Haplotype

CYP4F2 gene single nucleotide polymorphism is associated with ischemic stroke

H. - Q. Yan, Yuan, Y., Zhang, P., Huang, Z., Chang, L., and Gui, Y. - K., “CYP4F2 gene single nucleotide polymorphism is associated with ischemic stroke”, vol. 14, pp. 659-664, 2015.

The objective of this study was to explore the relationship between CYP4F2 gene polymorphism and ischemic stroke (IS) in the Han Chinese population. We performed a case-control study to genotype four single nucleotide polymorphisms (SNPs) (rs2108622, rs3093100, rs3093105, rs3093135) in the CYF4F2 gene. The genotype and haplotype distributions were compared between the case and control groups. We found that the GG genotype of rs2108622 in the CYP4F2 gene was associated with risk of IS (P = 0.023).

Analysis of genetic diversity of the heat shock protein 70 gene on the basis of abundant sequence polymorphisms in chicken breeds

J. K. Gan, Jiang, L. Y., Kong, L. N., Zhang, X. Q., and Luo, Q. B., “Analysis of genetic diversity of the heat shock protein 70 gene on the basis of abundant sequence polymorphisms in chicken breeds”, vol. 14, pp. 1538-1545, 2015.

This study was designed to detect the sequence variation of the chicken heat shock protein 70 (HSP70) gene. A total of 102 individuals from 8 native Chinese breeds together with Dwarf White Chicken and Red Junglefowl were used to detect sequence variations. The coding regions of the chicken HSP70 gene from 102 individuals were cloned and sequenced. Thirty-six variations were identified, which included 34 single nucleotide polymorphisms and 2 indel mutations. Fifty-seven haplotypes were observed, of which, 43 were breed-specific and 14 were shared.

Single nucleotide polymorphism analysis of the endopolygalacturonase gene in peach and its potential use in crossbreeding programs

Y. Jiao, Ma, R., and Yu, M., “Single nucleotide polymorphism analysis of the endopolygalacturonase gene in peach and its potential use in crossbreeding programs”, vol. 14, pp. 4090-4101, 2015.

Single nucleotide polymorphisms (SNPs) are the most abundant sequence variations found in plant genomes and are widely used as molecular genetic markers in genetic diversity studies and crossbreeding programs. In this study, we examined 113 DNA sequences of the endopolygalacturonase (endo-PG) gene from 67 peach accessions and found a total of 56 SNPs and 6 insertion/deletions (indels), with a frequency of 3, 1, and 3% for the transitions, transversions, and indels, respectively.

Genetic polymorphism at the KIR gene locus: determination of gene, genotype, and haplotype frequencies in the Xinjiang Han population

G. - Y. Lin, Yu, B., Hu, W. - J., Zhang, Y. - Z., Zuo, X. - J., and Wang, Y. - B., “Genetic polymorphism at the KIR gene locus: determination of gene, genotype, and haplotype frequencies in the Xinjiang Han population”, vol. 14, pp. 6213-6222, 2015.

The aim of this study was to explore the genetic polymorphism, genotype, and haplotype characteristics of the KIR locus in the Xinjiang Han population in order to establish a foundation for future analysis of the relationship between KIR genes and disease. KIR genes were detected by sequence-specific primer-polymerase chain reaction in 184 randomly selected, healthy individuals from the Han population in Xinjiang, China. Standard genotype and haplotype analyses were conducted using Hsu’s standards classified for analysis.

Relationship between genetic polymorphisms in the DRD5 gene and paranoid schizophrenia in northern Han Chinese

Y. Zhao, Ding, M., Pang, H., Xu, X. M., and Wang, B. J., “Relationship between genetic polymorphisms in the DRD5 gene and paranoid schizophrenia in northern Han Chinese”, vol. 13, pp. 1609-1618, 2014.

Dopamine (DA) has been implicated in the pathophysiol­ogy of several psychiatric disorders, including schizophrenia. Thus, genes related to the dopaminergic (DAergic) system are good candidate genes for schizophrenia. One of receptors of the DA receptor system is dopa­mine receptor 5 (DRD5). Single nucleotide polymorphisms (SNPs) in the regulatory regions of DRD5 gene may affect gene expression, influence biosynthesis of DA and underlie various neuropsychiatric disorders re­lated to DA dysfunction.

