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 Different Cooling Rates in High Rheological Rate Forming Process on Mechanical Properties of Zr57Cu20Al10Ni8Ag5 Bulk Metallic Glass

Xiao‑Bo Mei,Bao‑Chuan Liu,Wei Jiang,Quan Xu,Qi‑Dong Zhang,Yu‑Bai Ma,Fang‑Qiu Zu 대한금속·재료학회 2020 METALS AND MATERIALS International Vol.26 No.9

The influence of cooling rates on the mechanical properties of a Zr-based bulk metallic glass prepared with high rheologicalrate forming (HRRF) was investigated and compared with traditional suction cast methods. Amorphous samples of Zr57Cu-20Ni8Al10Ag5 were prepared in copper molds with different sizes in order to obtain different cooling rates for both HRRFand traditional cast methods. These specimens were subjected to compression experiments, including microhardness testing,X-ray diffraction testing and differential scanning calorimetry analysis. The results indicate that the plasticity of the samplesformed by HRRF are higher than that of the as-cast ones at the same cooling rates, while the microhardness manifests theopposite principle. As the cooling rate increases further, the difference in plasticity further increases between two methods,indicating that the plasticity of metallic glasses is more sensitive to cooling rates during the HRRF process. At the core ofthis phenomenon is the fact that HRRF methods can introduce more free volume into glasses than traditional cast methodswith an elevated cooling rate are able to.

A Pseudo-Plastic Engagement Effect on the Toughening of Discontinuous Fiber-reinforced Brittle Composites

Liu, Xiao Yu,Yan, Wei Dong,Liang, Nai Gang 대한금속재료학회(대한금속학회) 1998 METALS AND MATERIALS International Vol.4 No.3

In brittle composites, such as whisker reinforced ceramics, the sliding of reinforcing fibers against the frictional resistance of matrix is of a pseudo-plastic deformation mechanism. High aspect-ratio whiskers possess larger pseudo-plastic deformation ability but are usually sparse; while, low aspect-ratio ones were distributed widely in the matrix and show low pseudo-plastic deformation ability (engagement effect), also. A comparative investigation was carried out in present study based on a multi-scale network model. The results indicate that the effect of low aspect-ratio whiskers is of most importance. Improving the engagement coefficient by raising the compactness of material seems a more practical way for optimization of discontinuous fiber-reinforced brittle composites in the present technological condition.

Gene-metabolite network analysis in different nonalcoholic fatty liver disease phenotypes

Xiao-Lin Liu,Ya-Nan Ming,Jing-Yi Zhang,Xiao-Yu Chen,Min-De Zeng,Yi-Min Mao 생화학분자생물학회 2017 Experimental and molecular medicine Vol.49 No.-

We sought to identify common key regulators and build a gene-metabolite network in different nonalcoholic fatty liver disease (NAFLD) phenotypes. We used a high-fat diet (HFD), a methionine-choline-deficient diet (MCDD) and streptozocin (STZ) to establish nonalcoholic fatty liver (NAFL), nonalcoholic steatohepatitis (NASH) and NAFL+type 2 diabetes mellitus (T2DM) in rat models, respectively. Transcriptomics and metabolomics analyses were performed in rat livers and serum. A functional network-based regulation model was constructed using Cytoscape with information derived from transcriptomics and metabolomics. The results revealed that 96 genes, 17 liver metabolites and 4 serum metabolites consistently changed in different NAFLD phenotypes (42-fold, Po0.05). Gene-metabolite network analysis identified ccl2 and jun as hubs with the largest connections to other genes, which were mainly involved in tumor necrosis factor, P53, nuclear factor-kappa B, chemokine, peroxisome proliferator activated receptor and Toll-like receptor signaling pathways. The specifically regulated genes and metabolites in different NAFLD phenotypes constructed their own networks, which were mainly involved in the lipid and fatty acid metabolism in HFD models, the inflammatory and immune response in MCDD models, and the AMPK signaling pathway and response to insulin in HFD+STZ models. Our study identified networks showing the general and specific characteristics in different NAFLD phenotypes, complementing the genetic and metabolic features in NAFLD with hepatic and extra-hepatic manifestations.

