Biomedical subjects

Jian Yang

Publications and source records attributed to Jian Yang.

At least 55 records · Page 3Linked to original sources

PubMed2006

Removal of methylene blue from aqueous solution by chaff in batch mode.

A new adsorbent system for removing methylene blue (MB) from aqueous solutions has been investigated. This new adsorbent is cereal chaff, an agriculture product in middle-west region in China. Variables of the system, including biosorption time, chaff dose, pH, salt concentration and initial MB concentration, were adopted to study their effects on MB removal. The results showed that as the dose of chaff increased, the percentage of MB sorption increased accordingly. There was no significant difference in the dye concentration remaining when the pH was increased from 4.0 to 11.0. The salt concentration has negative effect on MB removal. At the experimental range of MB concentration, the amount of MB adsorbed onto per unit mass of chaff (q(e)) is direct ratio to MB initial concentration (c(0)). The equilibrium data were analyzed using five equilibrium models, the Langmuir, the Freundlich, the Redlich-Peterson, the Koble-Corrigan and the Temkin isotherms. The results of non-linear regressive analysis are that the isotherms of Langmuir, Redlich-Peterson and Koble-Corrigan are better fit than the isotherms of Freundlich and Temkin at different temperatures according to the values of determined coefficients (R(2)) and Chi-square statistic (chi(2)). The maximum equilibrium capacities of chaff from Langmuir models are 20.3, 25.3 and 26.3 mg g(-1) at 298, 318 and 333K, respectively. Using the equilibrium concentration constants obtained at different temperatures, various thermodynamic parameters, such as DeltaG(0), DeltaH(0) and DeltaS(0), have been calculated. The thermodynamics parameters of MB/chaff system indicate spontaneous and endothermic process. It was concluded that an increase in temperature results in a bigger MB loading per unit weight of the chaff.

Adsorption↗

PubMed2006

Influences of ammonia plasma treatment on modifying depth and degradation of poly(L-lactide) scaffolds.

Hydrophobicity of poly(L-lactide) scaffolds is a main drawback in obtaining a sufficient mass of seeded cells for satisfying the requirements of tissue engineering. Plasma treatment is a useful technique to enhance the hydrophilicity of the scaffolds. However, the effect of this technique on the modifying depth and degradation of the scaffolds should be considered. In this paper, the influence of NH3 plasma treatment on the modifying depth and degradation of scaffolds were investigated. The results showed that the modifying depth of the scaffolds increased with treating time and the plasma power ranging from 20 to 80 W influenced the depth slightly. However, the degradation of the scaffolds increased with increasing treatment time and plasma power. The results also showed that the plasma intruded the scaffolds gradually from top to bottom. For a 4 mm thick scaffold, the optimized treatment condition was 20 W of power in a 30 Pa ammonia atmosphere for 30 min of treating time. Under this condition, the integrity of scaffold could be relatively well kept. NH3 plasma treatment enabled the penetration of cells into scaffolds and facilitated the proliferation of cells in them.

3T3 Cells↗

PubMed2006

Tonic facilitation of glutamate release by presynaptic NR2B-containing NMDA receptors is increased in the entorhinal cortex of chronically epileptic rats.

We have shown previously that when postsynaptic NMDA receptors are blocked, the frequency, but not amplitude, of spontaneous EPSCs (sEPSCs) at synapses in the entorhinal cortex is reduced by NMDA receptor antagonists, demonstrating that glutamate release is tonically facilitated by presynaptic NMDA autoreceptors. In the present study, we recorded sEPSCs using whole-cell voltage clamp in neurons in layer V in slices of the rat entorhinal cortex. Using specific antagonists for NR2A [(R)-[(S)-1-(4-bromo-phenyl)-ethylamino]-(2,3-dioxo-1,2,3,4-tetrahydroquinoxalin-5-yl)-methyl]-phosphonic acid] and NR2B [(alphaR, betaS)-alpha-(4-hydroxyphenyl)-beta-methyl-4-(phenylmethyl)-1-piperidinepropanol hydrochloride (Ro 25-6981)] subunit-containing receptors, we confirmed that in slices from juvenile rats (4-6 weeks of age), the autoreceptor is predominantly of the NR1-NR2B subtype. In older (4-6 months of age) control animals, the effect of the NR2B antagonist was less marked, suggesting a decline in autoreceptor function with development. In slices from rats (aged 4-6 months) exhibiting spontaneous recurrent seizures induced with a lithium-pilocarpine protocol, Ro 25-6981 again robustly reduced sEPSC frequency. The effect was equal to or greater than that seen in the juvenile slices and much more pronounced than that seen in the age-matched control animals. In all three groups, the NR2A antagonist was without effect on sEPSCs. These results suggest that there is a developmental decrease in NMDA autoreceptor function, which is reversed in a chronic epileptic condition. The enhanced autoreceptor function may contribute to seizure susceptibility and epileptogenesis in temporal lobe structures.

