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1.
Journal of Central South University(Medical Sciences) ; (12): 272-281, 2016.
Article in Chinese | WPRIM | ID: wpr-815042

ABSTRACT

OBJECTIVE@#To investigate the interaction between polymorphism of Toll-like receptor 4 (TLR4) gene G11367C in 3' untranslated region (UTR) and inhibitor of nuclear factor kappaB (IκB)-α 
Hae III in acute pancreatitis (AP) and the degree of severity.
@*METHODS@#A total of 450 patients with confirmed AP (AP group), who came from the First Affiliated Hospital of Xinxiang Medical College from May 2013 to June 2015, were divided into a mild AP subgroup (MAP subgroup), a moderately severe AP (MSAP subgroup), and a severe acute AP (SAP subgroup) (n=150 in each group). One hundred fifty healthy persons were served as a control group. There was no significant difference in age, gender, ethnicity and birthplace among all groups. The genetic polymorphisms of TLR4 gene G11367C in 3' untranslated region and IκB-α Hae III were analyzed by polymerase chain reaction (PCR). Eligible participants were personally interviewed by a questionnaire. Unconditional logistic regression model and single factor analysis were performed to calculate the adjusted odds ratios (OR) and 95% confidence intervals (95% CI) of G11367C and IκB-α Hae III polymorphisms, respectively. The interaction of nucleotide polymorphisms was analyzed.
@*RESULTS@#The frequencies of G11367C (GC), IκB-α Hae III (AG) and IκB-α Hae III (GG) were 69.56%, 33.78% and 36.22% in the AP group; 49.33%, 24.67% and 26.00% in the MAP subgroup; 70.67%, 34.67% and 36.67% in the MSAP subgroup; 88.67%, 42.00% and 46.00% in the SAP subgroup and 26.67%, 14.00% and 14.67% in the control group, respectively. There was significant difference in the frequencies betweenc the AP group and the control group, or among each AP subgroup (all P1). Similarly, there were also positive interactions in the pathogenesis of AP between G11367C (GC) and IκB-α Hae III (AG) (All γ>1). 
@*CONCLUSION@#These carriers of G11367C(GC), IκB-α Hae III(AG) and IκB-α Hae III (GG) genotypes may have a high risk of AP occurency, and there are significant interactions between genetic polymorphisms of G11367C and IκB-α Hae III, which increaes the risk of the occurrence and development of AP.


Subject(s)
Humans , 3' Untranslated Regions , Acute Disease , Deoxyribonucleases, Type II Site-Specific , Ethnicity , Genetic Predisposition to Disease , Genotype , I-kappa B Kinase , Logistic Models , NF-KappaB Inhibitor alpha , Odds Ratio , Pancreatitis , Polymerase Chain Reaction , Polymorphism, Single Nucleotide , Promoter Regions, Genetic , Toll-Like Receptor 4
2.
Chinese Journal of Medical Genetics ; (6): 877-880, 2015.
Article in Chinese | WPRIM | ID: wpr-287968

ABSTRACT

<p><b>OBJECTIVE</b>To assess the association of vitamin D receptor gene (VDR) Apa I, Bsm I genotypes and allele frequencies and mild cognitive impairment (MCI) among elderly ethnic Uygurs from Xinjiang, China.</p><p><b>METHODS</b>The polymorphisms of the VDR genotypes (Apa I and Bsm I) were analyzed by the SNaPshot method in 124 MCI patients and 124 controls.</p><p><b>RESULTS</b>Factors which can increase the risk for MCI have included the A allele of the Apa I polymorphism [OR=1.62, 95%CI(1.13-2.31)] and the AA genotype [OR=3.49, 95% CI(1.57-7.74)], the T allele of the Bsm I polymorphism [OR=1.94, 95%CI(1.24-3.05)], higher triglyceride and systolic blood pressure levels.</p><p><b>CONCLUSION</b>Polymorphisms of the VDR gene including the A allele and AA genotype of Apa I, and the T allele of Bsm I are probably associated with MCI among elderly ethnic Uygurs, and so are higher levels of triglyceride and systolic blood pressure.</p>


Subject(s)
Aged , Female , Humans , Male , Middle Aged , Alleles , Asian People , Genetics , Binding Sites , Genetics , Blood Pressure , China , Cognitive Dysfunction , Ethnology , Genetics , Psychology , Deoxyribonucleases, Type II Site-Specific , Metabolism , Diagnostic and Statistical Manual of Mental Disorders , Ethnicity , Genetics , Gene Frequency , Genetic Predisposition to Disease , Ethnology , Genetics , Genotype , Logistic Models , Multivariate Analysis , Polymorphism, Single Nucleotide , Receptors, Calcitriol , Genetics , Triglycerides , Blood
3.
Braz. j. microbiol ; 45(2): 503-507, Apr.-June 2014. ilus, tab
Article in English | LILACS | ID: lil-723106

