Transcriptome analysis reveals sunflower cytochrome P450 CYP93A1 responses to high salinity treatment at the seedling stage

Peng Wang,Lingling Ma,Ya Li,Shu’an Wang,Linfang Li,Rutong Yang 한국유전학회 2017 Genes & Genomics Vol.39 No.6

Sunflower (Helianthus annuus) is an important global source of plant lipids and protein for food and other industries. Salinity is an abiotic stress that affects sunflower yield. Although recent studies have revealed that the cytochrome P450 (CYP) 93 family is involved in biotic and abiotic stresses, the relationship between the CYP93A gene and salt stress is not well understood in sunflower. In the present study, we performed transcriptome analysis of a relatively salt-tolerant sunflower variety ‘Xinkui 10’ at the seedling stage under high salinity treatment. Following de novo assembly, 66,426 unigenes were obtained, 45,724 (68.83%) of which were annotated. 5,852 differentially expressed genes (DEGs) were identified 11 distinct clusters in which three main clusters (K1–K3) accounted for 94.39% of DEGs. Mapman analysis showed that CYP450 genes were greatly enriched in cluster K3 and one continuously up-regulated gene, HaCYP93A1, was identified among 248 common DEGs in the transcriptome of ‘Xinkui 10’. Real-time quantitative RT-PCR (qRT-PCR) analysis indicated that transcript levels of HaCYP93A1 were induced by high salinity and jasmonic acid (JA) in roots. Meanwhile, three JA-biosynthesis genes (allene oxide cyclase 3 [AOC3], lipoxygenase 3 [LOX3], and allene oxide synthase [AOS]) in roots were up-regulated under salinity treatment. Moreover, correlation analysis indicated that the expression of HaCYP93A1 was markedly related with the JA-biosynthesis genes. Our results suggested that HaCYP93A1 might be involved in the salt tolerance pathway by regulating JA signaling in sunflower.

Transcriptome profiling of indole-3-butyric acid-induced adventitious root formation in softwood cuttings of the Catalpa bungei variety ‘YU-1’ at different developmental stages

Peng Wang,Ya Li,Lingling Ma,Shu’an Wang,Linfang Li,Rutong Yang,Yuzhu Ma,Qing Wang 한국유전학회 2016 Genes & Genomics Vol.38 No.2

Catalpa bungei is a deciduous tree native to China. It is characterized as fast growing, being highly adaptable, and having excellent wood qualities. To better understand potential mechanisms involved in adventitious root (AR) formation, we performed transcriptome analysis of softwood cuttings of C. bungei ‘Yu-1’ at three stages of AR formation using the Illumina sequencing method. Following de novo assembly, 62,955 unigenes were obtained, 31,646 (50.26 %) of which were annotated. A total of 11,100 differentially expressed genes (DEGs), including 10,200 unique and 900 common, were identified in four comparisons. Based on the all GO enrichment networks, 46 common and 7 unique GO categories were identified. Cytoskeleton was only significantly enriched in the activation period, while DNA metabolic process was only significantly enriched in the callus formation. Functional annotation analysis revealed that many of these genes were involved in phenylpropanoid biosynthesis, glycolysis, and plant hormone metabolism, suggesting potential contributions to AR formation. Interestingly, the number of DEGs involved in glycolysis decreased while the number of DEGs involved in phenylpropanoid biosynthesis increased following the AR formative process. Overall, our comprehensive transcriptional overview will prove useful, not only in the understanding of molecular networks that regulate AR formation in C. bungei, but also for exploring genes that may improve rooting rates of other trees.

