Site-specific conformational studies of prion protein (PrP) amyloid fibrils revealed two cooperative folding domains within amyloid structure

Despite the ability of most proteins to form amyloid, very little is know about amyloid fibril structures and the factors that govern their stability. Using amyloid fibrils produced from full-length prion protein (PrP), we describe a reliable approach for determining both site-specific and global conformational stability of the fibrillar form. To measure site-specific stability, we produced six variants of PrP by replacing the residues at positions 88, 98, 127, 144, 196, and 230 with cysteine, labeled the new cysteines with the fluorescent dye acrylodan, and investigated their conformational status within the amyloid form in guanidine hydrochloride-induced denaturation experiments. We found that the fibrils labeled at positions 127, 144, 196, and 230 displayed cooperative unfolding and showed a very high C1/2 value similar to that observed for the global unfolding of the amyloid structure. The unfolding at residue 98 was also cooperative; however, it showed a C1/2 value substantially lower than that of global unfolding, whereas the unfolding of fibrils labeled at residue 88 was non-cooperative. These data illustrate that there are at least two independent cooperative folding domains within the amyloid structure of the full-length PrP. In addition, kinetic experiments revealed only a partial overlap between the region that constituted the fibrillar cross-beta core and the regions that were involved in nucleation. This result illustrates that separate PrP regions accounted for the nucleation and for the formation of the conformationally most stable fibrillar core.     

A critical role for IkappaB kinase beta in metallothionein-1 expression and protection against arsenic toxicity

Arsenic is a widespread environmental toxic agent that has been shown to cause diverse tissue and cell damage and at the same time to be an effective anti-cancer therapeutic agent. The objective of this study is to explore the signaling mechanisms involved in arsenic toxicity. We show that the IkappaB kinase beta (IKKbeta) plays a crucial role in protecting cells from arsenic toxicity. Ikkbeta(-)(/)(-) mouse 3T3 fibroblasts have decreased expression of antioxidant genes, such as metallothionein 1 (Mt1). In contrast to wild type and IKKbeta-reconstituted Ikkbeta(-)(/)(-) cells, IKKbeta-null cells display a marked increase in arsenic-induced reactive oxygen species (ROS) accumulation, which leads to activation of the MKK4-c-Jun NH(2)-terminal kinase (JNK) pathway, c-Jun phosphorylation, and apoptosis. Pretreatment with the antioxidant N-acetylcysteine (NAC) and expression of MT1 in the Ikkbeta(-)(/)(-) cells prevented JNK activation; moreover, NAC pretreatment, MT1 expression, MKK4 ablation, and JNK inhibition all protected cells from death induced by arsenic. Our data show that two signaling pathways appear to be important for modulating arsenic toxicity. First, the IKK-NF-kappaB pathway is crucial for maintaining cellular metallothionein-1 levels to counteract ROS accumulation, and second, when this pathway fails, excessive ROS leads to activation of the MKK4-JNK pathway, resulting in apoptosis.     

Classification of life cycle form spectrum of artificial community of Pinus svlvestris var. mongolica

The plant life cycle form and its spectrum features of different plants in the artificial community of Pinus svlvestris var. mongolica at the botanical garden of Northeast Forestry University were classified by PCA method. For canopy layer plants, the vegetative growth (V) accounted for 46%, the sexual growth (S) accounted for 35%, and the clonal growth (C) accounted for the rest 19%. For succession layer plants, V accounted for more than 50%, and C accounted for a little higher than S did. For herbaceous layer plants, V accounted for nearly 47%, which was only 4% higher than that of S, and C only accounted for 11%. These findings indicate that the plant life cycle forms of canopy layer plants and herbaceous layer plants were VS transition form with V form as the main form, while the succession layer plants were V form. At the viewpoint of artificial community, the life cycle form can be described as V_0.49S_0.33C_0.18, a typical VS transition form, indicating that most of the species studied in this community are in a healthy status with the V form. Moreover, the relatively high (33%) percentage in the S form indicates that the community also tends to sexual growth for offspring, although it will be steady within a period of time for the vegetative growth of bodies.     

PCR-DGGE detection of the bacterial community structure in the Inner Mongolia steppe with two different DNA extraction methods

Compared with conventional methods, molecular biological technique, such as PCR-DGGE (denaturing gradient gel electrophoresis), is informative in examining the structure of the soil bacterial community through the extraction of microbial DNA from soil and generation of bacterial community profiles by PCR amplification of 16S rRNA genes. Extraction efficiency of soil microbial DNA is the most important step in these methods. At present, the frozen-thawing method and bead-beating method are most widely used in genomic extraction. Nevertheless, comparison of these two methods has not been conducted in different soil types, especially in humus-rich soil. In this study, extraction efficiencies of the two methods were compared in humus-rich steppe soil in Inner Mongolia based on the PCR-DGGE analysis of bacterial community structure. The results indicated that the bead-beating method is better than the frozen-thawing method in genomic DNA extraction efficiency. In addition, 21 bands in the DGGE pattern with the bead-beating method were further selected, cloned and sequenced. Based on similarity matching, all the sequences formed five major clusters: Actinobacteria; α-, β-, γ-, Proteobacteria ; Bacteriodetes ; Gemmatimonadetes and Acidobacteria . Of the 21 clones obtained from DGGE patterns, YC4 showed 99.7% similarity to Pseudomonas sp. (DQ339153); YC5, YC18 and YC19 showed 99.9 % similarity to Gram-positive bacterium (AB008510), Virgisporangium ochraceum (AB006162) and Micromonospora chalcea (X92613), respectively.     