ABSTRACT

In this study we attempted to modify the PCR-RFLP method using restriction enzyme MwoI for the identification of medically important Aspergillus species. Our subjects included nine standard Aspergillus species and 205 Aspergillus isolates of approved hospital acquired infections and hospital indoor sources. First of all, Aspergillus isolates were identified in the level of species by using morphologic method. A twenty four hours culture was performed for each isolates to harvest Aspergillus mycelia and then genomic DNA was extracted using Phenol-Chloroform method. PCR-RFLP using single restriction enzyme MwoI was performed in ITS regions of rDNA gene. The electrophoresis data were analyzed and compared with those of morphologic identifications. Total of 205 Aspergillus isolates included 153 (75%) environmental and 52 (25%) clinical isolates. A. flavus was the most frequently isolate in our study (55%), followed by A. niger 65(31.7%), A. fumigatus 18(8.7%), A. nidulans and A. parasiticus 2(1% each). MwoI enabled us to discriminate eight medically important Aspergillus species including A. fumigatus, A. niger, A. flavus as the most common isolated species. PCR-RFLP method using the restriction enzyme MwoI is a rapid and reliable test for identification of at least the most medically important Aspergillus species.


Subject(s)
Aspergillosis/microbiology , Aspergillus/classification , Aspergillus/genetics , Deoxyribonucleases, Type II Site-Specific , Molecular Typing/methods , Polymorphism, Restriction Fragment Length , Polymerase Chain Reaction/methods , DNA, Fungal/genetics , DNA, Ribosomal Spacer/genetics , Time Factors
4.
China Journal of Chinese Materia Medica ; (24): 4763-4768, 2014.
Article in Chinese | WPRIM | ID: wpr-341820

ABSTRACT

To reveal the effect of rotation cropping and bacterial manure on the growth of Chrysanthemum morifolium and screen the beneficial endophytic, the diversity of endophytic and dominant genera of different treatment groups were analyzed. Four different treatments were continuous cropping, rotation, self-made organic fertilizer and commercially available fertilizer, respectively. Endophytic bacterial diversity and dominant genera in different organs were examined using Terminal Restriction Fragment Length Polymorphism (T-RFLP). The results showed that enzyme Hae III was more appropriate than enzyme Hinfl because the number of TRFs digested by enzyme Hae III was more than that of enzyme Hinfl. In comparison of diversity, the endophytic bacterial communities' diversity index in group of cropping rotation and fertilizer was higher than that of continuous cropping which indicated that the addition of exogenous microorganism in soil could increase the diversity of plant endophyte. 18 dominant species were selected, including 3 kinds of Firmicutes, 4 kinds of Actinomycetes and 11 kinds of Proteobacteria. The results of dominant species comparison showed that the number of dominant species in continuous cropping of Ch. morifolium was significantly less than that of the rotation group. Some dominant bacteria in rotation group and fertilizer group such as Arthrobacter, Streptomyces, Streptomyces, Flavobacterium and Mycobacterium were not found in the continuous cropping of Ch. mortfolium group. Dominant species of fertilizer treatment group was similar with the rotation group, and the continuous cropping group's dominant species was more abundant. It indicates that these bacteria may be able to mitigate hindrance in continuous cropping, especially the Flavobacterium which can decompose the pathogenic fungi is worthy of further attention. Compared with leaves, there are more dominant species in roots and stems. The diversity of edophytic bacterial communities in continuous cropping of Ch. morifolium stays below than that in the rotation of Ch. morifolium, and fertilizer treatment can increase the diversity of continuous cropping so that it could mitigate hindrance in continuous cropping.


Subject(s)
Actinobacteria , Physiology , Agriculture , Biodiversity , Chrysanthemum , Microbiology , Deoxyribonucleases, Type II Site-Specific , Endophytes , Fertilizers , Gram-Positive Bacteria , Physiology , Phylogeny , Plant Leaves , Plant Roots , Microbiology , Polymorphism, Restriction Fragment Length , Proteobacteria , Physiology , RNA, Ribosomal, 16S , Chemistry , Genetics , Soil , Soil Microbiology
5.
Chinese Journal of Contemporary Pediatrics ; (12): 846-850, 2014.
Article in Chinese | WPRIM | ID: wpr-254186

ABSTRACT

<p><b>OBJECTIVE</b>To investigate the single nucleotide polymorphisms (SNPs) at interleukin 6 (IL-6)-174 and TNF-β NcoI in Chinese Han children in Guangzhou, China and to provide basic information for study on the association between IL-6-174 and TNF-β NcoI polymorphisms and systemic inflammatory response syndrome (SIRS).</p><p><b>METHODS</b>Allele-specific polymerase chain reaction and polymerase chain reaction-restriction fragment length polymorphism were used to determine the SNPs at IL-6-174 and TNF-β NcoI in 481 children selected from the Han population in Guangzhou in 2012. Genotype analysis and comparison with other populations were made with reference to relevant literature.</p><p><b>RESULTS</b>Chinese Han children in Guangzhou had only GG genotype at IL-6-174, and the SNP at this locus was rare or not seen in the Han population in Guangzhou. At TNF-β NcoI, the frequencies of TNF-β 1*1, TNF-β 1*2, and TNF-β 2*2 genotypes were 24.7%, 49.7%, and 25.6%, respectively. The sample distribution was in accordance with Hardy-Weinberg equilibrium. The TNF-β 1 allele frequency was significantly higher in Guangzhou Han population than in European and American white population (P<0.05).</p><p><b>CONCLUSIONS</b>TNF-β NcoI SNP is prevalent in the Han population in Guangzhou, and the distribution of alleles is significantly different from that in the white population. The sample from an Hardy-Weinberg equilibrium population can be further used for study on the association between TNF-β NcoI SNP and SIRS in Chinese Han children in Guangzhou. IL-6-174 SNP is rare or not seen in the Han population in Guangzhou, so SNP at this locus cannot be selected for disease association analysis.</p>


