Draft Genome Assembly and Annotation for Cutaneotrichosporon dermatis NICC30027, an Oleaginous Yeast Capable of Simultaneous Glucose and Xylose Assimilation

Wang Laiyou,Guo Shuxian,Zeng Bo,Wang Shanshan,Chen Yan,Cheng Shuang,Liu Bingbing,Wang Chunyan,Wang Yu,Meng Qingshan 한국균학회 2022 Mycobiology Vol.50 No.1

The identification of oleaginous yeast species capable of simultaneously utilizing xylose and glucose as substrates to generate value-added biological products is an area of key eco- nomic interest. We have previously demonstrated that the Cutaneotrichosporon dermatis NICC30027 yeast strain is capable of simultaneously assimilating both xylose and glucose, resulting in considerable lipid accumulation. However, as no high-quality genome sequenc- ing data or associated annotations for this strain are available at present, it remains chal- lenging to study the metabolic mechanisms underlying this phenotype. Herein, we report a 39,305,439 bp draft genome assembly for C. dermatis NICC30027 comprised of 37 scaffolds, with 60.15% GC content. Within this genome, we identified 524 tRNAs, 142 sRNAs, 53 miRNAs, 28 snRNAs, and eight rRNA clusters. Moreover, repeat sequences totaling 1,032,129 bp in length were identified (2.63% of the genome), as were 14,238 unigenes that were 1,789.35 bp in length on average (64.82% of the genome). The NCBI non-redundant protein sequences (NR) database was employed to successfully annotate 11,795 of these unigenes, while 3,621 and 11,902 were annotated with the Swiss-Prot and TrEMBL databases, respectively. Unigenes were additionally subjected to pathway enrichment analyses using the Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), Cluster of Orthologous Groups of proteins (COG), Clusters of orthologous groups for eukaryotic com- plete genomes (KOG), and Non-supervised Orthologous Groups (eggNOG) databases. Together, these results provide a foundation for future studies aimed at clarifying the mech- anistic basis for the ability of C. dermatis NICC30027 to simultaneously utilize glucose and xylose to synthesize lipids.

Implementation of online model updating with ANN method in substructure pseudo-dynamic hybrid simulation

Yan Hua Wang,Jing Lv,Yan Feng,Bo Wen Dai,Cheng Wang,Jing Wu,Zi Yan Chen 국제구조공학회 2021 Smart Structures and Systems, An International Jou Vol.28 No.2

Substructure pseudo-dynamic hybrid simulation (SPDHS) is an advanced structural seismic testing method which combines physical experiment and numerical simulation. Generally, the key components which display nonlinearity first are taken as experimental substructures for actual test, and the remaining parts are modeled in simulation. Model updating techniques can be effectively applied to enhance the model precision of nonlinear numerical elements. Specifically, the constitutive model of the experimental substructure is identified online by the instantaneously-measured data, and the corresponding numerical elements with similar hysteretic behaviors are updated synchronously. Artificial neural network (ANN) can recognize the system which cannot be represented by definite numerical model, and thus avoids the structural response distortion caused by the inherent numerical model defects. In this study, a framework for online model updating in SPDHS with ANN method is expanded to implement actual test validation. Moreover, the effectiveness of ANN method is demonstrated by practical tests of a two-story frame model with bending dampers. Additionally, the unscented Kalman filter technique and offline ANN identification approach are both examined in the test validation. The experimental results show that, under the identical loading history, the online ANN method can significantly reduce the model errors and improve the accuracy of SPDHS.

SINGLE MACHINE GROUP SCHEDULING UNDER DECREASING LINEAR DETERIORATION

Wang, Ji-Bo,Guo, Ai-Xia,Shan, Feng,Jiang, Bo,Wang, Li-Yan 한국전산응용수학회 2007 Journal of applied mathematics & informatics Vol.24 No.1

This paper considers single machine scheduling problems with group technology (GT) and deteriorating jobs. A sequence independent setup is required to process a job from a different group and jobs in each group are processed together. We consider the case of jobs whose processing times are a decreasing function of their starting time. The objectives of scheduling problems are to minimize the makespan and the total completion time, respectively. We also provide polynomial time algorithms to solve these problems.

Fixed-time Integral Terminal Sliding Mode Control for Vehicle Platoon With Prescribed Performance

Yan-Bo Wang,Cheng-Lin Liu,Liang Shan 제어·로봇·시스템학회 2024 International Journal of Control, Automation, and Vol.22 No.1

This article investigates a fixed-time integral terminal sliding mode (FITSM) control method for a longitudinal vehicle platoon consisting of a leader and multiple followers. This sliding mode is designed with a coupled sliding mode surface and a quadratic spacing (QS) policy that effectively ensures string stability, with prescribed performance. To reduce the chattering phenomenon caused by the sign function, the reaching law is designed by a smooth function. Furthermore, the vehicle platoon system is fixed-time stable and the string stability is guaranteed strictly. Finally, a numerical simulation is presented to show the proposed method’s effectiveness.

