A Modified BFGS Formula Using a Trust Region Model for Nonsmooth Convex Minimizations

This paper proposes a modified BFGS formula using a trust region model for solving nonsmooth convex minimizations by using the Moreau-Yosida regularization (smoothing) approach and a new secant equation with a BFGS update formula. Our algorithm uses the function value information and gradient value information to compute the Hessian. The Hessian matrix is updated by the BFGS formula rather than using second-order information of the function, thus decreasing the workload and time involved in the computation. Under suitable conditions, the algorithm converges globally to an optimal solution. Numerical results show that this algorithm can successfully solve nonsmooth unconstrained convex problems.     

Synthesis of chemoreversible prodrugs of ARA-C

The synthesis of N⁴-peptidyl- derivatives of ara-C (1) is described. In these derivatives, the active drug is released by an intramolecular cyclization process with formation of a six-membered heterocycle. No enzymatic or solvolytic conversion is necessary. NMR studies of the rates of cyclization is basic and acidic environment are discussed.     

Global Validation of a Process-Based Model on Vegetation Gross Primary Production Using Eddy Covariance Observations

Gross Primary Production (GPP) is the largest flux in the global carbon cycle. However, large uncertainties in current global estimations persist. In this study, we examined the performance of a process-based model (Integrated BIosphere Simulator, IBIS) at 62 eddy covariance sites around the world. Our results indicated that the IBIS model explained 60% of the observed variation in daily GPP at all validation sites. Comparison with a satellite-based vegetation model (Eddy Covariance-Light Use Efficiency, EC-LUE) revealed that the IBIS simulations yielded comparable GPP results as the EC-LUE model. Global mean GPP estimated by the IBIS model was 107.50±1.37 Pg C year⁻¹ (mean value ± standard deviation) across the vegetated area for the period 2000–2006, consistent with the results of the EC-LUE model (109.39±1.48 Pg C year⁻¹). To evaluate the uncertainty introduced by the parameter V_cmax, which represents the maximum photosynthetic capacity, we inversed V_cmax using Markov Chain-Monte Carlo (MCMC) procedures. Using the inversed V_cmax values, the simulated global GPP increased by 16.5 Pg C year⁻¹, indicating that IBIS model is sensitive to V_cmax, and large uncertainty exists in model parameterization.     

我国北方植被指数对土壤湿度的敏感性分析

土壤湿度对植被指数起着重要的作用。利用NOAA-AVHRR数据中的植被指数(NDVI)和我国气象台站所监测的土壤湿度数据,对我国北方地区的NDVI与土壤湿度的关系进行了研究。结果表明,近18年来,北方地区土壤湿度不同区域其变化趋势存在差异,西北地区土壤湿度在增加,而华北和东北地区土壤湿度在下降。NDVI对土壤湿度的响应也存在着明显的区域差异,我国西北地区植被对土壤湿度的敏感性最强,其次是华北地区,敏感性弱的是东北地区;对于不同层次的土壤湿度,也表现为同样的区域特点。但随着土壤深度的增加,敏感性减弱。这种敏感性也表现在不同季节变化上,春季华北地区土壤湿度对植被指数影响较大,其次是西北和东北地区,夏季和秋季北方地区土壤湿度与植被指数都有较好的相关性,以西北地区的相关系数最大,而冬季北方地区植被指数对土壤湿度都不敏感。     

假苍耳的生活史进程中几种生理生化指标的变化

本文试图从生理生化的角度对假苍耳(Iva xanthifolia)生活史进程中可溶性糖类、赤霉素、单宁以及黄酮的变化进行探讨。通过对假苍耳在生长发育期间几种生理生化指标的测定,结果表明,在假苍耳生活史进程的不同阶段,其体内各种代谢产物的含量基本都在种子或芽阶段具有最高含量。此外,不同发育阶段可溶性还原糖含量的变化规律相似：芽＞花序＞苗＞成株＞种子。除在花序和苗阶段没有测到海藻糖,其他各阶段海藻糖的含量变化如下：芽＞成株＞种子。另外,只有在种子阶段检测到棉子糖,其含量为15.43 mg·g~(-1)。赤霉素含量的变化规律如下：种子＞芽≈苗≈花序＞成株。单宁含量的变化趋势：种子＞成株＞苗＞芽＞花序。黄酮含量的变化趋势：种子＞芽＞成株≈花序＞苗。值得注意的是,当单宁/黄酮的比值接近1时,植物体内需要的单宁和黄酮的含量则相对较低;相反,当单宁/黄酮的比值接近0时,植物体内需要的单宁和黄酮的含量则较高。     