Subject(s)
Child, Preschool , Female , Humans , Male , Asian People , Genetics , China , Ethnology , Deoxyribonucleases, Type II Site-Specific , Metabolism , Gene Frequency , Interleukin-6 , Genetics , Lymphotoxin-alpha , Genetics , Polymorphism, Single Nucleotide , Systemic Inflammatory Response Syndrome , Genetics
6.
Protein & Cell ; (12): 357-368, 2014.
Article in English | WPRIM | ID: wpr-757486

ABSTRACT

DraIII is a type IIP restriction endonucleases (REases) that recognizes and creates a double strand break within the gapped palindromic sequence CAC↑NNN↓GTG of double-stranded DNA (↑ indicates nicking on the bottom strand; ↓ indicates nicking on the top strand). However, wild type DraIII shows significant star activity. In this study, it was found that the prominent star site is CAT↑GTT↓GTG, consisting of a star 5' half (CAT) and a canonical 3' half (GTG). DraIII nicks the 3' canonical half site at a faster rate than the 5' star half site, in contrast to the similar rate with the canonical full site. The crystal structure of the DraIII protein was solved. It indicated, as supported by mutagenesis, that DraIII possesses a ββα-metal HNH active site. The structure revealed extensive intra-molecular interactions between the N-terminal domain and the C-terminal domain containing the HNH active site. Disruptions of these interactions through site-directed mutagenesis drastically increased cleavage fidelity. The understanding of fidelity mechanisms will enable generation of high fidelity REases.


Subject(s)
Amino Acid Sequence , Base Sequence , Calorimetry, Differential Scanning , Catalytic Domain , Crystallography, X-Ray , DNA , Metabolism , DNA Cleavage , Deoxyribonucleases, Type II Site-Specific , Chemistry , Genetics , Metabolism , Escherichia coli , Metabolism , Molecular Sequence Data , Mutagenesis, Site-Directed , Recombinant Proteins , Chemistry , Genetics , Metabolism , Sequence Alignment , Substrate Specificity
7.
Asian Pacific Journal of Tropical Medicine ; (12): 63-66, 2014.
Article in English | WPRIM | ID: wpr-819729

ABSTRACT

OBJECTIVE@#To study correlation between the Xba I polymorphism of apoB gene and plasma lipid profiles in Li ethnic group.@*METHODS@#Total 151 cases of healthy Li people were recruited randomly by cluster sampling and 200 Han people were recruited as control; blood was drawn to analyze Xba I polymorphism distribution of apoB gene and serum lipid levels.@*RESULTS@#There were lower serum total cholesterol (TC) and low density lipoprotein cholesterol (LDL-C) levels in serum of Li people; while, high density lipoprotein cholesterol (HDL-C), X-/X+ genotype and X+ allele frequencies exhibited higher levels than Han people. Interestingly, HDL-C level was reduced, while LDL-C level was enhanced in subjects carrying heterozygous (X-/X+) genotype compared to homozygous (X-/X-) genotype. Additionally, there were no difference in serum level of triglyceride, TC, apoprotein A (apo A) and apoprotein B (apo B) between Li and Han people, the same results were showed between X-/X+ and X-/X- genotype carriers.@*CONCLUSIONS@#Xba I polymorphism of apoB gene is correlated to the profiles of serum lipid level, X-/X+ genotype carriers are phenotyped with higher LDL-C level and lower level of HDL-C in Li ethnic group.


Subject(s)
Humans , Analysis of Variance , Apolipoproteins B , Genetics , Asian People , Genetics , Chi-Square Distribution , Deoxyribonucleases, Type II Site-Specific , Ethnicity , Genetics , Gene Frequency , Genotype , Lipids , Blood , Polymorphism, Single Nucleotide , Genetics
8.
Biomedical and Environmental Sciences ; (12): 584-591, 2013.
Article in English | WPRIM | ID: wpr-320300

