To investigate the association of five SNPs(rs823083,rs708723,rs4951261,rs823076 and rs16856110) at the PARK16 locus with Parkinson's disease(PD),and to potentiate its forensic application.The genomic DNAs of 215 ...To investigate the association of five SNPs(rs823083,rs708723,rs4951261,rs823076 and rs16856110) at the PARK16 locus with Parkinson's disease(PD),and to potentiate its forensic application.The genomic DNAs of 215 PD patients and 212 matched controls from the northern Han Chinese population were amplified in two independent PCR systems and subsequently genotyped by digestion with the three endonucleases(Hinf Ⅰ,Nco Ⅰ and Msp Ⅰ).The genetic parameters and association studies were carried out with SPSS 13.0,Haploview version 4.2 and PLINK 1.07 softwares.We detected accurately all genotypes in the five SNPs with multiplex PCR-RFLP and mismatched multiplex PCR-RFLP techniques.The genotypes of four SNPs,except for rs823083,were in Hardy-Weinberg equilibrium.The four SNPs,rs16856110,rs4951261,rs708723 and rs823076,which were in linkage equilibrium,should not be associated with PD(P-values ranging from 0.077 to 0.544).The SNPs investigated at the PARK16 locus were not found to be involved in PD-associated blocks in the northern Han Chinese population.The allele distributions of rs708723,rs4951261,rs823076 and rs16856110 in the northern Han Chinese population can be highly polymorphic,which can be applied to genetic analysis and forensic practices.展开更多
Soil harbors remarkably stabilize bacterial communities at the phylum level. However, no two soils have exactly the same structure of bacterial phyla. The structure of microbial community is strongly influenced by the...Soil harbors remarkably stabilize bacterial communities at the phylum level. However, no two soils have exactly the same structure of bacterial phyla. The structure of microbial community is strongly influenced by the type of land-use through changes in soil attributes. Using high-throughput pyrosequencing and quantitative polymerase chain reaction techniques, soil microbial community structures were investigated along a land-use gradient of 100- and 27-year farmlands, a 33-year Pinus forest, a 28-year poplar forest, and a 21-year shrubland, as well as a native desert from which all cultivated systems were converted. The results revealed that the dominant phylotypes in the native soil comprised primarily of Alphaproteobacteria, Actinobacteria, Bacteroidetes, and Firmicutes, accounting for 〉 71.4% of the total bacterial 16S rRNA sequence reads. Changes in land-use led to a significant decrease in these dominant phylotypes down to 33.4%. In contrast, the phylotypes with low abundance, such as Acidobaeteria, Chloroflexi, Nitrospira, and Gammaproteobaeteria, increased sharply from 4.5%-5.9% in the native soil to 20.9% 30.2% of the total 16S rRNA gene sequences in the cultivated soils except for the soil from the shrubland. These contrasting changes in the major taxa appear to be correlated with the changes in soil attributes. For instance, bacterial and archaeal amoA genes were found to be 960- and 3 800-fold more abundant in the soil from the 100-year farmland than the native soil. The changes in numerically less dominant nitrifying phylotypes are consistent with soil inorganic nitrogen dynamics. Quantification of the 16S rRNA genes demonstrated that bacteria and archaea were about two to three orders of magnitude more abundant in the cultivated soil than in the native soil. Hence, land-use type affects the soil bacterial community structure, which has profound consequences on ecosystem function.展开更多
Background Parkinson＇s disease （PD） is an autosomally inherited neurodegenerative disease in elderly people.The etiology of PD has long been thought to be associated with both genetic and environmental factors.To e...Background Parkinson＇s disease （PD） is an autosomally inherited neurodegenerative disease in elderly people.The etiology of PD has long been thought to be associated with both genetic and environmental factors.To explore potential genetic risk factors for PD in the northern Han Chinese population,we investigated three single nucleotide polymorphisms （SNPs） （rs4538475,rs11107 and rs12564040） in the BST1,PARK15 and PARK9 genes.Methods Genomic DNA from 215 PD patients and 212 matched controls was amplified in two independent PCR systems and subsequently genotyped by digestion with the endonuclease Pstl.Genetic parameter and association studies were carried out with SPSS 13.0 and PLINK 1.07 software.Results We could accurately detect all genotypes in the three loci with the PCR-RFLP or mismatched PCR-RFLP techniques.The observed heterozygosities of the rs4538475 and rs11107 loci in PD and control groups ranged from 0.460-0.481 and 0.410-0.441,in BST1,PARK15 respectively,while we detected no heterozygosity at the rs12564040 locus in PARK9.The similar distributions of genotypic frequency between both groups suggest that the three SNPs investigated in this study are unlikely to play roles as common risk factors or pathogenic mutations for PD in northern Han Chinese.Conclusion The SNPs investigated in the BST1,PARK15 and PARK9 genes associated with PD susceptibility are not associated with PD in the northern Han Chinese population.展开更多
基金funded by National Natural Science Foundation of China(No.81172713)
文摘To investigate the association of five SNPs(rs823083,rs708723,rs4951261,rs823076 and rs16856110) at the PARK16 locus with Parkinson's disease(PD),and to potentiate its forensic application.The genomic DNAs of 215 PD patients and 212 matched controls from the northern Han Chinese population were amplified in two independent PCR systems and subsequently genotyped by digestion with the three endonucleases(Hinf Ⅰ,Nco Ⅰ and Msp Ⅰ).The genetic parameters and association studies were carried out with SPSS 13.0,Haploview version 4.2 and PLINK 1.07 softwares.We detected accurately all genotypes in the five SNPs with multiplex PCR-RFLP and mismatched multiplex PCR-RFLP techniques.The genotypes of four SNPs,except for rs823083,were in Hardy-Weinberg equilibrium.The four SNPs,rs16856110,rs4951261,rs708723 and rs823076,which were in linkage equilibrium,should not be associated with PD(P-values ranging from 0.077 to 0.544).The SNPs investigated at the PARK16 locus were not found to be involved in PD-associated blocks in the northern Han Chinese population.The allele distributions of rs708723,rs4951261,rs823076 and rs16856110 in the northern Han Chinese population can be highly polymorphic,which can be applied to genetic analysis and forensic practices.