Fumigaclavine C attenuates adipogenesis in 3T3-L1 adipocytes and ameliorates lipid accumulation in high-fat diet-induced obese mice

Yu, Wan-Guo,He, Yun,Chen, Yun-Fang,Gao, Xiao-Yao,Ning, Wan-E,Liu, Chun-You,Tang, Ting-Fan,Liu, Quan,Huang, Xiao-Cheng The Korean Society of Pharmacology 2019 The Korean Journal of Physiology & Pharmacology Vol.23 No.3

Fumigaclavine C (FC), an active indole alkaloid, is obtained from endophytic Aspergillus terreus (strain No. FC118) by the root of Rhizophora stylosa (Rhizophoraceae). This study is designed to evaluate whether FC has anti-adipogenic effects in 3T3-L1 adipocytes and whether it ameliorates lipid accumulation in high-fat diet (HFD)-induced obese mice. FC notably increased the levels of glycerol in the culture supernatants and markedly reduced lipid accumulation in 3T3-L1 adipocytes. FC differentially inhibited the expressions of adipogenesis-related genes, including the peroxisome proliferator-activated receptor proteins, CCAAT/enhancer-binding proteins, and sterol regulatory element-binding proteins. FC markedly reduced the expressions of lipid synthesis-related genes, such as the fatty acid binding protein, lipoprotein lipase, and fatty acid synthase. Furthermore, FC significantly increased the expressions of lipolysis-related genes, such as the hormone-sensitive lipase, Aquaporin-7, and adipose triglyceride lipase. In HFD-induced obese mice, intraperitoneal injections of FC decreased both the body weight and visceral adipose tissue weight. FC administration significantly reduced lipid accumulation. Moreover, FC could dose-dependently and differentially regulate the expressions of lipid metabolism-related transcription factors. All these data indicated that FC exhibited anti-obesity effects through modulating adipogenesis and lipolysis.

Three Non-Aspartate Amino Acid Mutations in the ComA Response Regulator Receiver Motif Severely Decrease Surfactin Production, Competence Development, and Spore Formation in Bacillus subtilis

( Xiao Yu Wang ),( Chun Ping Luo ),( You Zhou Liu ),( Ya Feng Nie ),( Yong Feng Liu ),( Rong Sheng Zhang ),( Zhi Yi Chen ) 한국미생물 · 생명공학회 2010 Journal of microbiology and biotechnology Vol.20 No.2

Berry-Esseen bounds of recursive kernel estimator of density under strong mixing assumptions

Yu-Xiao Liu,Si-Li Niu 대한수학회 2017 대한수학회보 Vol.54 No.1

Let $\{X_i\}$ be a sequence of stationary $\a$-mixing random variables with probability density function $f(x)$. The recursive kernel estimators of $f(x)$ are defined by $$ \widehat{f}_n(x)=\frac{1}{n\sqrt{b_n}}\sum^n_{j=1}b_j^{-\frac{1}{2}}K\Big(\frac{x-X_j}{b_j}\Big)~~\mbox{and}~~ \widetilde{f}_n(x)=\frac{1}{n}\sum^n_{j=1}\frac{1}{b_j}K\Big(\frac{x-X_j}{b_j}\Big), $$ where $0<b_n\rightarrow 0$ is bandwith and $K$ is some kernel function. Under appropriate conditions, we establish the Berry-Esseen bounds for these estimators of $f(x)$, which show the convergence rates of asymptotic normality of the estimators.

BERRY-ESSEEN BOUNDS OF RECURSIVE KERNEL ESTIMATOR OF DENSITY UNDER STRONG MIXING ASSUMPTIONS

Liu, Yu-Xiao,Niu, Si-Li Korean Mathematical Society 2017 대한수학회보 Vol.54 No.1

Let {$X_i$} be a sequence of stationary ${\alpha}-mixing$ random variables with probability density function f(x). The recursive kernel estimators of f(x) are defined by $$\hat{f}_n(x)={\frac{1}{n\sqrt{b_n}}{\sum_{j=1}^{n}}b_j{^{-\frac{1}{2}}K(\frac{x-X_j}{b_j})\;and\;{\tilde{f}}_n(x)={\frac{1}{n}}{\sum_{j=1}^{n}}{\frac{1}{b_j}}K(\frac{x-X_j}{b_j})$$, where 0 < $b_n{\rightarrow}0$ is bandwith and K is some kernel function. Under appropriate conditions, we establish the Berry-Esseen bounds for these estimators of f(x), which show the convergence rates of asymptotic normality of the estimators.