ABSTRACT

<p><b>OBJECTIVE</b>To optimize the performance of Pulsed-Field Gel Electrophoresis (PFGE) for the comparison of inter-laboratory results and information exchange of Borrelia burgdorferi subtyping.</p><p><b>METHODS</b>A panel of 34 strains of B. burgdorferi were used to optimize PFGE for subtyping. In order to optimize the electrophoretic parameters (EPs), all 34 strains of B. burgdorferi were analyzed using four EPs, yielding different Simpson diversity index (D) values and the epidemiological concordance was also evaluated.</p><p><b>RESULTS</b>The EP of a switch time of 1 s to 25 s for 13 h and 1 s to 10 s for 6 h produced the highest D value and was declared to be optimal for MluI and SmaI PFGE of B. burgdorferi. MluI and SmaI were selected as the first and second restriction enzymes for PFGE subtyping of B. burgdorferi according to discrimination and consistency with epidemiological data.</p><p><b>CONCLUSION</b>PFGE can be used as a valuable test for routine genospecies identification of B. burgdorferi.</p>


Subject(s)
Animals , Humans , Rats , Bacterial Proteins , Metabolism , Bacterial Typing Techniques , Borrelia burgdorferi , Classification , Genetics , DNA, Bacterial , Metabolism , Deoxyribonucleases, Type II Site-Specific , Metabolism , Electrophoresis, Gel, Pulsed-Field , Ixodes
9.
Cell Journal [Yakhteh]. 2013; 15 (1): 75-82
in English | IMEMR | ID: emr-143269

ABSTRACT

Osteoporosis is a bone disorder that reduces bone mineral density [BMD] and leads to bone fracture. In addition to different factors, gene polymorphisms have been revealed to be associated with osteoporosis. In this study, we investigated the association between the BsmI polymorphism of vitamin D receptor [VDR] gene [rs1544410] and BMD in a population of Iranian women. In this case control study, clinical risk factors for osteoporosis were obtained from the participants through a questionnaire for a case-control study. The World Health Organisation [WHO] criteria were applied for the diagnosis of the disease. Peripheral blood samples were obtained from 146 pre- and or postmenopausal Iranian women aged between 35 and 71 years [53.53 +/- 9.8]. The study population was classified for BMD into normal and osteoporotic groups, who matched for age, pregnancy status, menstrual condition, and body mass index [BMI]. The BMD of the lumbar spine [L1-4] and femoral neck was measured. Polymerase chain reaction restriction fragment length polymorphism [PCR-RFLP] was performed to detect and analyze the genotype. The frequencies of AA and GG were significantly different between the two groups [p value<0.05], with the first genotype being higher in the patients and the second being higher in the normal group. The GG genotype was significantly associated with increased BMD in the lumbar spine [p value<0.05] but non-significant in the femoral neck [p value>0.05]. BsmI polymorphism of VDR gene has a significant association with BMD in the lumbar spine and may have a minor effect on the proximal femur BMD in Iranian women


Subject(s)
Humans , Female , Deoxyribonucleases, Type II Site-Specific , Polymorphism, Genetic , Bone Density , Case-Control Studies , Osteoporosis
10.
Invest. clín ; 53(4): 331-341, dic. 2012. ilus, tab
Article in Spanish | LILACS | ID: lil-687426

ABSTRACT

El cáncer es un conjunto de trastornos que comparten la característica común de un crecimiento celular descontrolado, teniendo la facultad de comenzar en las células, generando dos procesos sucesivos: el aumento de la proliferación celular (tumor o neoplasia) y la capacidad invasiva de estas células, proliferando y colonizando otros tejidos (metástasis). La metilación del DNA es un proceso epigenético que recurrentemente ha sido involucrado como un factor importante en la patogenia de esta enfermedad el cual participa en la regulación de la expresión génica directamente al impedir la unión de factores de trascripción, e indirectamente propiciando la estructura “cerrada” de la cromatina. El objetivo de este trabajo fue determinar regiones hipermetiladas en muestras de extendidos cromosómicos mediante la utilización de la endonucleasa de restricción Alu I y relacionar estas regiones con sitios de localización de genes supresores de tumores relacionados con el cáncer de mama. Se analizaron 60 muestras de sangre periférica de mujeres con diagnóstico de cáncer de mama a las cuales se les realizó cultivo celular; los extendidos cromosómicos fueron teñidos con Giemsa previamente digeridos con la enzima Alu I. Se observaron cromosomas con regiones centroméricas y no centroméricas teñidas en el 37% de los casos, comprobándose que en el 95,46% de los casos existen genes asociados descritos, como metilados en cáncer de mama. Ejemplo de ellos son los localizados en los cromosomas 1q, 2q, 6q, y regiones centroméricas no teñidas usualmente como en los cromosomas 3, 4, 8, 13, 14, 15, y 17. Se sugiere la importancia de esta técnica ya que permite la visualización total del genoma, pudiendo localizar genes metilados relacionados con cáncer de mama y, de esta manera dirigir la terapia de forma específica, logrando una mejor respuesta terapéutica.