一种新的DyP-type过氧化物酶在大肠杆菌中的重组表达、纯化及鉴定

染料脱色过氧化物酶(DyP-type过氧化物酶)是含有亚铁血红素,能降解各种有毒染料的一类蛋白.为了研究运动发酵单胞菌Zymomonas mobilis ZM4 (ATCC 31821)中一种新的DyP-type过氧化物酶的特点和功能,以Z.mobilis基因组DNA为模板,通过PCR扩增目的基因,克隆到大肠杆菌表达载体pET-21b(+)中.通过ZmDyP与其他DyP-type过氧化物酶的比对,发现它们存在着共同保守氨基酸D149、R239、T254、F256和GXXDG结构基序,说明ZmDyP是Dyp-type过氧化物酶家族的一个新成员.经IPTG诱导大肠杆菌中pET21 b(+)-ZmDyP表达,并将表达的酶进行金属螯合层析纯化.SDS-PAGE分析表明,纯酶分子量为36 kDa,而活性染色显示分子量为108 kDa,表明该酶在活性状态下可能是一个三聚体.光谱扫描显示ZmDyP有一个典型的亚铁血红素吸收峰,说明它是含有亚铁血红素的蛋白.对ZmDyP性质进行了研究,发现以2,2-二氨-双(3-乙基苯并噻唑-6-磺酸)ABTS为底物,ZmDyP表现出更高的转化效率.这些研究结果丰富了DyP-type 过氧化物酶家族信息,并且为ZmDyP的结构功能和反应机制研究奠定了基础.     

离子对高效液相色谱法分析黄瓜花叶病毒侵染烟草的总RNA水平变化

为研究植物病毒在RNA水平上对寄主植物的基因表达产生的影响,采用离子对高效液相色谱法,对黄瓜花叶病毒侵染烟草造成的总RNA的组成成分变化进行研究。离子对液相色谱法,是近几年才应用于对RNA进行分离、纯化和分析的一种试验技术,具有操作简单、重复性好、所需时间短等优点。选择适宜的离子对试剂,并对选定的离子对试剂正己胺/1,1,1,3,3,3-六氟-2-丙醇进行了优化,达到了较好的总RNA分离效果,并观察到健康植株和染病植株分离峰之间的差异,有差异的RNA种类还需进一步试验来验证。为研究植物病毒的致病机制提供一种新的试验方法和途径。     

Improved Detection of Rare HIV-1 Variants using 454 Pyrosequencing

454 pyrosequencing, a massively parallel sequencing (MPS) technology, is often used to study HIV genetic variation. However, the substantial mismatch error rate of the PCR required to prepare HIV-containing samples for pyrosequencing has limited the detection of rare variants within viral populations to those present above ~1%. To improve detection of rare variants, we varied PCR enzymes and conditions to identify those that combined high sensitivity with a low error rate. Substitution errors were found to vary up to 3-fold between the different enzymes tested. The sensitivity of each enzyme, which impacts the number of templates amplified for pyrosequencing, was shown to vary, although not consistently across genes and different samples. We also describe an amplicon-based method to improve the consistency of read coverage over stretches of the HIV-1 genome. Twenty-two primers were designed to amplify 11 overlapping amplicons in the HIV-1 clade B gag-pol and env gp120 coding regions to encompass 4.7 kb of the viral genome per sample at sensitivities as low as 0.01-0.2%.     

The Significance of Notch1 Compared with Notch3 in High Metastasis and Poor Overall Survival in Hepatocellular Carcinoma

Background

The prognosis for patients with hepatocellular carcinoma (HCC) is poor, and the mechanisms underlying the development of HCC remain unclear. Notch1 and Notch3 may be involved in malignant transformation, although their roles remain unknown.

Materials and Methods

HCC tissues were stained with anti-Notch1 or -Notch3 antibody. The migration and invasion capacities of the cells were measured with transwell cell culture chambers. RT-PCR was used to measure the expression of Notch1 and Notch3 mRNA. Additionally, western blot analysis was used to assess the protein expression of Notch1, Notch3, CD44v6, E-cadherin, matrix metalloproteinase-2 (MMP-2), MMP-9, and urokinase-type plasminogen activator (uPA). RNA interference was used to down-regulate the expression of Notch1 and Notch3. Cell viability was assessed using MTT.

Results

Based on immunohistochemistry, high Notch1 expression was correlated with tumor size, tumor grade, metastasis, venous invasion and AJCC TNM stage. High Notch3 expression was only strongly correlated with metastasis, venous invasion and satellite lesions. Kaplan-Meier curves demonstrated that patients with high Notch1 or Notch3 expression were at a significantly increased risk for shortened survival time. In vitro, the down-regulation of Notch1 decreased the migration and invasion capacities of HCC cells by regulating CD44v6, E-cadherin, MMP-2, MMP-9, and uPA via the COX-2 and ERK1/2 pathways. Down-regulation of Notch3 only decreased the invasion capacity of HCC cells by regulating MMP-2 and MMP-9 via the ERK1/2 pathway.

Conclusions

Based on the migration and invasion of HCC, we hypothesize that targeting Notch1 may be more useful than Notch3 for designing novel preventive and therapeutic strategies for HCC in the near future.