Taguchi Approach for Anti-heat Stress Prescription Compatibility in Mice Spleen Lymphocytes In Vitro

Xiao-yu Zhu,Gui-lin Cheng,Feng-hua Liu,Jin Yu,Yu-jie Wang,Tong-quan Yu,Jian-qin Xu,Ming Wang 대한약학회 2011 Archives of Pharmacal Research Vol.34 No.7

Heat stress (HS) may induce immunosuppression as well as inhibit the proliferation of lymphocytes. This study evaluated the effects on immune function of our prescription on splenic lymphocytes under HS as well as its compatibility. The effects of four herbal extracts from Agastache rugosa, Atractylodes lancea, Cortex Phellodendri, and Gypsum Fibrosum on heat treated splenic lymphocytes were investigated and the compatibility of the prescription was also explored by using the Taguchi method. This study revealed changes in proliferation by traditional Chinese medicines of splenic lymphocytes after HS. Proliferation in the HS group was significantly lower than the control group. Under HS, the effects of higher concentrations of Agastache rugosa (100 and 200 μg/mL), Atractylodes lancea (100 and 200 μg/mL), Cortex Phellodendri (50 and 100 μg/mL) and Gypsum Fibrosum (100 and 200 μg/mL) caused a significant increase on ConA/LPS-induced proliferation of lymphocytes than lower concentrations. We, therefore, conclude that the prescription of traditional Chinese medicines may recover splenic lymphocytes from the immunosuppression induced by HS. The Taguchi design, which allows rapid and high efficiency for the selection of the best conditions for our prescription on HS-treated splenic lymphocytes, demonstrated that Agastache rugosa (200 μg/mL), Atractylodes lancea (200 μg/mL), Cortex Phellodendri (100 μg/mL) and Gypsum Fibrosum (100 μg/mL)were the optimal conditions for the prescription. The validation experiment confirmed that our composition in optimum extraction conditions enhanced effects on ConA or LPS-stimulated lymphocytes under HS. The results showed that the Taguchi optimization approach is a suitable method for optimization of the composition of prescription.

Annual Financial Impact of Thyroidectomies for Nodular Thyroid Disease in China

Liu, Xiao-Yun,Zhu, Li-Jun,Cui, Dai,Wang, Zhi-Xiao,Chen, Huan-Huan,Duan, Yu,Shen, Mei-Ping,Zhang, Zhi-Hong,Wang, Xiao-Dong,Chen, Jia-Wei,Alexander, Erik Karl,Yang, Tao Asian Pacific Journal of Cancer Prevention 2014 Asian Pacific journal of cancer prevention Vol.15 No.14

A large proportion of patients with thyroid nodules in China undergo thyroidectomy in order to get confirmatory histology diagnosis. The financial impact of this modality remains to be investigated. To evaluate rationality of performing thyroidectomy without a routine FNA preoperatively from the economic perspective, we conducted a retrospective, observational study of all archival thyroidectomies with records of cost per stay (CPS), cost per day (CPD) and length of stay (LOS) from 2008 to 2013 in the First Affiliated Hospital of Nanjing Medical University. We compared all the parameters between cancer and non-cancer thyroidectomies. We recruited 6, 140 thyroidectomies with valid records of CPS, CPD and LOS in this period. The CPS of cancer thyroidectomy was significantly higher than non-cancer thyroidectomy. The percentage of cancer thyroidectomy increased from 26.5% to 41.6%. The percentage of annual cost of cancer thyroidectomies rose from 30.2% to 45.2%. The LOS for cancer and non-cancer thyroidectomy decreased while the CPD increased in the past six years. The estimated national cost in 2012 for all thyroidectomies would be USD 1.86 billion with USD 1.09 billion for non-cancer thyroidectomies. We have witnessed great improvement in the healthcare for patients with thyroid nodules in China. However, given limited healthcare resources, currently thyroid FNA for more precise preoperative diagnosis may help to curb the rapidly increasing demand in healthcare costs in the future for nodular thyroid disease in China.