Age Factors↗

PubMed2006

ShiBASE: an integrated database for comparative genomics of Shigella.

Among the major enteric bacterial pathogens, Shigella is found to display extreme genome diversity and dynamics, which imposes a challenge in comparative genomic studies. To facilitate further studies in this area, we have constructed an integrated online database, ShiBASE (http://www.mgc.ac.cn/ShiBASE/),which contains Shigella genomic sequences of four species and additional comparative genomic hybridization (CGH) data of 43 serotypes. ShiBASE offers online comparative analysis on DNA sequences, gene orders, metabolic pathways and virulence factors. In addition, ShiBASE has a newly developed online comparative visualization service, Shi-align, which enables the alignment of any query sequence with the reference genome sequences.

Databases, Nucleic Acid↗

PubMed2006

Exposures to silica mixed dust and cohort mortality study in tin mines: exposure-response analysis and risk assessment of lung cancer.

BACKGROUND: Mineral dusts that contain crystalline silica have been associated directly or indirectly with the development of pneumoconiosis or silicosis, non-malignant respiratory diseases, lung cancer, and other diseases. The health impacts on workers with silica mixed dust exposure in tin mines and dose-response relationships between cumulative dust exposure and the mortality from lung cancer are investigated. METHODS: A cohort of 7,837 workers registered in the employment records in 4 Chinese tin mines between 1972 and 1974 was identified for this study and the mortality follow-up was traced through 1994. Of the cohort, the cause of death was ascertained for 1,061 (97%) of the 1,094 deceased workers. Standardized mortality ratios (SMRs) were calculated for all workers, non-exposed workers, and dust-exposed workers with different exposure levels, silicotics, and non-silicotics based on Chinese national rates. RESULTS: The mortality from all causes in four tin mines was nearly the same as the national mortality. Malignant neoplasm, cerebrovascular disease, and cardiovascular disease accounted for 68.6% of all deaths. Mortality excess from lung cancer, liver cancer, all malignant diseases, and non-malignant respiratory diseases was observed among dust-exposed workers; a 50-fold excess of pneumoconiosis was observed. There was an upward trend for SMRs of lung cancer was noted from no exposure to low, medium, and high exposure levels (SMRs=1.29, 2.65, 2.66, 3.33). The shape of the exposure-response curve for risk of lung cancer at high exposure levels was inconsistent in these four mines. CONCLUSIONS: The findings indicated a positive dose-response relation between exposure to cumulative dust and the mortality of lung cancer. High arsenic content in dust particles, together with crystalline silica, may play an important role in causing increased mortality from lung cancer.

Adult↗

PubMed2006

A new biodegradable polyester elastomer for cartilage tissue engineering.

The objective of this study is to assess whether a new biodegradable elastomer, poly(1,8-octanediol citrate) (POC), would be a suitable material to engineer elastomeric scaffolds for cartilage tissue engineering. Porous POC scaffolds were prepared via the salt-leaching method and initially assessed for their ability to rapidly recover from compressive deformation (% recovery ratio). Controls consisted of scaffolds made from other materials commonly used in cartilage tissue engineering, including 2% agarose, 4% alginate, non woven poly(glycolic acid) (PGA) meshes, and non woven poly(L-lactide-co-glycolide) (PLGA) meshes. Articular chondrocytes from bovine knee were isolated and seeded onto porous disk-shaped POC scaffolds, which were subsequently cultured in vitro for up to 28 days. POC scaffolds completely recover from compressive deformation, and the stress-strain curve is typical of an elastomer (recovery ratio>98%). Agarose gel (2%) scaffolds broke during the compression test. The recovery ratio of 4% alginate gel scaffolds, PLLA, and PGA were 72, 85, and 88%, respectively. The Young's modulus of POC-chondrocyte constructs and cell-free POC scaffolds cultured for 28 days were 12.02+/-2.26 kPa and 3.27+/-0.72 kPa, respectively. After 28 days of culture, the recovery ratio of POC-chondrocyte constructs and cell-free POC scaffolds were 93% and 99%, respectively. The glycosaminoglycan (GAG) and collagen content at day 28 was 36% and 26% of that found in bovine knee cartilage explants. Histology/immunohistochemistry evaluations confirm that chondrocytes were able to attach to the pore walls within the scaffold, maintain cell phenotype, and form a cartilaginous tissue during the 28 days of culture.