Synthesis of novel diosgenyl saponin analogues and apoptosis-inducing activity on A549 human lung adenocarcinoma

Wang, Bo,Chun, Jaemoo,Liu, Yang,Han, Lina,Wang, Yan-shi,Joo, Eun-Ji,Kim, Yeong-Shik,Cheng, Mao-sheng The Royal Society of Chemistry 2012 Organic & Biomolecular Chemistry Vol.10 No.44

<P>We synthesized a diosgenyl saponin bearing a unique disaccharide from the natural product β-hederin, together with twelve glycosylated derivatives and determined their cytotoxicity against five different human cancer cell lines. Most of them showed weak cytotoxicity, with the exception of compound <B>20</B>, diosgenyl α-<SMALL>L</SMALL>-rhamnopyranosyl-(1→2)-[α-<SMALL>L</SMALL>-arabinopyranosyl-(1→4)]-α-<SMALL>L</SMALL>-arabinopyranoside, which exhibited strong cytotoxicity against A549 cells. The cytotoxicity of <B>20</B> was associated with apoptotic cell death, which was characterized by morphological changes, chromatin condensation, DNA fragmentation, and phosphatidylserine externalization. Compound <B>20</B> induced apoptosis of A549 cells through a caspase-8-mediated extrinsic pathway and a caspase-9-mediated intrinsic pathway. In addition, phosphorylation of JNK increased but the phosphorylation of ERK decreased after treatment with <B>20</B>. These results provide a basic mechanism for the anticancer activity of <B>20</B>.</P> <P>Graphic Abstract</P><P>The diosgenyl trisaccharide greatly induces apoptosis in A549 cells, mainly through an extrinsic pathway. <IMG SRC='http://pubs.rsc.org/services/images/RSCpubs.ePlatform.Service.FreeContent.ImageService.svc/ImageService/image/GA?id=c2ob26579f'> </P>

Heterologous Expression and Characterization of a Laccase from Laccaria bicolor in Pichia pastoris and Arabidopsis thaliana

( Bo Wang ),( Ying Yan ),( Jing Xu ),( Xiaoyan Fu ),( Hongjuan Han ),( Jianjie Gao ),( Zhenjun Li ),( Lijuan Wang ),( Yongsheng Tian ),( Rihe Peng ),( Quanhong Yao ) 한국미생물 · 생명공학회 2018 Journal of microbiology and biotechnology Vol.28 No.12

Laccases can oxidize a variety of phenolic and non-phenolic substrates including synthetic dyes. In this research, a laccase gene Lcc9 from Laccaria bicolor was chemically synthesized and optimized to heterogeneous expression in Pichia pastoris and Arabidopsis thaliana. The properties of recombinant laccase expressed by P. pastoris were investigated. The laccase activity was optimal at 3.6 pH and 40°C. It exhibited K_m and V_max values of 0.565 mmol l^-1 and 1.51 μmol l^-1 min^-1 for ABTS respectively. As compared with untransformed control plants, the laccase activity in crude extracts of transgenic lines exhibited a 5.4 to 12.4-fold increase. Both laccases expressed in transgenic P. pastoris or A. thaliana could decolorize crystal violet. These results indicated that L. bicolor laccase gene may be transgenically exploited in fungi or plants for dye decolorization.

Surface and foam property of perfluoroalkyl polyoxyethylene ether phosphate salt in aqueous-ethanol system

Bo Ning,Yan Wang,Mi Zhang,Yanyun Bai,Xiumei Tai,Wanxu Wang,Guoyong Wang 한국공업화학회 2021 Journal of Industrial and Engineering Chemistry Vol.94 No.-

Foam is used in manyfields with excellent performance. Moreover, disinfectants with ethanol as themain ingredient have increasingly been used in people's lives. However, the foam research of an ethanolwatermixed system is still in the initial stage. In this work, a perfluoroalkyl polyoxyethylene etherphosphate salt surfactant (FEP-Na) was synthesized through a new molecular design. The surfactant hasgood interfacial adsorption behavior in 50% ethanol-water mixing system, and the approximatelyspherical aggregates are observed in the volume phase of the solution. Moreover, FEP-Na showed goodfoaming property in 50% ethanol-water mixed solution. Interestingly, high concentration solutions withhigh surface activity have lower foam stability. And under the microscope, we see that the bubble burst isdominated by the phenomenon of coalescence. In this regard, we explain the mechanism of foamstability by electrostatic double layer theory and interfacial dilation rheology. It provides a new choice forthe synthesis of foaming agent in the ethanol-water mixed system at a concentration of 50%.

