Multiple Site Directed Mutagenesis Strategy Based on Total RNA and RT-PCR Method

Site-directed PCR-based mutagenesis methods are widely used to generate mutations. All published methods work on DNA clones carrying the target sequence. However, DNA clones are not always available. We have previously published a RT-PCR-based site-directed mutagenesis method starting from total RNA to overcome this problem. In this article, we report an improvement of our previous method to facilitate introduction of multiple mutations into a target sequence. We demonstrate the efficacy and feasibility of this strategy by mutation of the human β-actin gene. BamHI restriction endonuclease cleavage sites were generated within the gene to assist screening. Using three mutagenic primers in a single RT-PCR reaction, seven different clones were produced carrying three single and four multiple mutations. An investigation of the effect of the cycle number and elongation time of the PCR reactions revealed that both have an influence on the ratio of clones carrying single and multiple mutations. An optimized protocol was established for efficient multiple site-directed mutagenesis.     

Association of total tooth loss with smoking, drinking alcohol and nutrition in elderly Japanese: analysis of national database

Objective: Various factors may be associated with edentulism in elderly people. Association of total tooth loss with smoking, alcohol intake and nutrition in non‐institutionalised elderly Japanese was assessed utilising national database. Materials and methods: Records of independent surveys, the Survey of Dental Diseases (SDD) and the National Nutrition Survey (NNS) in 1999 were electronically linked using the household identification number. Results: Among the records of 6903 subjects in the SDD and 12 763 subjects in the NNS, 6805 records were successfully linked. Overall, prevalence of total tooth loss in adults was very similar in males and females at approximately 7.0%, and the smoking rate was 47.6% and 9.9% respectively. Total tooth loss was a rare phenomenon (<2%) in age groups of <60 years. According to the multiple logistic regression analysis involving 2200 subjects aged 60 years or older, significant variables were age, current smokers and vitamin C intake in males, and age and current smokers in females. The variable for current drinkers was significant in females but the odds ratio was <1.0. No significant relationship was detected with respect to former smokers and drinkers, body mass index, vitamin E intake and blood glucose level. Conclusions: Current smoking was associated with total tooth loss, although smoking rate was low in females. Gender difference in the association was suggestive with respect to drinking alcohol and vitamin C intake.     

A dynamic mass balance model for phosphorus fluxes and concentrations in coastal areas

This paper presents a general, process-based mass balance model (CoastMab) for total phosphorus (TP) in defined coastal areas (at the ecosystem scale). The model is based on ordinary differential equations and calculates inflow, outflow and internal fluxes on a monthly basis. It consists of four compartments: surface water, deep water, erosion/transportation areas for fine sediments and accumulation areas for fine sediments. The separation between surface water and deep water is not done based on water temperature, but on sedimentological criteria instead (from the theoretical wave base). There are algorithms for all major internal TP fluxes (sedimentation, resuspension, diffusion, mixing and burial). Validations were performed using data from 21 different Baltic coastal areas. The results show that the model predicts monthly TP in water and chlorophyll a very well (generally within the uncertainty bands of the empirical data). The model has also been put through sensitivity tests, which show that the most important factor regulating the predictions of the model is generally the TP concentration in the sea beyond the coast. The model is simple to apply, since all driving variables may be accessed from maps or monitoring programs. The driving variables include coastal area, section area (between the defined coastal area and the adjacent sea), mean and maximum depths, latitude (used to predict water temperatures, stratification and mixing), salinity and TP concentration in the sea. Many of the model structures are general and could be used for areas other than those included in this study, e.g., for open coasts, estuaries or tidal coasts, as well as for other substances than phosphorus.     