基金Supported by the National Natural Science Foundation of China (No.91025021)the Knowledge Innovation Programs of the Chinese Academy of Sciences (Nos.KSCX2-EW-G-16-02 and KSCX2-YW-G-074-02)the E-Science Program of the Chinese Academy of Sciences (No.INFO-115-D01-Z006)
文摘Soil harbors remarkably stabilize bacterial communities at the phylum level. However, no two soils have exactly the same structure of bacterial phyla. The structure of microbial community is strongly influenced by the type of land-use through changes in soil attributes. Using high-throughput pyrosequencing and quantitative polymerase chain reaction techniques, soil microbial community structures were investigated along a land-use gradient of 100- and 27-year farmlands, a 33-year Pinus forest, a 28-year poplar forest, and a 21-year shrubland, as well as a native desert from which all cultivated systems were converted. The results revealed that the dominant phylotypes in the native soil comprised primarily of Alphaproteobacteria, Actinobacteria, Bacteroidetes, and Firmicutes, accounting for 〉 71.4% of the total bacterial 16S rRNA sequence reads. Changes in land-use led to a significant decrease in these dominant phylotypes down to 33.4%. In contrast, the phylotypes with low abundance, such as Acidobaeteria, Chloroflexi, Nitrospira, and Gammaproteobaeteria, increased sharply from 4.5%-5.9% in the native soil to 20.9% 30.2% of the total 16S rRNA gene sequences in the cultivated soils except for the soil from the shrubland. These contrasting changes in the major taxa appear to be correlated with the changes in soil attributes. For instance, bacterial and archaeal amoA genes were found to be 960- and 3 800-fold more abundant in the soil from the 100-year farmland than the native soil. The changes in numerically less dominant nitrifying phylotypes are consistent with soil inorganic nitrogen dynamics. Quantification of the 16S rRNA genes demonstrated that bacteria and archaea were about two to three orders of magnitude more abundant in the cultivated soil than in the native soil. Hence, land-use type affects the soil bacterial community structure, which has profound consequences on ecosystem function.
基金This work was supported by a grant from the National Natural Science Foundation of China （No.30771833）.
文摘Background Parkinson＇s disease （PD） is an autosomally inherited neurodegenerative disease in elderly people.The etiology of PD has long been thought to be associated with both genetic and environmental factors.To explore potential genetic risk factors for PD in the northern Han Chinese population,we investigated three single nucleotide polymorphisms （SNPs） （rs4538475,rs11107 and rs12564040） in the BST1,PARK15 and PARK9 genes.Methods Genomic DNA from 215 PD patients and 212 matched controls was amplified in two independent PCR systems and subsequently genotyped by digestion with the endonuclease Pstl.Genetic parameter and association studies were carried out with SPSS 13.0 and PLINK 1.07 software.Results We could accurately detect all genotypes in the three loci with the PCR-RFLP or mismatched PCR-RFLP techniques.The observed heterozygosities of the rs4538475 and rs11107 loci in PD and control groups ranged from 0.460-0.481 and 0.410-0.441,in BST1,PARK15 respectively,while we detected no heterozygosity at the rs12564040 locus in PARK9.The similar distributions of genotypic frequency between both groups suggest that the three SNPs investigated in this study are unlikely to play roles as common risk factors or pathogenic mutations for PD in northern Han Chinese.Conclusion The SNPs investigated in the BST1,PARK15 and PARK9 genes associated with PD susceptibility are not associated with PD in the northern Han Chinese population.