Absorbable Implants↗

PubMed2006

Genomic compositions and phylogenetic analysis of Shigella boydii subgroup.

Comparative Genomic Hybridization (CGH) microarray analysis was used to compare the genomic compositions of all eighteen Shigella boydii serotype representative strains. The results indicated the genomic "backbone" of this subgroup contained 2552 ORFs homologous to nonpathogenic E. coli K12. Compared with the genome of K12199 ORFs were found to be absent in all S. boydii serotype representatives, including mainly outer membrane protein genes and O-antigen biosynthesis genes. Yet the specific ORFs of S. boydii subgroup contained basically bacteriophage genes and the function unknown (FUN) genes. Some iron metabolism, transport and type II secretion system related genes were found in most representative strains. According to the CGH phylogenetic analysis, the eighteen S. boydii serotype representatives were divided into four groups, in which serotype C13 strain was remarkably distinguished from the other serotype strains. This grouping result corresponded to the distribution of some metabolism related genes. Furthermore, the analysis of genome backbone genes, specific genes, and the phylogenetic trees allowed us to discover the evolution laws of S. boydii and to find out important clues to pathogenesis research, vaccination and the therapeutic medicine development.

Gene Deletion↗

PubMed2006

Comparison of the virulence plasmid genomes of two strains of Shigella which lost the ability to bind Congo red.

We determined and analyzed the Shigella flexneri serotype 5 (pSF5) and S. dysenteriae serotype 1 (pSD1) virulence plasmid genomes. The total length of pSF5 is 136513 bp, including 165 open reading frames (ORFs). Of these ORFs, 133 were identified and 32 of those had no significant homology to proteins with known functions. The length of pSD1 is 182545 bp, including 224 ORFs, of which we identified 181. The remaining 43 ORFs were not significantly homologous to proteins with known functions. The insertion sequence (IS) elements are 53787 bp in pSF5, and 49616 bp in pSD1, which represents 39.4% and 27.1% of the genome, respectively. There are 22 IS element types in pSF5 and pSD1, among which we report ISEc8 and ISSbo6 for the first time in the Shigella virulence plasmid. Compared to pCP301, there are a large number of deleted genes and gene inversions in both pSF5 and pSD1. The ipa-mxi-spa locus in pSF5 is completely absent, and the genes related to the O-antigen biosynthesis are partially missing. In contrast, the above genes in pSD1 are integral, with the exception of virF. The whole genome analysis of the two plasmids shows that the loss of genes related to gene invasion or regulation also obliterates the ability of pPF5 and pSD1 to bind Congo red (Crb). Whether these genes determine the Crb function requires continued investigation.

Acyltransferases↗

PubMed2006

Biomechanical properties of the layered oesophagus and its remodelling in experimental type-1 diabetes.

Passive biomechanical properties in term of the stress-strain relationship and the shear modulus were studied in separated muscle layer and mucosa-submucosa layer in the oesophagus of normal and STZ (streptozotocin)-induced diabetic rats. The mucosa-submucosa and muscle layers were separated using microsurgery and studied in vitro using a self-developed test machine. Stepwise elongation and inflation plus continuous twist were applied to the samples. A constitutive equation based on a strain energy function was used for the stress-strain analysis. Five material constants were obtained for both layers. The mucosa-submucosa layer was significantly stiffer than the muscle layer in longitudinal, circumferential and circumferential-longitudinal shear direction. The mechanical constants of the oesophagus show that the oesophageal wall was anisotropic, the stiffness in the longitudinal direction was higher than in the circumferential direction in the intact oesophagus (P < 0.001) and in the muscle layer (P < 0.05). Diabetes-induced pronounced increase in the outer perimeter, inner perimeter and lumen area in both the muscle and mucosa-submucosa layer. The growth of the mucosa-submucosa layer (P < 0.001) was more pronounced than the muscle layer (P < 0.05). Furthermore, the circumferential stiffness of the mucosa-submucosa layer increased 28 days after STZ treatment. In conclusion, the oesophagus is a non-homogeneous anisotropic tube. Thus, the mechanical properties differed between layers as well as in different directions. Morphological and biomechanical remodelling is prominent in the diabetic oesophagus.

