Transcriptome profiling of rubber tree (Hevea brasiliensis) discovers candidate regulators of the cold stress respo

Xiao‑Xiao Gong,Bing‑Yu Yan,Jin Hu,Cui‑Ping Yang,Yi‑Jian Li,Jin‑Ping Liu,Wen‑Bin Liao 한국유전학회 2018 Genes & Genomics Vol.40 No.11

Tropical plant rubber tree (Hevea brasiliensis) is the sole source of commercial natural rubber and low-temperature stress is the most important limiting factor for its cultivation. To characterize the gene expression profiles of H. brasiliensis under the cold stress and discover the key cold stress-induced genes. Three cDNA libraries, CT (control), LT2 (cold treatment at 4 °C for 2 h) and LT24 (cold treatment at 4 °C for 24 h) were constructed for RNA sequencing (RNA-Seq) and gene expression profiling. Quantitative real time PCR (qRT-PCR) was conducted to validate the RNA-Seq and gene differentially expression results. A total of 1457 and 2328 differentially expressed genes (DEGs) in LT2 and LT24 compared with CT were respectively detected. Most significantly enriched KEGG pathways included flavonoid biosynthesis, phenylpropanoid biosynthesis, plant hormone signal transduction, cutin, suberine and wax biosynthesis, Pentose and glucuronate interconversions, phenylalanine metabolism and starch and sucrose metabolism. A total of 239 transcription factors (TFs) were differentially expressed following 2 h or/and 24 h of cold treatment. Cold-response transcription factor families included ARR-B, B3, BES1, bHLH, C2H, CO-like, Dof, ERF, FAR1, G2-like, GRAS, GRF, HD-ZIP, HSF, LBD, MIKC-MADS, M-type MADS, MYB, MYB-related, NAC, RAV, SRS, TALE, TCP, Trihelix, WOX, WRKY, YABBY and ZF-HD. The genome-wide transcriptional response of rubber tree to the cold treatments were determined and a large number of DEGs were characterized including 239 transcription factors, providing important clues for further elucidation of the mechanisms of cold stress responses in rubber tree.

Effect of Prior Microstructures on Cementite Dissolution Behavior During Subcritical Annealing of High Carbon Steels

Xiao‑Yu Zhao,Xian‑Ming Zhao,Chun‑Yu Dong,Yang Yang,Huai‑Bin Han 대한금속·재료학회 2022 METALS AND MATERIALS International Vol.28 No.6

The variation of the morphology and distribution of cementite particles in different prior structures with spheroidizingannealing process has been proceeded in this paper. It is found that the dissolution and coarsening progresses of variousinitial structures in spheroidizing annealing process are quite asynchronous due to the different interlamellar spacing. Thedissolution rate of degenerated pearlite (D-P) with finer interlamellar spacing is faster. The granular cementite in the spheroidizedmicrostructure is fine, uniform and dense. The mean diameter of spherical cementite is refined to 233 nm. However,the initial structure of degenerated pearlite (D-P) is highly sensitive to the austenitization temperature. The cementite iseasy to be coarsened under high austenitizing temperature. The coarsening is accompanied by the gradual increase of theCr content in the cementite, which increases the stability of the cementite. Therefore, the optimal austenitizing temperaturefor degenerated pearlite (D-P) is suggested to be 770 °C.

Enhancement of Butanol Tolerance and Butanol Yield in Clostridium acetobutylicum Mutant NT642 Obtained by Nitrogen Ion Beam Implantation

Xiao-Bo Liu,Qiu-Ya Gu,Xiao-Bin Yu,Wei Luo 한국미생물학회 2012 The journal of microbiology Vol.50 No.6

As a promising alternative biofuel, biobutanol can be produced through acetone/butanol/ethanol (ABE) fermentation. Currently, ABE fermentation is still a small-scale industry due to its low production and high input cost. Moreover, butanol toxicity to the Clostridium fermentation host limits the accumulation of butanol in the fermentation broth. The wild-type Clostridium acetobutylicum D64 can only produce about 13 g butanol/L and tolerates less than 2% (v/v) butanol. To improve the tolerance of C. acetobutylicum D64 for enhancing the production of butanol, nitrogen ion beam implantation was employed and finally five mutants with enhanced butanol tolerance were obtained. Among these, the most butanol tolerant mutant C. acetobutylicum NT642 can tolerate above 3% (v/v) butanol while the wide-type strain can only withstand 2% (v/v). In batch fermentation, the production of butanol and ABE yield of C. acetobutylicum NT642 was 15.4 g/L and 22.3 g/L, respectively, which were both higher than those of its parental strain and the other mutants using corn or cassava as substrate. Enhancing butanol tolerance is a great precondition for obtaining a hyperyield producer. Nitrogen ion beam implantation could be a promising biotechnology to improve butanol tolerance and production of the host strain C. acetobutylicum.