Evolution of ALPPS: The Simpler, Safer and Effective One---TELPP

( Shu You Peng ),( Xu An Wang ),( Cong Yun Huang ),( You Yong Zhang ),( Jiang Tao Li ),( De Fei Hong ),( Xiu Jun Cai ),( Yi Fang Wang ),( Xiao Liang ),( Jian Wei Wang ) 대한간학회 2017 춘·추계 학술대회 (KASL) Vol.2017 No.1

Aims: The characteristic of associating liver partition and portal vein ligation for staged hepatectomy(ALPPS) carries high mortality and morbidity. There is room for improvement. We suggest Terminal Branches Portal Vein Embolization (TBPVE) as a way to compart the liver. As a result, only a single surgical operation is required.This method is termed Terminal branches portal vein Embolization Liver Partition Planned hepatectomy (TELPP). Methods: Patients with unresectable primary or metastatic liver tumor were performed with TELPP. The procedure of TELPP was that in addition to PVE, embolization agent was infused to the terminal branches of portal vein of S5,S8 or S4. CT scan was taken one or two weeks later, and standard liver volume(SLV), FLR and FLR/SLV are calculated. Two weeks later when the FLR and liver function is appropriate, open or laparoscopic hepatectomy is performed. Results: The study included 11patients including hepatocellular carcinoma: n =8, intrahepatic cholangiocarcinoma: n = 1, hilarcholangiocarcinoma: n =1, colorectal liver metastasis: n =1. After a waiting period of 14 days, the volume of theFLR had increased from 382mlto 578ml, representing a median volume increase of 51% (range =32.5%-86.7%). Of the 11patients with hepatectomy, right hemihepatectomy (n=2), extended right hemihepatectomy (n=5), right trisecmentectomy(2), extended left hemihepatectomy (n=1) and left trisecmentectomy(1). No patient died, and no serve perioperative morbidity occurred. Conclusions: ALPPS and all modifications need two-stage operations with a high morbidity and mortality rate. It seems that TELPP is very promising. It has the merit of ALPPS as extraordinarily rapid increasement of FLRvolume, yet the morbidity and mortality is much lower, owing to the fact that unlike ALPPS, there is no two liver raw surfaces left behind in the abdominal cavity to produce bile leak, as only single surgical operation is required

Chemoenzymatic Synthesis of Dual-responsive Amphiphilic Block Copolymers and Drug Release Studies

Peng Chen,Ya-Peng Li,Shu-Wei Wang,Xin-Lei Meng,Ming Zhu,Jing-Yuan Wang 대한화학회 2013 Bulletin of the Korean Chemical Society Vol.34 No.6

Dual-responsive amphiphilic block copolymers were synthesized by combining enzymatic ring-opening polymerization (eROP) of ε-caprolactone (CL) and ATRP of N,N-dimethylamino-2-ethyl methacrylate (DMAEMA). The obtained block copolymers were characterized by gel permeation chromatography (GPC), 1H NMR and FTIR-IR. The critical micelle concentration (CMC) of copolymer was determined by fluorescence spectra, it can be found that with hydrophilic block (PDMAEMA) increasing, CMC value of the polymer sample increased accordingly, and the CMC value was 0.012 mg/mL, 0.025 mg/mL and 0.037 mg/ mL for PCL50-b-PDMAEMA68, PCL50-b-PDMAEMA89, PCL50-b-PDMAEMA112, PCL50-b-PDMAEMA89 was chosen as drug carrier to study in vitro release profile of anti-cancer drug (taxol). The temperature and pH dependence of the values of hydrodynamic diameter (Dh) of micelles, and self-assembly of the resulting block copolymers in water were evaluated by dynamic light scattering (DLS). The result showed that with the temperature increasing and pH decreasing, the Dh decreased. Drug-loaded nanoparticles were fabricated using paclitaxel as model. Transmission electron microscopy (TEM) and atomic force microscopy (AFM) had been explored to study the morphology of the hollow micelles and the nanoparticles, revealing well-dispersed spheres with the average diameters both around 80 nm. In vitro release kinetics of paclitaxel from the nanoparticles was also investigated in different conditions (pH and temperature, etc.), revealing that the drug release was triggered by temperature changes upon the lower critical solution temperature (LCST) at pH 7.4, and at 37 °C by an increase of pH.