Overexpression of a maize MYB48 gene confers drought tolerance in transgenic arabidopsis plants

Yan Wang,Qianqian Wang,MingLi Liu,Chen Bo, Xi Wang,Qing Ma,Beijiu Cheng,Ronghao Cai 한국식물학회 2017 Journal of Plant Biology Vol.60 No.6

MYBs are a vital family of transcription factorsthat play critical roles in plant development and stressresponse. However, knowledge concerning the functions ofMYBs in the non-model plants is still limited. In this study,we isolated a R1-type MYB gene from maize (Zea mays L.),designated as ZmMYB48. Quantitative RT-PCR analysisdemonstrated that ZmMYB48 expression was induced bydrought and ABA treatments. Subcellular localization analysisrevealed that ZmMYB48 protein was targeted to the nucleusin tobacco leaf epidermal cells. Transactivation assay in yeastdemonstrated that ZmMYB48 had transcriptional activationability. Heterologous overexpression of ZmMYB48 inArabidopsis remarkably improved plant tolerance to droughtstress, as determined through physiological analyses ofsurvival rate, relative water content, malonaldehyde content,relative electrolyte leakage and proline content. Moreover,overexpression of ZmMYB48 enhanced the expression ofstress/ABA-responsive genes such as P5CS1, RD22, RD29Band ABI1. In addition, ZmMYB48-overexpressing plantsaccumulated higher content of ABA than WT plants underdrought stress. These results demonstrate that ZmMYB48might act as a positive regulator that participates in thedrought stress response through ABA signalling.

Single machine group scheduling under decreasing lineardeterioration

Ji-Bo Wang,Ai-Xia Guo,Feng Shan,Bo Jiang,Li-Yan Wang 한국전산응용수학회 2007 Journal of applied mathematics & informatics Vol.24 No.1

Cardiac-targeted delivery of nuclear receptor RORα via ultrasound targeted microbubble destruction optimizes the benefits of regular dose of melatonin on sepsis-induced cardiomyopathy

Shanjie Wang,Kegong Chen,Ye Wang,Zeng Wang,Zhaoying Li,JunChen Guo,Jianfeng Chen,Wenhua Liu,Xiaohui Guo,Guangcan Yan,Chenchen Liang,Huai Yu,Shaohong Fang,Bo Yu 한국생체재료학회 2023 생체재료학회지 Vol.27 No.00

Background Large-dose melatonin treatment in animal experiments was hardly translated into humans, which may explain the dilemma that the protective effects against myocardial injury in animal have been challenged by clinical trials. Ultrasound-targeted microbubble destruction (UTMD) has been considered a promising drug and gene delivery system to the target tissue. We aim to investigate whether cardiac gene delivery of melatonin receptor mediated by UTMD technology optimizes the efficacy of clinically equivalent dose of melatonin in sepsis-induced cardiomyopathy. Methods Melatonin and cardiac melatonin receptors in patients and rat models with lipopolysaccharide (LPS)- or cecal ligation and puncture (CLP)-induced sepsis were assessed. Rats received UTMD-mediated cardiac delivery of RORα/cationic microbubbles (CMBs) at 1, 3 and 5 days before CLP surgery. Echocardiography, histopathology and oxylipin metabolomics were assessed at 16–20 h after inducing fatal sepsis. Results We observed that patients with sepsis have lower serum melatonin than healthy controls, which was observed in the blood and hearts of Sprague–Dawley rat models with LPS- or CLP-induced sepsis. Notably, a mild dose (2.5 mg/kg) of intravenous melatonin did not substantially improve septic cardiomyopathy. We found decreased nuclear receptors RORα, not melatonin receptors MT1/2, under lethal sepsis that may weaken the potential benefits of a mild dose of melatonin treatment. In vivo, repeated UTMD-mediated cardiac delivery of RORα/CMBs exhibited favorable biosafety, efficiency and specificity, significantly strengthening the effects of a safe dose of melatonin on heart dysfunction and myocardial injury in septic rats. The cardiac delivery of RORα by UTMD technology and melatonin treatment improved mitochondrial dysfunction and oxylipin profiles, although there was no significant influence on systemic inflammation. Conclusions These findings provide new insights to explain the suboptimal effect of melatonin use in clinic and potential solutions to overcome the challenges. UTMD technology may be a promisingly interdisciplinary pattern against sepsis-induced cardiomyopathy.