Cancer is a group of disorders characterized by uncontrolled cell growth which is produced by two successive events: increased cell proliferation (tumor or neoplasia) and the invasive capacity of these cells (metastasis). DNA methylation is an epigenetic process which has been involved as an important pathogenic factor of cancer. DNA methylation participates in the regulation of gene expression, directly, by preventing the union of transcription factors, and indirectly, by promoting the “closed” structure of the chromatine. The objectives of this study were to identify hypermethyled chromosomal regions through the use of restriction Alu I endonuclease, and to relate cytogenetically these regions with tumor suppressive gene loci. Sixty peripheral blood samples of females with breast cancer were analyzed. Cell cultures were performed and cytogenetic spreads, previously digested with Alu I enzyme, were stained with Giemsa. Chromosomal centromeric and not centromeric regions were stained in 37% of cases. About 96% of stained hypermethyled chromosomal regions (1q, 2q, 6q) were linked with methylated genes associated with breast cancer. In addition, centromeric regions in chromosomes 3, 4, 8, 13, 14, 15 and 17, usually unstained, were found positive to digestion with Alu I enzime and Giemsa staining. We suggest the importance of this technique for the global visualization of the genome which can find methylated genes related to breast cancer, and thus lead to a specific therapy, and therefore a better therapeutic response.


Subject(s)
Adult , Aged , Aged, 80 and over , Female , Humans , Middle Aged , Breast Neoplasms/genetics , Chromosome Banding/methods , Deoxyribonucleases, Type II Site-Specific , DNA Methylation
11.
Braz. j. med. biol. res ; 45(10): 891-897, Oct. 2012. tab
Article in English | LILACS | ID: lil-647746

ABSTRACT

Polymorphisms of hormone receptor genes have been linked to modifications in reproductive factors and to an increased risk of breast cancer (BC). In the present study, we have determined the allelic and genotypic frequencies of the ERα-397 PvuII C/T, ERα-351 XbaI A/G and PGR PROGINS polymorphisms and investigated their relationship with mammographic density, body mass index (BMI) and other risk factors for BC. A consecutive and unselected sample of 750 Brazilian BC-unaffected women enrolled in a mammography screening program was recruited. The distribution of PGR PROGINS genotypic frequencies was 72.5, 25.5 and 2.0% for A1A1, A1A2 and A2A2, respectively, which was equivalent to that encountered in other studies with healthy women. The distribution of ERα genotypes was: ERα-397 PvuII C/T: 32.3% TT, 47.5% TC, and 20.2% CC; ERα-351 XbaI A/G: 46.3% AA, 41.7% AG and 12.0% GG. ERα haplotypes were 53.5% PX, 14.3% Px, 0.3% pX, and 32.0% px. These were significantly different from most previously published reports worldwide (P < 0.05). Overall, the PGR PROGINS genotypes A2A2 and A1A2 were associated with fatty and moderately fatty breast tissue. The same genotypes were also associated with a high BMI in postmenopausal women. In addition, the ERα-351 XbaI GG genotype was associated with menarche ≥12 years (P = 0.02). ERα and PGR polymorphisms have a phenotypic effect and may play an important role in BC risk determination. Finally, if confirmed in BC patients, these associations could have important implications for mammographic screening and strategies and may be helpful to identify women at higher risk for the disease.


Subject(s)
Adult , Aged , Female , Humans , Middle Aged , Breast Neoplasms/genetics , Deoxyribonucleases, Type II Site-Specific/genetics , Estrogen Receptor alpha/genetics , Genetic Predisposition to Disease , Polymorphism, Genetic/genetics , Receptors, Progesterone/genetics , Body Mass Index , Brazil , Breast Neoplasms/diagnosis , Gene Frequency , Genotype , Mammary Glands, Human/abnormalities , Prevalence , Risk Factors
12.
Chinese Medical Journal ; (24): 3500-3504, 2012.
Article in English | WPRIM | ID: wpr-256706

ABSTRACT

<p><b>BACKGROUND</b>Untreated human cytomegalovirus (CMV) disease (CMVD) is an identified risk factor for reduced rates of patient (and graft) survival, death or retransplantation in kidney transplant recipients due to increased immunological tolerance after transplant. Vitamin D receptor (VDR) gene polymorphisms have an obvious relationship with autoimmune diseases but the relationship between VDR gene polymorphisms and CMVD are not well understood. This study investigated the relationship between VDR FokI and ApaI gene polymorphisms and CMVD, and their value for predicting risk of CMVD.</p><p><b>METHODS</b>Ninety-eight kidney transplantation recipients were randomly chosen for which peripheral blood samples and case histories for the first three months after kidney transplantation were obtained. Using polymerase chain reaction-restriction fragment length polymorphisms, 30 recipients were found to be homozygous for the FokI gene (FF), 47 heterozygous (Ff), and 21 were homozygous (ff). Likewise, similar analyses determined that 12 recipients were homozygous for the ApaI gene (AA), 36 heterozygous (Aa), and 50 homozygous (aa). Factors affecting the prognosis of the kidney transplantation were compared for all genotypes by statistical analysis before operation. Infection by CMV for all recipients was detected by immunofluorescence assay to diagnose CMVD.</p><p><b>RESULTS</b>No statistical significance was observed for the factors affecting the prognosis of the kidney transplantation between both genotypes; however, statistical differences in CMVD among the FokI genotypes were identified. It was determined that the risk of CMVD was significantly increased for recipients of the ff genotype than for other genotypes. There was no statistical significance observed for CMVD among ApaI genotypes.</p><p><b>CONCLUSIONS</b>The recessive f allelic gene of VDR can be regarded as a risk factor of CMVD while FF recipients have lower incidence of CMVD after kidney transplantation. ApaI genotypes showed no relationship with predisposition to CMVD.</p>