Synthesis of Tailed Metalloporphyrins Modified with 2-Chloronicotinic Acid and Interactions with Human Serum Albumin

Shu-Jun Wang,Yu-Ling Peng,Cheng-Gen Zhang,Qi Peng Ma,Xiao Xia Peng,Li Lei Ren 대한화학회 2017 Bulletin of the Korean Chemical Society Vol.38 No.7

Two kinds of free-base tailed porphyrins modified with 2-chloronicotinic acid and the corresponding Zn porphyrins have been synthesized. They have been characterized by elemental analysis and NMR, UV/Vis, fluorescence spectra, and infrared spectroscopies. Their configurations have been optimized through theoretical calculations. The fluorescence quantum yields were determined by a comparative method. The interactions between the Zn porphyrins and human serum albumin have been studied by means of fluorescence spectra. The experimental results showed that the interaction mechanism involved a combined fluorescence quenching process (static and dynamic quenching) and that the main driving force was hydrophobic in nature. Quenching constants, binding constants, thermodynamic parameters, and binding distances have been determined.

Prognostic Significance of Interactions Between ER Alpha and ER Beta and Lymph Node Status in Breast Cancer Cases

Han, Shu-Jing,Guo, Qing-Qing,Wang, Ting,Wang, You-Xin,Zhang, Yu-Xiang,Liu, Fen,Luo, Yan-Xia,Zhang, Jie,Wang, You-Li,Yan, Yu-Xiang,Peng, Xiao-Xia,Ling, Rui,He, Yan Asian Pacific Journal of Cancer Prevention 2013 Asian Pacific journal of cancer prevention Vol.14 No.10

Objective: Both estrogen receptors, ER alpha ($ER{\alpha}$) and ER beta ($ER{\beta}$), are expressed in 50-70% of breast cancer cases. The role of $ER{\alpha}$ as a prognostic marker in breast cancer has been well established as its expression is negative correlated with tumor size and lymph node metastasis. $ER{\beta}$ is also a favorable prognostic predictor although this is less well documented than for $ER{\alpha}$. Materials and Methods: To explore whether ERs independently or together might influence clinical outcome in breast cancer, the correlation between the ERs with the clinicopathological features was analyzed in 84 patients. Results: $ER{\alpha}$ expression negatively correlated with tumor stage (r=-0.246, p=0.028) and tended to be negatively correlated with lymph node status (r=-0.156, p=0.168) and tumor size (r=-0.246, p=0.099). Also, $ER{\beta}$ was negatively correlated with nodal status (r=-0.243, p=0.028), as was coexpression of $ER{\alpha}$ and $ER{\beta}$ (p=0.043, OR=0.194, 95% CI= 0.040-0.953). Conclusion: Coexpression of ERs might serve as an indicator of good prognosis in breast cancer patients.

Chemoenzymatic Synthesis of Dual-responsive Amphiphilic Block Copolymers and Drug Release Studies

Chen, Peng,Li, Ya-Peng,Wang, Shu-Wei,Meng, Xin-Lei,Zhu, Ming,Wang, Jing-Yuan Korean Chemical Society 2013 Bulletin of the Korean Chemical Society Vol.34 No.6

Dual-responsive amphiphilic block copolymers were synthesized by combining enzymatic ring-opening polymerization (eROP) of ${\varepsilon}$-caprolactone (CL) and ATRP of N,N-dimethylamino-2-ethyl methacrylate (DMAEMA). The obtained block copolymers were characterized by gel permeation chromatography (GPC), $^1H$ NMR and FTIR-IR. The critical micelle concentration (CMC) of copolymer was determined by fluorescence spectra, it can be found that with hydrophilic block (PDMAEMA) increasing, CMC value of the polymer sample increased accordingly, and the CMC value was 0.012 mg/mL, 0.025 mg/mL and 0.037 mg/mL for $PCL_{50}$-b-$PDMAEMA_{68}$, $PCL_{50}$-b-$PDMAEMA_{89}$, $PCL_{50}$-b-$PDMAEMA_{112}$, $PCL_{50}$-b-$PDMAEMA_{89}$ was chosen as drug carrier to study in vitro release profile of anti-cancer drug (taxol). The temperature and pH dependence of the values of hydrodynamic diameter (Dh) of micelles, and self-assembly of the resulting block copolymers in water were evaluated by dynamic light scattering (DLS). The result showed that with the temperature increasing and pH decreasing, the Dh decreased. Drug-loaded nanoparticles were fabricated using paclitaxel as model. Transmission electron microscopy (TEM) and atomic force microscopy (AFM) had been explored to study the morphology of the hollow micelles and the nanoparticles, revealing well-dispersed spheres with the average diameters both around 80 nm. In vitro release kinetics of paclitaxel from the nanoparticles was also investigated in different conditions (pH and temperature, etc.), revealing that the drug release was triggered by temperature changes upon the lower critical solution temperature (LCST) at pH 7.4, and at $37^{\circ}C$ by an increase of pH.

