Molecular speciation and dynamics of oxidized triacylglycerols in lipid droplets: Mass spectrometry and coarse-grained simulations

Lipid droplets (LDs) are ubiquitous and physiologically active organelles regulating storage and mobilization of lipids in response to metabolic demands. Among the constituent LD neutral lipids, such as triacylglycerols, cholesterol esters, and free fatty acids, oxidizable polyunsaturated molecular species may be quite abundant, yet the structural and functional roles of their oxidation products have not been studied. Our previous work documented the presence of these peroxidized species in LDs. Assuming that hydrophilic oxygen-containing functionalities may markedly change the hydrophobic/hydrophilic molecular balance, here we utilized computational modeling to test the hypothesis that lipid peroxidation causes redistribution of lipids between the highly hydrophobic core and the polar surface (phospho)lipid monolayer—the area enriched with integrated enzymatic machinery. Using quantitative liquid chromatography/mass spectrometry, we characterized molecular speciation of oxTAGs in LDs of dendritic cells in cancer and hypoxic trophoblasts cells as two cellular models associated with dyslipidemia. Among the many types of oxidized lipids identified, we found that oxidatively truncated forms and hydroxyl derivatives of TAGs were the prevailing oxidized lipid species in LDs in both cell types. Using coarse-grained molecular dynamics (CG-MD) simulations we established that lipid oxidation changed their partitioning whereby oxidized lipids migrated into the outer monolayer of the LD, where they can affect essential metabolic pathways and undergo conversions, possibly leading to the formation of oxygenated lipid mediators.     

Neutral space analysis for a Boolean network model of the fission yeast cell cycle network

Background

Interactions between genes and their products give rise to complex circuits known as gene regulatory networks (GRN) that enable cells to process information and respond to external stimuli. Several important processes for life, depend of an accurate and context-specific regulation of gene expression, such as the cell cycle, which can be analyzed through its GRN, where deregulation can lead to cancer in animals or a directed regulation could be applied for biotechnological processes using yeast. An approach to study the robustness of GRN is through the neutral space. In this paper, we explore the neutral space of a Schizosaccharomyces pombe (fission yeast) cell cycle network through an evolution strategy to generate a neutral graph, composed of Boolean regulatory networks that share the same state sequences of the fission yeast cell cycle.

Results

Through simulations it was found that in the generated neutral graph, the functional networks that are not in the wildtype connected component have in general a Hamming distance more than 3 with the wildtype, and more than 10 between the other disconnected functional networks. Significant differences were found between the functional networks in the connected component of the wildtype network and the rest of the network, not only at a topological level, but also at the state space level, where significant differences in the distribution of the basin of attraction for the G₁ fixed point was found for deterministic updating schemes.

Conclusions

In general, functional networks in the wildtype network connected component, can mutate up to no more than 3 times, then they reach a point of no return where the networks leave the connected component of the wildtype. The proposed method to construct a neutral graph is general and can be used to explore the neutral space of other biologically interesting networks, and also formulate new biological hypotheses studying the functional networks in the wildtype network connected component.     

群落生态学的中性理论

生物多样性的分布格局和维持机制一直是群落生态学研究的核心问题,其中的关键是物种的共存机制。长期以来,生态位分化的思想在这一研究领域占据着主导地位。然而这一理论在解释热带雨林很高的物种多样性时遇到了困难。而以Hubbell为代表提出的群落中性漂变理论则假定在同一营养级物种构成的群落中不同物种的不同个体在生态学上可看成是完全等同的;物种的多度随机游走,群落中的物种数取决于物种灭绝和物种迁入/新物种形成之间的动态平衡。在这一假定之下,该理论预言了两种统计分布。一种是集合群落在点突变形成新物种的模式下其各个物种相对多度服从对数级数分布,而受扩散限制的局域群落以及按照随机分裂为新物种模式形成的集合群落则服从零和多项式分布。与生态位理论相反,中性理论不以种间生态位差异作为研究群落结构的出发点,而是以物种间在个体水平上的对等性作为前提。该理论第一次从基本生态学过程(出生、死亡、迁移、物种分化)出发,给出了群落物种多度分布的机理性解释,同时其预测的物种多度分布格局在实际群落中也得到了广泛的印证。因此,中性理论自诞生以来便在生态学界引发了极大的反响,也包括一些反对的声音。该文重点综述了关于中性理论的假设、预测和物种形成模式等方面的最新研究进展,包括中性理论本身的发展、关于中性理论的假设和预测的合理性检验以及在集合群落尺度上物种分化模式的讨论;并指出未来发展方向可能是在生态位理论和中性理论之间架起一座桥梁,同时发展包含随机性的群落生态位模型,以及允许种间差异的近中性模型。     

