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The paper aims at presenting the acute toxic effect of water-accommodated fractions (WAFS) of No.0 diesel oil on HOX1 gene of Hemicentrotus pulcherrimus by PCR-SSCP. The experiment was carried out with three concentrations(2mg/L, 5mg/L, 10mg/l). The results indicated that with the increase of exposure concentration and time, the probability of mutation increased. In the four primers, single base mutation...
Alignment analysis indicated that the nucleotide sequences of Liver X receptors α (LXRα) of Landes goose are highly conserved to other species including chicken, human, rat, mouse and cattle, and the homologies are 95.2%, 76.3%, 74.5%, 74.3% and 74.9%, respectively. Furthermore, molecular phylogeny analyses have shown that LXRα were divided into two main evolution branches, one was the mammals branch,...
The pulA gene enconding a thermostable pullulanase of 844 amino acids was cloned by PCR amplification from the genomic DNA of Thermotoga maritima MSB8. We successfully expressed the pulA gene in a protease-deficient strain Bacillus subtilis WB600, and the expressed pullulanase was secreted into the culture broth. Preliminary results showed that the pullulanase exhibited optimal activity at 90°C, and...
Codon usage preference and the highly expressed genes have strong correlations occur in many organisms. Codon usage preference of viruses may evolve much similar with its infected host to increase the fitness. In this study we investigated differences in codon usage preferences among influenza A H1N1 viruses which infected avian, swine and human, and may cause major pandemic around world. The relative...
The ability to model complex regulatory networks is a big challenge in current biology research. Recently many computational methods have been developed to address this challenge. Compared with those methods using single data source, approaches integrating multiple data sources are expected to identify more reliable regulatory relations. Here, we present an easy but powerful method to integrate genome-wide...
The partial sequence of the psbA gene from Cladosiphon okamuranus was amplified by PCR and their sequences were analysed. Neighbor-joining method was used to build phylogenetic trees according to the psbA sequence among 11 species, C. okamuranus included, that are affiliated to the algal order Ectocarpales. The results showed that the nucleotide sequence is 737 bp and the sequence shares high homology...
In the ABC model, MADs-box proteins play an important role in floral development. As one of the MADs-box proteins, PI behaves as B function organ-identity genes acting in the second and third whorls of the flower to control petal and stamen identity. To find genes involved in the floral transition of pineapple guava, we cloned the full length cDNA encoding a MADs-box protein in Coolidge pineapple...
With the avalanche of protein sequences generated in the post-genomic age, it is highly desirable to develop an automated method by which crystallographic scientists can rapidly and effectively identify which quaternary attribute a particular protein chain has according to its sequence information. Given most of the previous studies are limited to homo-oligomers, in this paper, we will try to identify...
Kernel method has witnessed many successful applications in computational biology in recent years, and thus kernel design is a key step to define the similarity between two protein sequences. This paper aims at designing a kernel to derive more accurate similarity between two protein sequences by incorporating homology. Here a homologous sequence is viewed as one evolutionary instance of the target...
Prediction of protein folding rate from amino acid sequences is one of the most important challenges in computational and molecular biology. Over the past few years, many methods have been developed to reflect the correlation between folding rates and protein structures and sequences. In this paper, based on the concept of Chou's pseudo-amino acid composition, we presents an effective method to predict...
The influence of Cadmium(Cd) on exudation of low molecular weight organic acids (LMWOAs) were investigated based on the hydroponic culture experiment. Tartaric, citric, malic, and acetic acids were chosen as representatives of LMWOAs commonly present in roots exudation. We investigated the Cadmium accumulation in Zea Mays L.. In particular, the relationship of exudation of LMWOAs by roots with Cd...
Raw gene expression data and amino acid metabolic pathway of Saccharomyces cerevisiae were excavated by SMD (Stanford Microarray Database) and KEGG (Kyoto Encyclopedia of Genes and Genomes), respectively. The methionine and cysteine nutritional metabolic modules were selected and analyzed, expecting to establish the relationship between the modules, and find out the important genes, which made predominant...
Cystathionine β-synthase deficiency is an inborn error of metabolism that is biochemically characterized by severe hyperhomocysteinemia and homocystinuria. Numerous cystathionine β-synthase mutants have so far been found in patients with cystathionine β-synthase deficiency. In this study, we use the cross-impact analysis to model the cystathionine βsynthase mutants with their clinical endpoints, and...
Biological effects of the nanohydroxyapatites materials and its toxicity have been studied using ultraviolet absorption spectrum, infrared spectrum of absorption and MTT method. The nanohydroxyapatites are prepared and made by using Sol-gel method, in which the parameters of process and reaction are controlled as: PH> 9, Ca / P = 1.67, sintering temperature of 1100°C and sintering time 2 hours...
Due to the important physiological functions of GABA, various methods used to produce it. Biotransformation by microorganism cells is a more promising method than others. Among the GABA-producing lactic acid bacteria, one strain with high producing capacity was isolated from Chinese naturally pickled vegetable. The strain is identified as Lactobacillus brevis, and named as L.brevis TCCC13007 based...
Apoptosis is a form of genetically programmed cell death, which plays a pivotal role in normal development and the maintenance of homeostasis of a variety of tissues including cardiovascular system. Apop-1 is a soluble protein consisting of 194 amino acids with a mitochondrial localization signal at its N-terminus. RT-PCR data revealed that Apop-1 is expressed in all the organs tested. Immunofluorescence...
We have cloned and expressed a novel earthworm fibrinolytic enzyme (EFE) of Lumbricus rubellus in Pichia pastoris. Its cDNA sequence (GenBank Accession No. DQ202401) revealed a 738 bp region containing an intact ORF that encodes a protein of 245 amino acid residues, containing a signal peptide of 7 amino acid residues and a mature peptide of 238 amino acid residues, designated as EFE F238. Its cDNA...
The restriction-modification systems of C. glutamicum impede its uptake of foreign DNA and thus limiting its transformation efficiency. Here we investigated the possibility of improving the transformation efficiency of C. glutamicum by characterizing and circumventing their restriction/modification barrier, as well as by optimizing the conditions of electroporation. We found that, among various conditions...
Gametophytic self-incompatibility (GSI) is a genetically controlled mechanism to prevent inbreeding and promote out-crossing. Pyrus pyrifolia is a commercially important fruit tree that exhibits GSI. It is necessary to identify S-genotypes of cultivars for determination of cross-compatible combination prior to performing pear plantation and breeding programs. In this study, an important local cultivar...
Sidechain prediction is an important subproblem of protein design and structure prediction. Construction of rotamer library is the basis for protein sidechain prediction because it provides the basic searching space for prediction. However, the state-of-the-art rotamer libraries focus on the statistical information of individual amino acids, ignoring the direct affection of its adjacent amino acids...
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