Animals↗

PubMed2006

Mapping QTL for biomass yield and its components in rice (Oryza sativa L.).

Additive effects, additive by additive epistatic effects, and their environmental interactions of QTLs are important genetic components of quantitative traits. Genetic architecture underlying rice biomass yield and its two component traits (straw yield and grain yield) were analyzed for a population of 125 DH lines from an inter-subspecific cross of IR64/Azucena. The mixed-model based composite interval mapping approach (MCIM) was used to detect QTLs, There were 12 QTLs detected with additive main effects, 27 QTLs involved in digenic interaction with aa and/or aae effects, and 18 QTLs affected by environments with ae and/or aae effects. It was revealed that epistatic effects and QE interaction effects existed on biomass yield and its component traits in rice. In addition, the genetic basis of relationships among these traits were investigated. Four QTLs and one pair of epistatic QTLs were detected to be responsible for the positive correlation between biomass yield and straw yield. Three QTLs might be responsible for the negative correlation between straw yield and grain yield. This result could partially explain the genetic basis of correlation among the three traits, and provide useful information for genetic improvement of these traits by marker-assisted selection.

Biomass↗

PubMed2006

Comprehensive proteomic analysis of Shigella flexneri 2a membrane proteins.

Shigella flexneri is the causative agent of most shigellosis cases in developing countries. We used different proteolytic enzymes to selectively shave the protruding proteins on the surface of purified bacterial membrane sheets or vesicles, and recovered peptides were subsequently identified using 2-D LC-MS/MS. As a result, a total of 666 proteins were unambiguously assigned, including 159 integral membrane proteins, 35 outer membrane proteins and 114 proteins previously annotated as hypothetical. The former had an average grand average hydrophobicity score of 0.362 and were predicted to separate within a pH range of 4.1-10.6 with molecular mass 8-148 kDa, which represents the largest validated set of integral membrane proteins in this organism to date. A functional classification revealed that a large proportion of the identified proteins were involved in cell envelope biogenesis and energy production and conversion. For the first time, this work provides a global view of the S. flexneri 2a membrane subproteome.

Bacterial Outer Membrane Proteins↗

PubMed2006

BDPCA plus LDA: a novel fast feature extraction technique for face recognition.

Appearance-based methods, especially linear discriminant analysis (LDA), have been very successful in facial feature extraction, but the recognition performance of LDA is often degraded by the so-called "small sample size" (SSS) problem. One popular solution to the SSS problem is principal component analysis (PCA) + LDA (Fisherfaces), but the LDA in other low-dimensional subspaces may be more effective. In this correspondence, we proposed a novel fast feature extraction technique, bidirectional PCA (BDPCA) plus LDA (BDPCA + LDA), which performs an LDA in the BDPCA subspace. Two face databases, the ORL and the Facial Recognition Technology (FERET) databases, are used to evaluate BDPCA + LDA. Experimental results show that BDPCA + LDA needs less computational and memory requirements and has a higher recognition accuracy than PCA + LDA.

Algorithms↗

PubMed2006

Topology description for data distributions using a topology graph with divide-and-combine learning strategy.

The topologies of data distributions are very important for data description. Usually, it is not easy to find a description that can give us an intuitional understanding of the topologies for general distributions. In this paper, a novel concept, a topology graph, is proposed as a description for the principal topology of data distribution. The topology graph builds a one-to-one correspondence between the principal topology of the distribution and the topology itself: annularity features of the principal topology correspond to the loops of the graph, and the divarication features correspond to the branches of the graph. In general, the topology graph can be considered as the skeleton of the data distribution. A divide-and-combine learning strategy is developed to find the topology graphs for general data distributions. The learning strategy is focused on the constrained local description learning and automatic topology generation. Following the learning strategy, a cluster growing algorithm is developed. Experimental results on both artificial datasets and real-world applications show good performance of the proposed algorithm.