附子多糖FI的分离纯化及部分理化性质研究

白附片经热水抽提、Sevag法脱蛋白、乙醇沉淀、DEAE- C32柱层析分离 ,再通过 Sephadex G- 2 0 0柱层析进一步纯化 ,得到一种纯白色粉末状多糖 ,糖含量为 97% ,平均分子量为 2 .6× 10 5,熔点为 2 70℃。经完全酸水解、薄层层析、红外光谱分析 ,证明为葡聚糖。     

红海藻多糖的提取和结构研究

本文报道了从红海藻中分离提取出水溶中性多糖,经纯化和鉴定得单—木聚糖,其一级结构测定结果表明,此多糖为直链结构,以β(1—3)木糖残基连接.构象研究结果表明,该多糖具有三股螺旋结构.     

型糖尿病患者红细胞膜中性糖、氨基糖及唾液酸含量的改变

 为阐明Ⅱ型糖尿病（ Ｎ Ｉ Ｄ Ｄ Ｍ ）患者红细胞膜的化学组成在非酶糖基化（ Ｎ Ｅ Ｇ）影响下发生的变化,采用毛细管气相色谱法和分光光度法测定了 ２０ 名正常人和 １９ 例Ⅱ型糖尿病患者红细胞膜的 ４ 种结合中性糖与 ２ 种氨基糖和唾液酸含量以及 ４ 种寡糖链上的末端中性糖和唾液酸含量．结果表明, Ｎ Ｉ Ｄ Ｄ Ｍ 患者红细胞膜几种结合单糖（ Ｇｌｃ, Ｆｕｃ, Ｇｌｃ Ａ, Ｇａｌ Ａ）与游离单糖（ Ｇｌｃ, Ｇａｌ, Ｍａｎ, Ｆｕｃ）含量以及唾液酸含量均较正常对照组明显降低（ Ｐ＜ ００１ 或 ００５）．据此推测,由于患者红细胞膜蛋白的重度糖基化导致某些膜结构蛋白的氧化损伤,细胞膜糖类含量的减少,可能是重度糖基化的继发后果．     

10种海洋微藻总脂、中性脂和极性脂的脂肪酸组成

研究了10种海洋微藻的总脂、中性脂和极性脂的脂肪酸组成特征。海洋微藻的脂肪含量均在15％以上。极性脂一般为海洋微藻的主要脂类,是长链多元不饱和脂肪酸的主要提供者。中性脂含短链脂肪酸较多,为主要的储存脂类。绿藻纲可以将高含量的16:4(n-3)和18:3(n-3)作为化学分类的标记脂肪酸,小球藻和微绿球藻有丰富的20:5(n-3),与绿藻纲显著不同,可能属于大眼藻纲。绿枝藻纲的脂肪酸组成与绿藻纲类似,绿胞藻纲以16:0、18:4(n-3)和20:5(n-3)为主要脂肪酸。脂肪酸组成可用于海洋微藻的分类学研究,并能指导利用海洋微藻生产高度不饱和脂肪酸。     

Auxin and Kinetin Induced Changes of Callus Cell Wall Composition of Abutilon avicennae Gaertn