Subject(s)
Adolescent , Adult , Female , Humans , Male , Young Adult , Alleles , Cytomegalovirus Infections , Genetics , Deoxyribonucleases, Type II Site-Specific , Genetics , Genotype , Homozygote , Kidney Transplantation , Polymorphism, Genetic , Genetics , Polymorphism, Restriction Fragment Length , Genetics , Receptors, Calcitriol , Genetics , Site-Specific DNA-Methyltransferase (Adenine-Specific) , Genetics
13.
Journal of Central South University(Medical Sciences) ; (12): 1215-1220, 2012.
Article in Chinese | WPRIM | ID: wpr-814713

ABSTRACT

OBJECTIVE@#To quantitatively investigate the association between the polymorphism of FokI of the VDR gene and the susceptibility of prostatic cancer.@*METHODS@#Databases of Pubmed, EMBase, CBM, CNKI, VIP, and Wanfang Data were retrieved from the date they formed till May 2011. All randomized controlled clinical trials which matched both the inclusive criteria and exclusive criteria were subjected to meta-analysis, conducted on Revman 5.0.0 software. Stata 11.0 software was employed to process Begg's test.@*RESULTS@#Ten studies were included. Total sample cases were 8360, with 3749 cases in the patient group and 4611 cases in the control group, respectively. The quantitative analysis showed there were no significantly differences between the polymorphism of VDR FokI alleles and the susceptibility of prostatic cancer (allele F to f: OR=1.00, 95% CI=0.94-1.06, P=0.96; genotypes FF/Ff to ff: OR=1.04, 95% CI=0.93-1.51, P=0.48; genotypes FF to Ff/ff: OR=0.97, 95% CI=0.89-1.06, P=0.53). Though one research on Indian people indicated that allele F was a risk factor for prostatic cancer, in Begg's test we observed relatively high publication bias. The subgroup analysis showed there were no significantly differences between the polymorphism of VDR FokI alleles and the susceptibility of prostatic cancer (allele F to f, white race: OR=0.91, 95% CI=0.88-1.02, P=0.17; yellow race: OR=1.09, 95% CI=0.95-1.24, P=0.22; Indian: OR=1.91, 95% CI=1.30-2.81, P=0.0009).@*CONCLUSION@#VDR FokI allele F might be a protective factor for European and American Caucasians.


Subject(s)
Humans , Male , Alleles , Deoxyribonucleases, Type II Site-Specific , Genetics , Genetic Predisposition to Disease , Polymorphism, Single Nucleotide , Prostatic Neoplasms , Genetics , Receptors, Calcitriol , Genetics
14.
Medical Sciences Journal of Islamic Azad University. 2011; 21 (1): 55-60
in Persian | IMEMR | ID: emr-109669

ABSTRACT

There are several studies that have identified relationship between VDR gene polymorphisms and colorectal [CRC] or other kinds of cancers, such as breast and prostate cancers. The aim of our study was to evaluate the association of VDR gene polymorphisms, BsmI and FokI, with colorectal cancer risk among Iranian patients. In this case-control study, 110 DNA samples from Iranian CRC patients and 110 samples from healthy Iranian people. Genotyping of BsmI and FokI polymorphisms were performed by PCR-RFLP method. To confirm the RFLP results, 5% of samples were sequenced with direct sequencing method. The frequency of the VDR gene polymorphisms at BsmI and FokI restriction sites in CRC patients and healthy controls was almost similar. Allele distribution in patients and controls was same. There was no statistically significant difference in genotype or allele frequency between CRC patients and control group. VDR FokI and BsmI genotypes are not associated with increased risk of colorectal cancer in Iranian patients. However, these data remain to be confirmed by studies with larger sample size in Iran


Subject(s)
Humans , Deoxyribonucleases, Type II Site-Specific , Receptors, Calcitriol/genetics , Polymorphism, Genetic , Polymerase Chain Reaction , Polymorphism, Restriction Fragment Length
15.
Rev. Soc. Bras. Med. Trop ; 43(2): 166-169, Mar.-Apr. 2010. ilus
Article in Portuguese | LILACS | ID: lil-545771

ABSTRACT

INTRODUÇÃO: A leptospirose é uma zoonose endêmica, mundialmente distribuída, causada por bactérias do gênero Leptospira. Este gênero compreende espécies patogênicas e saprofíticas, com mais de 200 sorovares distintos, dificultando sua caracterização. A técnica de pulsed field gel electrophoresis tem sido empregada como uma ferramenta para auxiliar nesta caracterização. Os objetivos deste trabalho foram padronizar a técnica de PFGE, determinar os perfis moleculares das cepas de referência utilizadas pelo Laboratório de Referência Nacional para Leptospirose/Centro Colaborador da Organização Mundial de Saúde para Leptospirose e criar um banco de dados com estes perfis. MÉTODOS: Foram analisadas, por PFGE, dezenove cepas utilizando a enzima de restrição NotI. RESULTADOS: Cada cepa apresentou um perfil único que pode ser considerado como uma identidade genômica específica, com exceção dos sorovares Icterohaemorrhagiae e Copenhageni, cujos perfis foram indistinguíveis. CONCLUSÕES: Dessa forma, foi possível a criação de um banco de perfis moleculares que está sendo utilizado no Laboratório para a comparação e identificação de cepas isoladas de quadros clínicos.


