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ABSTRACT: To date, the genetic structure and genetic diversity of Lepus capensis in Xinjiang has not been systematically studied at the molecular level, and its subspecies taxonomic status has been under debate for years. According to traditional morphology, there are three subspecies of L. capensis distributed in Xinjiang: L.c. centrasiaticus, L.c. lehmanni and L.c. pamirensis. In this study, we determined 592 bp D-loop sequences of 87 cape hares from Xinjiang Province. Forty-four haplotypes were defined based on 148 polymorphic sites. Both the haplotype diversity (0.977+/-0.005) and nucleotide diversity (0.064+/-0.031) are high. FST P values are significantly high and no haplotype was shared among the four geographic populations, indicating that genetic differentiation among populations is significant. AMOVA shows that most of the genetic differentiation occurred among geographic groups, indicating that geographic isolation such as mountains and deserts might make an effective barrier against gene flow. Both the phylogenetic tree and median-joining network grouped 44 haplotypes into four distinct clades corresponding to four geographic areas, indicating an obvious phylogeographic pattern. Our data supported the subspecies status of L. c. lehmanni. The fact that haplotypes of L. c. centrasiaticus were grouped into two distinct clades suggests that this traditional subspecies should be considered as two subspecies. In addition, L. c. pamirensis shows a significantly higher sequence divergence compared to other subspecies, and the difference even reached the level of species.
Zoological Research 04/2011; 32(2):179-87.
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ABSTRACT: DNA microarray is a new tool in biotechnology, which allows simultaneously monitoring thousands of gene expression in cells. The goal of differential gene expression analysis is to detect genes with significant change of gene expression levels arising from experimental conditions. Although various statistical methods have been suggested to confirm differential gene expression, only a few studies compared performance of the statistical methods. This paper presented comparison of statistical methods for finding differentially expressed genes (DEGs) from the microarray data. Using simulated and real datasets (Populus cDNA microarray data), we compared eight methods of identifying differential gene expression. The simulated datasets included four differential distributions (normal distribution, uniform distribution, c2 distribution, and exponential distribution). The results of simulated datasets analysis showed that the eight methods were more preferable with the microarray data of uniform distribution than normal distribution. They were not preferable with the c2 distribution and exponential distribution. Of these eight methods, SAM (Significance Analysis of Microarrays) and Wilcoxon rank sum test performed well in most cases. The results of real cDNA microarray data of Populus showed that there was much similarity of SAM, Samroc, and regression modeling approach. Wilcoxon rank sum test was different from them. Samroc and regression modeling approach were similar in the eight methods. For both simulated and real datasets, SAM, Samroc, and regression modeling approach performed better than other methods.
Hereditas (Beijing) 01/2009; 30(12):1640-6.
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ABSTRACT: To express and identify bovine O type foot and mouth disease virus protein 1 (FMDV VP1) in yeast Pichia pastoris.
FMDV vp1 gene was cloned into secretory Pichia pastoris expression vector-pSuperY. After being linearized with enzyme digestion, the vector was transformed into Pichia pastoris SMD1168H by electroporation. The transformant was screened by zeocin. Expressed proteins in yeast were analyzed by SDS-PAGE and Western blot and then were used to immunize mice.
The results of SDS-PAGE and Western blot demonstrated that the culture supernatant of recombinant yeast contained VP1 protein. The recombinant VP1 protein could elicit similar humoral and cellular immune responses in mice to traditional FMDV killed vaccine.
FMDV VP1 is expressed successfully in yeast Pichia pastoris, which lays the foundation for further FMDV vaccine research.
Xi bao yu fen zi mian yi xue za zhi = Chinese journal of cellular and molecular immunology 10/2004; 20(5):513-6.
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ABSTRACT: The gene orf25 encodes functional protein that may play an important role in plant fertility control in nature. To clone the orf25 from Salicornia europaea Xinjiang into a T-vector, a single designed primer was used to amplify 1.7kb cDNA fragment with RT-PCR. Sequence analysis reveals that the cloned fragment contains entire orf25 coding region with 98%, 95%, 92% and 88% identity to that of orf25 from Beta vulgaris, Nicotiana, wheat and maize mitochondrion, respectively. This analysis suggests that orf25 gene is highly conserved in terms of evolution in plant; and it also suggests that wild plant Salicornia europaea contain a male-sterility gene similar to crops that is of great importance in improvement of the breed of crop.
Sheng wu gong cheng xue bao = Chinese journal of biotechnology 02/2003; 19(1):120-3.