Rapid Melt Polycondensation of L-Lactic Acid under Microwave Irradiation

Shu Jing,Wang Peng,Zhang Yingmin,Mi Xiaojuan 한국고분자학회 2006 Macromolecular Research Vol.14 No.6

Protein profiling predicts the response to anthracycline and taxanes based neo-adjuvant chemotherapy in breast cancer

Shu Wang,Houpu Yang,Jiajia Guo,Miao Liu,Fuzhong Tong,Yingming Cao,Bo Zhou,Peng Liu,Lin Cheng,Fei Xie,Deqi Yang,Jiaqing Zhang 한국바이오칩학회 2011 BioChip Journal Vol.5 No.1

Neo-adjuvant chemotherapy for breast cancer substantially benefits patients who achieve pathological response. However, clinical or pathological response information can only be obtained a period of time after chemotherapy. The identification of novel bio-markers or the application of new technique that can be used to predict treatment response before che-motherapy would allow therapy to be tailored on an individual patient basis. The purpose of this study is to identify the chemo-sensitivity and chemo-resistance related proteins using antibody microarray profiling, and to develop a multi-protein predictive model for breast cancer. Total protein was extracted from core needle biopsy samples obtained from 15 patients before treatment with neo-adjuvant TA(combination of taxanes and anthracycline) chemotherapy. Protein profiling was analyzed by antibody microarray. 10 pati-ents were used as training set to develop the predictive model using the software PAM(prediction analysis of microarray). Another 5 patients were used as a validation set to test the model. In cross-validation, the mole-cular predictive model showed an accuracy of 90%, in independent validation, the model classified the cases with an accuracy of 80%. In conclusion, the proteomic predictive model has the potential to predict pathological response to neo-adjuvant TA chemotherapy.

Robust Generalized Labeled Multi-Bernoulli Filter and Smoother for Multiple Target Tracking using Variational Bayesian

Peng Li,Wenhui Wang,Junda Qiu,Congzhe You,Zhenqiu Shu 한국인터넷정보학회 2022 KSII Transactions on Internet and Information Syst Vol.16 No.3

Multiple target tracking mainly focuses on tracking unknown number of targets in the complex environment of clutter and missed detection. The generalized labeled multi-Bernoulli (GLMB) filter has been shown to be an effective approach and attracted extensive attention. However, in the scenarios where the clutter rate is high or measurement-outliers often occur, the performance of the GLMB filter will significantly decline due to the Gaussian-based likelihood function is sensitive to clutter. To solve this problem, this paper presents a robust GLMB filter and smoother to improve the tracking performance in the scenarios with high clutter rate, low detection probability, and measurement-outliers. Firstly, a Student-T distribution variational Bayesian (TDVB) filtering technology is employed to update targets’ states. Then, The likelihood weight in the tracking process is deduced again. Finally, a trajectory smoothing method is proposed to improve the integrative tracking performance. The proposed method are compared with recent multiple target tracking filters, and the simulation results show that the proposed method can effectively improve tracking accuracy in the scenarios with high clutter rate, low detection rate and measurement-outliers. Code is published on GitHub.