INTRODUCTION: Leptospirosis is an endemic zoonosis of worldwide distribution, caused by bacteria of the genus Leptospira. This genus includes pathogenic and saprophytic species, with more than 200 different serovars, thus making it difficult to characterize. The technique of pulsed field gel electrophoresis has been used as a tool to aid in this characterization. The aims of this study were to standardize the PFGE technique, determine the molecular profiles of reference strains used at the National Reference Laboratory for Leptospirosis/World Health Organization Collaborating Center for Leptospirosis and create a database with these profiles. METHODS: Nineteen strains were analyzed by means of PFGE, using the restriction enzyme NotI. RESULTS: Each strain presented a unique profile that could be considered to be a specific genomic identity, with the exception of the serovars Icterohaemorrhagiae and Copenhageni, whose profiles were indistinguishable. CONCLUSIONS: It was possible to create a database of molecular profiles, which are being used in the Laboratory for comparing and identifying strains isolated from clinical cases.


Subject(s)
Electrophoresis, Gel, Pulsed-Field , Leptospira/classification , Serotyping/methods , Agglutination Tests , DNA, Bacterial/analysis , Deoxyribonucleases, Type II Site-Specific/analysis , Leptospira/enzymology , Leptospira/genetics
16.
Chinese Journal of Medical Genetics ; (6): 162-165, 2010.
Article in Chinese | WPRIM | ID: wpr-349020

ABSTRACT

Zinc finger nuclease (ZFN), which is a chimeric fusion structure between a Cys2-His2 zinc-finger protein (ZFP) and the cleavage domain of Fok I endonuclease, can be used to introduce targeted double-stranded breaks (DSBs). ZFN-mediated cleavage leads to mutations when double-stranded breaks are repaired by homologous recombination (HR) or nonhomologous end joining (NHEJ). In recent years, ZFNs are widely used in the fields of genetic research. In this review, the methodology and technical advantages of ZFNs were briefly discussed.


Subject(s)
Animals , Humans , Deoxyribonucleases, Type II Site-Specific , Chemistry , Genetics , Metabolism , Zinc Fingers
17.
Chinese Journal of Medical Genetics ; (6): 40-44, 2009.
Article in Chinese | WPRIM | ID: wpr-287458

ABSTRACT

<p><b>OBJECTIVE</b>To assess the allele and genotype frequencies of the estrogen receptor alpha ( ESR alpha) Pvu II and Xba I polymorphisms in patients with severe preeclampsia and compare them with those of normal pregnant women.</p><p><b>METHODS</b>Blood samples from 131 patients with severe preeclampsia and 223 normal pregnant women from Chinese Han in Chengdu area were analyzed, using PCR-RFLP method. Pregnant patients with blood pressure exceeding 140/90 mmHg (or 18.7/12 kPa) were recruited with a strict definition of preeclampsia. Genotyping was performed using PCR-RFLP for Pvu II and Xba I polymorphisms in the ESR alpha gene.</p><p><b>RESULTS</b>The T and C allele frequencies for Pvu II site were 0.580 and 0.420 in the patient group, and 0.576 and 0.424 in the controls, respectively. The A and G allele frequencies for Xba I site were 0.763 and 0.237 in the patient group, and 0.807 and 0.193 in control group, respectively. No significant difference in the allele frequencies of either site was observed between the two groups. However, the CC homozygotes or CT heterozygotes in the control pregnant women had higher systolic blood pressure levels than TT homozygotes for Pvu II site after the data was adjusted for age and BMI (114.00+/-21.44 mmHg or 114.33+/-1.21 mmHg vs. 108.62+/-1.91 mmHg, P<0.05). No genotype effect on the blood pressures was found for Pvu II site in the case group, nor for Xba I site in either group.</p><p><b>CONCLUSION</b>Our work has excluded the association of the ESRalpha Pvu II and Xb I polymorphism with severe preeclampsia in a Southwest Chinese population, although this polymorphism may be associated with the systolic blood pressure level in the normal pregnant women.</p>


Subject(s)
Adult , Female , Humans , Pregnancy , Asian People , Genetics , Case-Control Studies , China , Deoxyribonucleases, Type II Site-Specific , Metabolism , Estrogen Receptor alpha , Genetics , Gene Frequency , Genotype , Polymorphism, Genetic , Pre-Eclampsia , Genetics , Pathology
18.
J Environ Biol ; 2008 Nov; 29(6): 907-10
Article in English | IMSEAR | ID: sea-113246