Cyclooxygenase-2 Inhibitor Parecoxib Was Disclosed as a PPAR-γ Agonist by In Silico and In Vitro Assay

( Bin Xiao ),( Dan-dan Li ),( Ying Wang ),( Eun La Kim ),( Na Zhao ),( Shang-wu Jin ),( Dong-hao Bai ),( Li-dong Sun ),( Jee H. Jung ) 한국응용약물학회 2021 Biomolecules & Therapeutics(구 응용약물학회지) Vol.29 No.5

In a search for effective PPAR-γ agonists, 110 clinical drugs were screened via molecular docking, and 9 drugs, including parecoxib, were selected for subsequent biological evaluation. Molecular docking of parecoxib to the ligand-binding domain of PPAR-γ showed high binding affinity and relevant binding conformation compared with the PPAR-γ ligand/antidiabetic drug rosiglitazone. Per the docking result, parecoxib showed the best PPAR-γ transactivation in Ac2F rat liver cells. Further docking simulation and a luciferase assay suggested parecoxib would be a selective (and partial) PPAR-γ agonist. PPAR-γ activation by parecoxib induced adipocyte differentiation in 3T3-L1 murine preadipocytes. Parecoxib promoted adipogenesis in a dose-dependent manner and enhanced the expression of adipogenesis transcription factors PPAR-γ, C/EBPα, and C/EBPβ. These data indicated that parecoxib might be utilized as a partial PPAR-γ agonist for drug repositioning study.

Production of Cellulase by Trichoderma reesei Rut C30 in Wheat Bran - containing Media

( Xiao Bin Yu,Hyun Shik Yun,Yoon Mo Koo ) 한국미생물생명공학회 1998 Journal of microbiology and biotechnology Vol.8 No.3

Protectin DX increases alveolar fluid clearance in rats with lipopolysaccharideinduced acute lung injury

Xiao-Jun Zhuo,Yu Hao,Fei Cao,Song-Fan Yan,Hui Li,Qian Wang,Bi-Huan Cheng,Bin-Yu Ying,Bin-Yu Ying,Sheng-Wei Jin 생화학분자생물학회 2018 Experimental and molecular medicine Vol.50 No.-

Acute respiratory distress syndrome is a life-threatening critical syndrome resulting largely from the accumulation of and the inability to clear pulmonary edema. Protectin DX, an endogenously produced lipid mediator, is believed to exert anti-inflammatory and pro-resolution effects. Protectin DX (5 μg/kg) was injected i.v. 8 h after LPS (14 mg/kg) administration, and alveolar fluid clearance was measured in live rats (n = 8). In primary rat ATII epithelial cells, protectin DX (3.605 × 10−3 mg/l) was added to the culture medium with LPS for 6 h. Protectin DX improved alveolar fluid clearance (9.65 ± 1.60 vs. 15.85 ± 1.49, p < 0.0001) and decreased pulmonary edema and lung injury in LPSinduced lung injury in rats. Protectin DX markedly regulated alveolar fluid clearance by upregulating sodium channel and Na, K-ATPase protein expression levels in vivo and in vitro. Protectin DX also increased the activity of Na, K-ATPase and upregulated P-Akt via inhibiting Nedd4–2 in vivo. In addition, protectin DX enhanced the subcellular distribution of sodium channels and Na, K-ATPase, which were specifically localized to the apical and basal membranes of primary rat ATII cells. Furthermore, BOC-2, Rp-cAMP, and LY294002 blocked the increased alveolar fluid clearance in response to protectin DX. Protectin DX stimulates alveolar fluid clearance through a mechanism partly dependent on alveolar epithelial sodium channel and Na, K-ATPase activation via the ALX/PI3K/Nedd4–2 signaling pathway.