高、低氮浓度对2株真眼点藻的生长和油脂积累的影响

【目的】研究氮浓度对真眼点藻纲(Eustigmatophyceae)的2株高产油微藻大真眼点藻(Eustigmatos magnus,EM)和波氏真眼点藻(Eustigmatos polyphem,EP)的细胞形态、生长、总脂含量、脂质组成和脂肪酸组成与含量的时序变化规律。【方法】利用高氮(18.0 mmol/L NO3?-N)和低氮(3.6 mmol/L NO3?-N)浓度培养微藻。【结果】形态观察结果表明,大真眼点藻(E. magnus)和波氏真眼点藻(E. polyphem)营养细胞具有1个周生的裂叶状叶绿体,细胞质中有液泡,内含能够振动的颗粒物,以及一个较为明显的红色色素体;生殖方式通过形成2个D形或4个四角形的似亲孢子;随着培养周期的延伸和营养盐的消耗,细胞中油体逐步形成,其数量不断增加,体积不断增大。实验结果表明,初始氮浓度对2种微藻的总脂积累及生长均有显著影响(P<0.05),低氮浓度下2种微藻的生物质浓度分别为9.0 g/L和8.5 g/L,均低于高氮浓度下的生物质浓度。而低氮浓度下2种微藻的总脂、中性脂和总脂肪酸的含量以及总脂、中性脂与总脂肪酸的单位体积产率均明显高于高氮浓度组,其最高值分别为：59.10%、51.90%、46.95%和0.28、0.24、0.22 g/(L·d) (EM);64.20%、56.80%、50.01%和0.32、0.28、0.25 g/(L·d) (EP)。脂肪酸分析结果表明,两种微藻的脂肪酸主要成分均为棕榈酸(C16:0)、棕榈油酸(C16:1)、油酸(C18:1)和二十碳五烯酸(C20:5,EPA),四者的总含量(占总脂肪酸)分别达到85.83%和85.48%,其中棕榈油酸的含量最高。【结论】低氮浓度胁迫有利于大真眼点藻和波氏真眼点藻细胞内油脂的积累,两种微藻均为适合于生产生物柴油的油脂生产藻株。     

产黄酮银杏内共生真菌的分离及其发酵条件的优化

本文从不同年龄、不同地域的银杏叶、茎、根部组织中分离得到20株银杏内共生真菌,经过发酵复筛有5株的产黄酮能力超过5μg/m L。实验对菌株的最佳发酵产黄酮条件进行了优化,优化条件为:3%葡萄糖、0.5%蛋白胨、0.4%酵母膏、0.3%KH2PO4、0.01%Mg SO4·7H2O;起始p H值7.0、最适发酵温度28℃、摇床转速为140 r/min、装液量125 m L/250 m L。在此条件下,该系列菌株在发酵7 d左右产黄酮量可达6.4μg/m L。     

不同居群五柱绞股蓝叶形变异及总黄酮含量分析

以不同生境的五柱绞股蓝为材料,对4个不同来源的五柱绞股蓝的叶片性状、裂叶数进行了统计,并以芦丁为对照品,采用分光光度法对4个居群五柱绞股蓝的总黄酮含量进行了测定。结果表明,五柱绞股蓝的叶型变异较大,其复叶具有3-9裂叶型类型,以7裂叶型和5裂叶型为主。相关性统计显示,野生型五柱绞股蓝黄酮含量高,与7裂叶型极显著相关,家种型五柱绞股蓝黄酮含量低,与叶型无关,环境因子可能是影响其黄酮含量的主要因子。在引种时,7裂叶型的五柱绞股蓝可作为优选资源引用。     

Effects of residual hydrocarbons on the reed community after 10 years of oil extraction and the effectiveness of different biological indicators for the long-term risk assessments