Visualization and Characterization of High-Order Chromatin Fibers under Light Microscope during Interphase and Mitotic Stages in Plants

Using genomic in situ hybridization with genomic DNA, high-order chromatin fibers were successfully exhibited under a light microscope through the cell cycle in barley, rice, maize and field bean. From the interphase to prophase and metaphase of mitosis, the fibers were basically similar. Each was estimated to be around 200 nm in diameter, but the strength of signals was not the same along the fiber length. Through the cell cycle a series of dynamic distribution changes occurred in the fibers. In the interphase, they were unraveled. At the early prophase they were arranged with parallel and mirror symmetry. During late-prophase and metaphase, the fibers were bundled and became different visible chromosomes. The parallel coiling and mirror symmetry structures were visible clearly until the metaphase. In anaphase they disappeared. During telophase, in peripheral regions of congregated chromosome group, borderlines of the chromosomes disappeared and the fibers were unraveled. This demonstrated that mitotic chromosomes are assembled and organized by parallel and adjacent coiling of the fibers and the fibers should be the highest order structure for DNA coiling.     

Inhibition of tumor growth in mice by endostatin derived from abdominal transplanted encapsulated cells

Endostatin,a C-terminal fragment of collagen 18a,inhibits the growth of established tumorsand metastases in vivo by inhibiting angiogenesis.However,the purification procedures required for large-scale production and the attendant cost of these processes,together with the low effectiveness in clinicaltests,suggest that alternative delivery methods might be required for efficient therapeutic use of endostatin.In the present study,we transfected Chinese hamster ovary(CHO)cells with a human endostatin geneexpression vector and encapsulated the CHO cells in alginate-poly-L-lysine microcapsules.The release ofbiologically active endostatin was confirmed using the chicken chorioallantoic membrane assay.The encap-sulated endostatin-expressing CHO cells can inhibit the growth of primary tumors in a subcutaneous B 16tumor model when injected into the abdominal cavity of mouse.These results widen the clinical applicationof the microencapsulated cell endostatin delivery system in cancer treatment.     

生物柴油耦联丙酮丁醇发酵的初步研究

以4种生物柴油(原料为地沟油、菜籽油、棕榈油和废肯德基油)作为萃取剂,开展了丙酮丁醇静态萃取发酵。通过分析发酵过程中的产气量及发酵40 h后油水两相中的溶剂浓度,发现生物柴油对丙丁梭菌有毒性。另外,静置条件下丁醇在不同油水两相中的液液平衡系数大致相同。在发酵24 h时加入棕榈生物柴油(油水体积比为0.4∶1),丁醇发酵强度达到最大值0.213 g.(L.h)-1、比对照(传统发酵)提高10.9%,且生物柴油中的丁醇质量浓度达到6.44 g.L-1。     

Subpopulation genetic structure of a plant panmictic population of Castanea sequinii as revealed by microsatellite markers

Castanea squinii Dode, an endemic tree widely distributed in China, plays an important role both in chestnut breeding and forest ecosystem function. The spatial genetic structure within and among populations is an important part of the evolutionary and ecological genetic dynamics of natural populations, and can provide insights into effective conservation of genetic resources. In the present study, the spatial genetic structure of a panmictic natural population of C. sequinii in the Dabie Mountain region was investigated using microsatellite markers. Nine prescreened microsatellite loci generated 29–33 alleles each, and were used for spatial autocorrelation analysis. Based on Moran’s I coefficient, a panmictic population of C. sequinii in the Dabie Mountain region was found to be lacking a spatial genetic structure. These results suggest that a high pollen-mediated gene flow among subpopulations counteract genetic drift and/or genetic differentiation and plays an important role in maintaining a random and panmictic population structure in C. sequinii populations. Further, a spatial genetic structure was detected in each subpopulation’s scale (0.228 km), with all three subpopulations showing significant fine-scale structure. The genetic variation was found to be nonrandomly distributed within 61 m in each subpopulation (Moran’s I positive values). Although Moran’s I values varied among the different subpopulations, Moran’s I in all the three subpopulations reached the expected values with an increase in distances, suggesting a generally patchy distribution in the subpopulations. The fine-scale structure seems to reflect restricted seed dispersal and microenvironment selection in C. sequinii. These results have important implications for understanding the evolutionary history and ecological process of the natural population of C. sequinii and provide baseline data for formulating a conservation strategy of Castanea species. __________ Translated from Acta Phytoecologica Sinica, 2006, 30(1): 147–156 [译自: 植物生态学报]     

发菜中超氧化物歧化酶基因的克隆及在大肠杆菌中的表达

采用基因工程技术从发菜总DNA中克隆了一段的基因序列,该序列与基因库中已公布的编码地木耳（Nostoc commnue）超氧化物歧化酶的氨基酸序列同源性为97%。将该基因插入含T7启动子质粒pET-32中构建表达质粒pET-sod,然后将该表达质粒转入大肠杆菌BL21中进行蛋白表达,表达菌株用1 mmol·L^-1 IPTG诱导表达数小时后,产生较多的重组的蛋白,且该蛋白以可溶性蛋白形式存在。SDS-PAGE分析表明,在相对分子量约为22 kd的位置有一条明显蛋白质带。将诱导表达后的蛋白通过亲和层析的方法进行蛋白纯化;NBT光还原法测定表达产物的比活力,每毫克纯化蛋白约为2 550 U。对纯化后的蛋白进行高温胁迫研究,将该纯化蛋白在60℃高温下胁迫90 min后,其活性为原（未经胁迫）蛋白活性的85%。