In a previous report we have shown that the arrangement of callus cell wail fibrils of Abutilon avicennae could be induced to change under IAA (2 ppm) and kinetin (10 ppm) treatments. Kinetin at this concentration was shown to be able to induce callus cell differentiation and form tracheary elements by changing the orientation of the wall fibrils. It was thus assumed that the hormonal induction of cellular differentiation and structual change of the cell wall may possibly be accompanied by the simultaneous changes of chemical composition of the wall. Attempt was therefore made to investigate if such changes do occur in vitro under the influence of phytohormones. Suspension cell-culture of Abutilon avicennae was used in this experiment to study the hormonal effect on the incorporation of H3-glucose into the cell wall polysaccharides. Analysis of neutral sugars of the cell wall following IAA (2ppm) and kinetin (10ppm) treatments was carried out with a gas chromatography. The results obtained in this experiment are shown in tables 1-2 and figures 1, It was found that the auxin was capable of promoting the synthesis of all neutral sugars, among which the glucose and the maunose in particular, increased tremendously. When H3-glucose was added to the culture medium, IAA was found to enhance the incorporation of the isotopes into the matrix polysaccharides (hemiceUulose and pectin). The result demonstrates clearly that the primary function of IAA is to stimulate the synthesis of hemicellulose composition and, as a consequence, the cell wall retained at the primary growth stage. Kinetin, on the other hand, showed an inhibitory effect on most of the neutral sugars except glucose and mannose. It appeared to have a striking inhibitory action on the synthesis of arabinose and rhanmose (a special composition of pectic substance). It also limited the incorporation of H3-glucose into the pectic substance. It is, therefore, suggested that the action of kinetin may mainly be inhibitory on the synthesis of pectic composition. The decreased rate of pectin synthesis would implicate that the cell wall has been advan ced into the phase of secondary growth. The results presented here agree fairly well with our connotation that there is a parallel relationship between cellular morphology and biochemical characteristics during cell wall differentiation and growth.     

Function and regulation of the acid and neutral trehalases of Mucor rouxii

Two different trehalose-hydrolysing activities, known as acid or non-regulatory trehalases, and neutral or regulatory trehalases, have been recognised in a number of fungal species. The true role of these apparently redundant hydrolases remained obscure for many years. However, recent evidence suggests that neutral trehalases would be specialised in the mobilisation of cytosolic trehalose, while acid trehalases would only hydrolyse extracellular trehalose. Results obtained with Mucor rouxii, a Zygomycete initially thought to posses only neutral trehalase activity, reinforced this hypothesis. M. rouxii grows efficiently in trehalose as the sole carbon source. Trehalose-grown or carbon-starved cells exhibit a high trehalase activity of optimum pH 4.5, bound to the external surface of the cell wall, in contrast with the neutral (pH 6.5) trehalase, which occurs in the cytosol. Other differences between the neutral and the acid trehalases are the temperature optimum (35°C and 45°C, respectively) and thermal stability (half-life of 2.5 min and 12 min at 45°C, respectively). The neutral trehalase, but not the acid trehalase, is activated in vitro by cAMP-dependent phosphorylation, stimulated by Ca²⁺, and inhibited by EDTA. It shows maximal activity at germination and decreases as growth proceeds. In contrast the activity of the acid trehalase is totally repressed in glucose-grown cultures and increases upon exhaustion of the carbon source, and is strongly induced by extracellular trehalose.     

Assessing the suitability of genetic diversity of Chironomus riparius (Meigen) as an indicator of environmental pollution

Reliable and cost-effective indicators are needed to reduce uncertainty in ecological risk assessments of chemicals so that their long-term and evolutionary impacts in the dynamics of stressed biological communities can be accounted for.In the present study we investigate the suitability of genetic diversity as an indicator of ecological disturbance of freshwater ecosystems. For that, we selected three freshwater systems with well-known histories of metal contamination and three nearby reference sites located in Northern Portugal and the effects of metal contamination were assessed both in the levels of genetic diversity of the non-biting midge Chironomus riparius Meigen (at microsatellite markers) and in the diversity and composition of the benthic macroinvertebrate communities.Results showed a remarkable impoverishment in the abundance and diversity of macroinvertebrate communities of metal polluted sites in which most sensitive taxa were eliminated and replaced by more opportunistic ones belonging mainly to Oligochaeta and Diptera. In contrast, no evidence for pollution-induced genetic erosion was found in C. riparius populations in the studied area, with genetic diversity of the species being indeed higher in sites with impoverished macroinvertebrate communities and poor habitat quality.Our findings suggest that there are important limitations to the use of measures of genetic diversity of C. riparius per se to unravel ecological disturbance. Field studies aiming at quantifying pollutant-driven genetic erosion need to carefully consider the ecological and demographic aspects of potential target species.