological and molecular basis of the gall formation and may improve the resistance of elm to Tetraneura akinire Sasaki.

Ferric Reductase Activity of the ArsH Protein from Acidithiobacillus ferrooxidans

( Mo Hong Yu ),( Qian Chen ),( Juan Du ),( Lin Tang ),( Fang Qin ),( Bo Miao ),( Xue Ling Wu ),( Jia Zeng ) 한국미생물 · 생명공학회 2011 Journal of microbiology and biotechnology Vol.21 No.5

The arsH gene is one of the arsenic resistance system in bacteria and eukaryotes. The ArsH protein was annotated as a NADPH-dependent flavin mononucleotide (FMN) reductase with unknown biological function. Here we report for the first time that the ArsH protein showed high ferric reductase activity. Glu104 was an essential residue for maintaining the stability of the FMN cofactor. The ArsH protein may perform an important role for cytosolic ferric iron assimilation in vivo.

Targeting of COX-2 Expression by Recombinant Adenovirus shRNA Attenuates the Malignant Biological Behavior of Breast Cancer Cells

Tu, Bo,Ma, Ting-Ting,Peng, Xiao-Qiong,Wang, Qin,Yang, Hong,Huang, Xiao-Ling Asian Pacific Journal of Cancer Prevention 2014 Asian Pacific journal of cancer prevention Vol.15 No.20

Background: Cyclooxygenase-2 (COX-2), considered to have tumor-promoting potential, is highly expressed in a variety of tumors, including breast cancer. Since the functions and action mechanisms of COX-2 in breast cancer have not been fully elucidated, in the present study, the effects of target inhibiting COX-2 with recombinant adenovirus Ad-COX-2-shRNA on malignant biological behavior were investigated in representative cell lines. Materials and Methods: Breast cancer MDA-MB-231 and MCF-7 cells were transfected with Ad-COX-2-shRNA and COX-2 expression was tested by RT-PCR and Western blotting. Changes in proliferation, apoptosis and invasion of breast cancer cells were detected with various assays including MTT, colony forming, flowcytometry and Transwell invasion tests. The expression of related proteins involved in the cell cycle, apoptosis, invasion and signaling pathways was assessed by Western blotting. Results: COX-2 expression was significantly reduced in both breast cancer cell lines infected with Ad-COX-2-shRNA, with obvious inhibition of proliferation, colony forming rate, G2/M phase passage and invasion, as well as induction of apoptosis, in MDA-MB-231 and MCF-7 cells, respectively. At the same time, proteins related to the cell cycle, anti-apoptosis and invasion were significantly downregulated. In addition, c-myc expression and phosphorylation activation of Wnt/${\beta}$-catenin and p38MAPK pathways were reduced by the Ad-COX-2-shRNA. Conclusions: COX-2 expression is associated with proliferation, apoptosis and invasion of breast cancer cells, and its mechanisms of action involve regulating expression of c-myc through the p38MAPK and Wnt/${\beta}$-catenin pathways.

Hierarchical Colored Petri Nets Based Components for Workflow Systems

Zhou Feng,Bo Rui-Feng,Huang Hong-Zhong,Ling Dan,Miao Qiang The Korean Society of Mechanical Engineers 2006 JOURNAL OF MECHANICAL SCIENCE AND TECHNOLOGY Vol.20 No.10

Workflow systems have benefited the enterprise and customer in many aspects. But with the increasing complexity of the system, workflow design becomes a complicated and time-consuming process. In this paper, we model the system based on the Hierarchical Colored Petri Nets (HCPN) to avoid the complexity of the system, and the super nets of the model are abstracted as independent components to increase the flexibility, acceptability and maintainability of the system. Another important characteristic of this model is its convenience for reuse and workflow mining. The development process of the overhead traveling crane was given to demonstrate the proposed method.

Hierarchical Colored Petri Nets Based Components for Workflow Systems

Feng Zhou,Rui-Feng Bo,Hong-Zhong Huang,Dan Ling,Qiang Miao 대한기계학회 2006 JOURNAL OF MECHANICAL SCIENCE AND TECHNOLOGY Vol.20 No.10

Workflow systems have benefited the enterprise and customer in many aspects. But with the increasing complexity of the system, workflow design becomes a complicated and time-consuming process. In this paper, we model the system based on the Hierarchical Colored Petri Nets (HCPN) to avoid the complexity of the system, and the super nets of the model are abstracted as independent components to increase the flexibility, acceptability and maintainability of the system. Another important characteristic of this model is its convenience for reuse and workflow mining. The development process of the overhead traveling crane was given to demonstrate the proposed method.

Genotype Distribution of Human Papillomavirus in Women with Abnormal Cervical Cytology in an Esophageal Carcinoma High Incidence Area of China

Mai, Rui-Qin,Huang, Bo,Shen, Ling,Zhang, Guo-Hong,Hong, Liang-Li,Cai, Ying-Mu Asian Pacific Journal of Cancer Prevention 2014 Asian Pacific journal of cancer prevention Vol.15 No.12

Infection with human papillomavirus (HPV) could affect genesis of both cervical and esophageal cancers. The type-specific distribution of HPV in cervical cytology abnormalities of women has remained unclear in Shantou, an esophageal cancer high-incidence area of China. Data from 22,617 women who were subjected to cervical HPV DNA testing with simultaneous cervical cytological examination during 2009-2013 were therefore here retrospectively evaluated in a hospital-based study. Overall, 16.2% (3,584/22,114)of women with normal cytology were HR-HPV positive, with HPV-52 (4.07%) as the most common type followed by -16 (3.63%), and -58 (2.46%). Prevalence of HR-HPV was 50.3% (253/503) in women with cervical cytological abnormalities, of which in ASC-H 71.4%, ASC-US 39.1%, HSIL 80.3% and LSIL 73.7%. HPV-58 (14.12%) was the most common type for all cervical cytological abnormalities, followed by HPV-16 (13.72%), and -52 (12.72%), while the more common HPV-16 type in ASC-H (42.9%) and HSIL (36.1%), HPV-52 and -58 were the most common types for ASC-US (10.3%) and LSIL (25%), respectively. Multiple HPV co-infections were identified in 33.2% (84/253) cytology abnormalities with positive HR-HPV, and the highest prevalence of HPV-58/16 combination in HSIL (28.6%, 6/21) was observed. Our data indicated a relative high prevalence of HPV-58 and -52 in women with cervical cytological abnormalities, which should be considered in the development of next-generation vaccines for Shantou.