TPH2 gene polymorphisms in the regulatory region are associated with paranoid schizophrenia in Northern Han Chinese

X. M. Xu, Ding, M., Pang, H., and Wang, B. J., “TPH2 gene polymorphisms in the regulatory region are associated with paranoid schizophrenia in Northern Han Chinese”, vol. 13, pp. 1497-1507, 2014.

In the last years, serotonin (5-HT) has been related with the pathophysiology of several psychiatric disorders, including schizophrenia. Thus, genes related to the serotonergic (5-HTergic) system are good candidate genes for schizophrenia. The rate-limiting enzyme of 5-HT synthesis is tryptophan hydroxylase 2 (TPH2). Single nucleotide polymorphisms (SNPs) in the regulatory regions of TPH2 gene may affect gene expression and biosynthesis of 5-HT triggering to various neuropsychiatric disorders related to 5-HT dysfunction.

Adjacent SNPs in the transcriptional regulatory region of the FADS2 gene associated with fatty acid and growth traits in chickens

S. K. Zhu, Tian, Y. D., Zhang, S., Chen, Q. X., Wang, Q. Y., Han, R. L., and Kang, X. T., “Adjacent SNPs in the transcriptional regulatory region of the FADS2 gene associated with fatty acid and growth traits in chickens”, vol. 13, pp. 3329-3336, 2014.

Delta-6 fatty acid desaturases are rate-limiting desaturases involved in metabolic processes of fatty acids, and they are encoded by the FADS2 gene. In the current study, an F2 resource population of Gushi chickens crossed with Anak broilers was used to investigate the genetic effects of the chicken FADS2.

Development and characterization of single nucleotide polymorphism markers in Camellia sinensis (Theaceae)

C. C. Zhang, Wang, L. Y., Wei, K., and Cheng, H., “Development and characterization of single nucleotide polymorphism markers in Camellia sinensis (Theaceae)”, vol. 13, pp. 5822-5831, 2014.

Tea is the second most popular non-alcoholic beverage in the world. In recent years, several molecular markers have been used in genetic studies of the tea plant. Yet, only a few single nucleotide polymorphisms (SNPs) have been reported. Here, we identified 818 putative SNPs from expressed sequence tag (EST) databases for the tea plant, which produced a frequency of 1 SNP/170 bp. A direct sequencing method was then used to verify 253 putative SNPs in genome DNA of 17 tea varieties. Fifty (20%) candidate and 299 new SNPs were identified.

Analysis of the haplotype and linkage disequilibrium of PPARγ gene polymorphisms rs3856806, rs12490265, rs1797912, and rs1175543 among patients with metabolic syndrome in Kazakh of Xinjiang Province

S. X. Guo, Guo, H., Ma, R. L., Ding, Y. S., Zhang, J. Y., Liu, J. M., Zhang, M., Niu, Q., Qiang, N., Li, S. G., and Qi, C. N., “Analysis of the haplotype and linkage disequilibrium of PPARγ gene polymorphisms rs3856806, rs12490265, rs1797912, and rs1175543 among patients with metabolic syndrome in Kazakh of Xinjiang Province”, vol. 13, pp. 8686-8694, 2014.

We investigated the relationship between haplotype and linkage disequilibrium of the PPARγ gene polymorphisms rs3856806, rs12490265, rs1797912, and rs1175543 and metabolic syndrome (MS) in the Kazakh people of Xinjiang Province. For PPARγ, rs3856806, rs12490265, rs1797912, and rs1175543 genotypes were detected in 489 subjects (including 245 MS patients and 244 controls) using matrix-assisted laser desorption-ionization time-of-flight mass spectrometry.

Genetic diversity of Y-short tandem repeats in chinese native cattle breeds

Y. P. Xin, Zan, L. S., Liu, Y. F., Tian, W. Q., Wang, H. B., Cheng, G., Li, A. N., and Yang, W. C., “Genetic diversity of Y-short tandem repeats in chinese native cattle breeds”, vol. 13, pp. 9578-9587, 2014.

The aim of this study is to use Y-chromosome gene polymorphism method to investigate regional differences in genetic variation and population evolution history of the Chinese native cattle breeds. Six Y-chromosome short tandem repeat (Y-STR) loci (UMN0929, UMN0108, UMN0920, INRA124, UMN2404, and UMN0103) were analyzed using 1016 healthy and heterogenetic males and 90 females of 9 native cattle breeds (Qinchuan, Jinnan, Zaosheng, Luxi, Nanyang, Jiaxian, Dabieshan, Yanbian, and Menggu) in China.

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