Journal Article↗

PubMed2006

High throughput growth of zinc oxide nanowires from zinc powder with the assistance of sodium chloride.

Sodium chloride (NaCl) was found to be very helpful in producing single crystal zinc oxide (ZnO) nanowires in gram quantities. The growth involves heating the mixture of zinc powder and NaCl to 600-700 degrees C in flowing gases of oxygen and argon. A conversion efficiency of 70-80% (Zn to ZnO) was achieved when NaCl was used, and 5-10% without NaCl. The NaCl was completely removed by soaking and rinsing the mixture in water a few times. Photoluminescence spectra using excitation of 325 nm showed a very strong emission only in the visible frequency range, indicating that the surface states dominate the emission.

Crystallization↗

PubMed2006

[Polyketides obtained using metagenome library technique].

Polyketides are an important class of bioactive secondary metabolites. Since the recurrence of the known polyketides is very high during the discovery of novel natural polyketide compounds using traditional methods, new approaches are developed for the biosynthesis of these compounds. This review discusses discovery of new polyketides via metagenome library technique.

Biosynthetic Pathways↗

PubMed2006

Polyethylene glycol-mediated cell fusion.

Polyethylene glycol (PEG)-mediated cell fusion is a simple and efficient technique used widely for the production of somatic cell hybrids and for nuclear transfer in mammalian cloning. We describe a basic protocol of PEG-mediated cell fusion for the production of somatic cell hybrids. Fusion can be performed between adherent and suspension cells or between adherent cells or suspension cells. Either whole cells or microcells can be used as donors to fuse with recipient cells. Microcell fusion is particularly useful in transfer of a single or a limited number of chromosomes between various types of cells. Using this method, we have successfully introduced mammalian minichromosomes into a variety of vertebrate cells. The technique described here can be adapted for uses in other cell fusion involved research. This protocol, in principle, provides guidelines for further development of PEG mediated cell fusion technology.

Animals↗

PubMed2006

A robust statistical procedure to discover expression biomarkers using microarray genomic expression data.

Microarray has become increasingly popular biotechnology in biological and medical researches, and has been widely applied in classification of treatment subtypes using expression patterns of biomarkers. We developed a statistical procedure to identify expression biomarkers for treatment subtype classification by constructing an F-statistic based on Henderson method III. Monte Carlo simulations were conducted to examine the robustness and efficiency of the proposed method. Simulation results showed that our method could provide satisfying power of identifying differentially expressed genes (DEGs) with false discovery rate (FDR) lower than the given type I error rate. In addition, we analyzed a leukemia dataset collected from 38 leukemia patients with 27 samples diagnosed as acute lymphoblastic leukemia (ALL) and 11 samples as acute myeloid leukemia (AML). We compared our results with those from the methods of significance analysis of microarray (SAM) and microarray analysis of variance (MAANOVA). Among these three methods, only expression biomarkers identified by our method can precisely identify the three human acute leukemia subtypes.

Biomarkers↗

PubMed2006

[Expression of human granulysin in murine macrophages and its effects on cell damage and apoptosis].

AIM: To construct an eukaryotic expression vector pBudCE4.1/GLS encoding human granulysin(GLS) derived from activated CTLs and observe its effects on cell damage and apoptosis when expressed in macrophages of various murine germ lines. METHODS: The gene sequence coding GLS carried on pEGFP-C1/GLS was subcloned into pBudCE4.1 plasmid and then transfected into different murine macrophages. The expression of GLS was detected by RT-PCR and immunocytochemical staining. The impairment and apoptosis of the host cells was assesed by measuring LDH in culture media and fluorescent staining of nuclear DNA, respectively. RESULTS: The pBudCE4.1/GLS recombinant containing accurate ORF of GLS was obtained and successfully expressed in the target cells at 48 h after transfection. No obvious effects on cell damage and apoptosis was detected during this course. CONCLUSION: The gene coding human GLS can be expressed in murine macrophages. The expressed product has no obvious effects on cell damage and apoptosis.

Animals↗