An Ontology-based Problem-logic Driven Approach towards the Activity Awareness for Elderly Care

Bin Xiao,Theo Kanter,Rahim Rahmani 보안공학연구지원센터 2015 International Journal of Multimedia and Ubiquitous Vol.10 No.4

The same activity under different user situations in the elderly care system may lead to different intelligent system response, since user needs vary with the changing situations. Activity awareness (AA) emphasizes that systems intelligently respond to user needs by aware the user-performed activities which is denoted and comprehended according to various user situations. But most current AA technics use similar patterns retrieved from the growing historical data, neglecting the situation change, called dataset driven. Thus, an aptly approach is needed in support of AA systems to handle various activity denotations in different user situations. Responding to the problem, this paper proposes an Ontology-based Problem-logic driven approach (OPL) to enhance the AA system by denoting user activities with the problem logic according to user-oriented denoted problem domains, where the AA system can seamlessly integrate with inferring for intelligent system response. Specifically, denoted problem domain and logic are proposed to support the OPL concepts, while activity graph is formed to support the intelligent system response based on the annotated problem logic. With the OPL, systems can directly target at the changing situations by rule-based inferring. A case study is performed upon the scenario retrieved from a European elderly care project, where a proof-of-concept prototype is established to confirm the validity of the OPL approach.

An Efficient Algorithm for Dynamic Shortest Path Tree Update in Network Routing

Xiao, Bin,Cao, Jiannong,Shao, Zili,Sha, Edwin H.M. The Korea Institute of Information and Commucation 2007 Journal of communications and networks Vol.9 No.4

Shortest path tree(SPT) construction is essential in high performance routing in an interior network using link state protocols. When some links have new state values, SPTs may be rebuilt, but the total rebuilding of the SPT in a static way for a large computer network is not only computationally expensive, unnecessary modifications can cause routing table instability. This paper presents a new update algorithm, dynamic shortest path tree(DSPT) that is computationally economical and that maintains the unmodified nodes mostly from an old SPT to a new SPT. The proposed algorithm reduces redundancy using a dynamic update approach where an edge becomes the significant edge when it is extracted from a built edge list Q. The average number of significant edges are identified through probability analysis based on an arbitrary tree structure. An update derived from significant edges is more efficient because the DSPT algorithm neglect most other redundant edges that do not participate in the construction of a new SPT. Our complexity analysis and experimental results show that DSPT is faster than other known methods. It can also be extended to solve the SPT updating problem in a graph with negative weight edges.

Invertase Production by Fed - batch Fermentations of Recombinant Saccharomyces cerevisiae

( Xiao Bin Yu,Hyun Shik Yun,Yoon Mo Koo ) 한국미생물생명공학회 1998 Journal of microbiology and biotechnology Vol.8 No.3

The Lymphatic Drainage Pattern of Internal Mammary Sentinel Lymph Node Identified by Small Particle Radiotracer (99mTc-Dextran 40) in Breast

Xiao-Shan Cao,Guo-Ren Yang,Bin-Bin Cong,Peng-Fei Qiu,Yong-Sheng Wang 대한암학회 2019 Cancer Research and Treatment Vol.51 No.2

Purpose The purpose of this study was to detect the lymphatic drainage pattern of internal mammary area and verify the concept of internal mammary sentinel lymph node (IM-SLN) in breast. Materials and Methods A small particle radiotracer (99mTc-Dextran 40) was prepared and tested. 99mTc-Dextran 40 was injected into intraparenchyma at the sound breast by a modified radiotracer injection technique. Subsequently, dynamic single-photon emission computed tomography (SPECT), computed tomography (CT), and SPECT/CT combination images were performed to identify the radioactive lymph vessels and internal mammary lymph nodes (IMLNs). The direction of lymph drainage and the location of the IMLNs were identified in the SPECT/CT imaging. Results The radiochemical purity of 99mTc-Dextran 40 was > 95%. 99mTc-Dextran 40 could drainage into first, second, and third lymph node and the radioactive lymph node could be detected by the  detector in the animal experiment. After 99mTc-Dextran 40 injecting into intraparenchyma, 50.0% cases (15/30) were identified the drainage lymphatic vessels and radioactive IMLNs by SPECT. The drainage lymphatic vessel was found from injection point to the first IMLN (IM-SLN) after 10.5±0.35 minutes radiotracer injection, and then 99mTc-Dextran 40 was accumulated into the IM-SLN. The combination imaging of SPECT/CT showed the second IMLN received the lymph drainage from the IM-SLN. The lymphatic drainage was step by step in the internal mammary area. Conclusion The lymph was identified to drain from different regions of the breast to IM-SLN, and then outward from IM-SLN to other IMLN consecutively. It demonstrated the concept of the IM-SLN and provided more evidences for the application of internal mammary sentinel lymph node biopsy.