The selection of certain indicators is critical to undertake ecological risk assessments of long-term oil pollution and other environmental changes. The indicators should be easily and routinely monitored, be sensitive to pollution, respond to pollution in a predictable manner, and match the spatial and temporal scales of investigations. To compare the effectiveness of indicators for the long-term risk assessments, this study investigated the multiple ecological effects of chronic oil pollution on the plant community dominated by reed (Phragmites australis). The physiology, growth and reproduction of reed, together with the composition and productivity of the reed community, were measured around oil wells that have operated for approximately 10 years in the Yellow River Delta, eastern China. The predictive power of each indicator was evaluated using the coefficients of determination (R²) of linear regression models established for each indicator and soil Total Petroleum Hydrocarbons (TPH) concentration. The sensitivities of indicators were evaluated by comparing slopes of new established regression lines using standardized data. The top three indicators in terms of predictive power were leaf length, width and number, followed by the Shannon–Wiener index, Pielou evenness index and Simpson's diversity index. Community aboveground biomass, foliar projective coverage and species richness showed predictive power lower than those of the three diversity indexes, but higher than those of leaf net photosynthetic rate, reed height, aboveground biomass and vertical projective coverage of reed plants. Leaf transpiration, chlorophyll concentration and reed stem density showed no significant linear response to elevated soil TPH concentration. In terms of sensitivity, the top three biological indicators were Pielou evenness index, Simpson's diversity index and Shannon–Wiener index, followed by community vertical projective coverage, community aboveground biomass, and species richness. Leaf number, length and width were moderately sensitive, followed by reed coverage, aboveground biomass and height. The sensitivity of net photosynthetic rate was the lowest. The predictive power and sensitivities of indicators were compared in terms of their spatial and temporal scales. In conclusion, scale can be used to facilitate the selection of indicators, and the combination of different indicators may yield improved understanding of the various effects of elevated soil TPH concentration at the different biological levels.     

Response of nitrifying bacterial communities to the increased thiocyanate concentration in pre-denitrification process

Changes in process performance and the nitrifying bacterial community associated with an increase of thiocyanate (SCN⁻) loading were investigated in a pre-denitrification process treating industrial wastewater. The increased SCN⁻ loading led to the concentration of total nitrogen (TN) in the final effluent, but increasing the internal recycling ratio as an operation parameter from 2 to 5 resulted in a 21% increase in TN removal efficiency. In the aerobic reactor, we found that the Nitrosomonas europaea lineage was the predominant ammonia oxidizing bacteria (AOB) and the percentages of the AOB population within the total bacteria increased from about 4.0% to 17% with increased SCN⁻ concentration. The increase of nitrite loading seemed to change the balance between Nitrospira and Nitrobacter, resulting in the high dominance of Nitrospira over Nitrobacter. Meanwhile, a Thiobacillus thioparus was suggested to be the main microorganism responsible for the SCN⁻ biodegradation observed in the system.     

Enantiomers of naringenin as pleiotropic,stereoselective inhibitors of cytochrome P450 isoforms

Interactions between naringenin and the cytochrome P450 (CYP) system have been of interest since the first demonstration that grapefruit juice reduced CYP3A activity. The effects of naringenin on other CYP isoforms have been less investigated. In addition, it is well known that interactions with enzymes are often stereospecific, but due to the lack of readily available pure naringenin enantiomers, the enantioselectivity of its effects has not been characterized. We isolated pure naringenin enantiomers by chiral high‐performance liquid chromatography and tested the ability of (R)‐,(S)‐ and rac‐naringenin to inhibit several important drug‐metabolizing CYP isoforms using recombinant enzymes and pooled human liver microsomes. Naringenin was able to inhibit CYP19, CYP2C9, and CYP2C19 with IC₅₀ values below 5 μM. No appreciable inhibition of CYP2B6 or CYP2D6 was observed at concentrations up to 10 μM. Whereas (S)‐naringenin was 2‐fold more potent as an inhibitor of CYP19 and CYP2C19 than (R)‐naringenin, (R)‐naringenin was 2‐fold more potent for CYP2C9 and CYP3A. Chiral flavanones like naringenin are difficult to separate into their enantiomeric forms, but enantioselective effects may be observed that ultimately impact clinical effects. Inhibition of specific drug metabolizing enzymes by naringenin observed in vitro may be exploited to understand pharmacokinetic changes seen in vivo. Chirality, 2011. © 2011 Wiley‐Liss, Inc.