ABSTRACT

The isolation of high quality DNA is essential for many molecular biology applications including polymerase chain reaction (PCR) and endonuclease restriction digestion based techniques. An easy and inexpensive protocol has been developed for extracting genomic DNA from seven species of algae viz. Lola capillaries, Enteromorpha intestinalis, Ulva lactuca and Rhizoclonium sp belonging to Chlorophyceae, Catenella nipae, Polysiphonia mollis belonging to Rhodophyceae and Dictyota ceylanica belonging to Phaeophyceae group were collected from the coastal regions of Sunderban delta in West Bengal, India dominantly growing on mud flats, bark of different mangrove trees, pneumatophores, stilt roots, concrete surfaces, wooden and bamboo poles, sides of the boats and other water vehicles inundated during high tides. The DNA was found suitable for restriction endonuclease digestion and PCR amplification with randomely amplified polymorphic DNA (RAPD) primers. The A260/A280 ratio of 1.15 0.14 to 1.94 indicated little contamination from proteins and polysaccharides. The PCR amplification with RAPD primers showed its suitability in PCR based techniques and the restriction digestion with Eco RV confirmed its suitability for hybridization based techniques. The protocol is equally good for isolating DNA from both fresh as well as preserved materials.


Subject(s)
Eukaryota/genetics , DNA, Algal/isolation & purification , Deoxyribonucleases, Type II Site-Specific , Genomics/methods , Polymerase Chain Reaction
19.
Arq. gastroenterol ; 45(3): 225-229, jul.-set. 2008. ilus, tab
Article in English | LILACS | ID: lil-494331

ABSTRACT

BACKGROUND and AIM: Helicobacter pylori has been proven to be responsible for causing various gastrointestinal disorders including gastric adenocarcinoma. Several genes of pathogen (the genes of the cag-PAI, vacA, iceA, and babA) either in combination or independently have been reported to significantly increase the risk of ulceration/gastric carcinoma, with the cagA gene having the strongest predictive value. Pursuit to identify new genes which could serve as a marker of overt disease progression, lead to the discovery of hrgA gene. METHODS: Fifty-six indigenous strains of H. pylori from subjects with various gastric disorder were screened to assess the status of hrgA gene along with the cagA gene using simple polymerase chain reaction using specific oligonucleotide primers. Post-amplification, amplicons were subjected for sequencing to identify any strain specific variations in sequences from the H. pylori isolated from different disease manifestations. Histopathological analysis was done to ascertain any significant change in the histological scores of subjects infected with cagA+/hrgA+ and cagA-/hrg+ strains. RESULTS: All the 56 (100 percent) subjects amplified with the oligonucleotide primers specific to hrgA gene, whereas 81.71 percent subjects showed the presence of cagA gene. Sequencing of the amplimers showed 99 percent homology. Histology of the cagA+/hrgA+ and cagA-/hrg+ subjects did not show any significant difference. CONCLUSION: hrgA gene of Helicobacter pylori is not a ideal surrogate marker for identifying individuals with higher risk of developing overt gastro-duodenal diseases such as neoplasia of the stomach.


RACIONAL e OBJETIVOS: O Helicobacter pylori tem sido incriminado como causador de vários distúrbios digestivos, incluindo o adenocarcinoma gástrico. Diversos genes patogênicos (os genes do cag-PAI, vacA, iceA e babA), em combinação ou independentes, têm sido reportados como fatores de aumento de risco para ulceração/carcinoma gástrico, tendo o gene cagA forte valor preditivo. A procura da identificação de novos genes que possam vir a ser marcadores da progressão da doença levaram à descoberta do gene hrgA. MÉTODOS: Cinqüenta e seis amostras de H. pylori provenientes de pacientes com diversas afecções gástricas foram examinadas para caracterizar a presença do hrgA juntamente ao cagA, usando iniciadores específicos da reação de cadeia da polimerase. Após amplificação, os produtos amplificados pela PCR foram seqüenciados para a identificação de variações específicas nas seqüências do H. pylori isolado de diferentes doenças gastroduodenais. A análise histopatológica foi feita para assegurar qualquer mudança significativa nos escores dos indivíduos infectados com cagA+hrgA+ e cagA-/hrgA+. RESULTADOS: Todas as 56 amostras (100 por cento) foram amplificadas com iniciadores específicos para o hrgA, enquanto que 81,71 por cento mostraram a presença do cagA. O seqüenciamento do produto amplificado pela PCR mostrou 99 por cento de homologia. A histologia entre os grupos cagA+/hrgA+ e cagA-/hrgA+ não mostrou nenhuma diferença significante. CONCLUSÃO: O gene hrgA do H. pylori não é o marcador ideal para identificar indivíduos com alto risco de desenvolvimento de doenças gastrointestinais como a neoplasia de estômago.


Subject(s)
Adult , Aged , Female , Humans , Male , Middle Aged , Young Adult , Antigens, Bacterial/genetics , Bacterial Proteins/genetics , Deoxyribonucleases, Type II Site-Specific/genetics , Gastrointestinal Diseases/microbiology , Helicobacter Infections/microbiology , Helicobacter pylori/genetics , Biomarkers/analysis , DNA, Bacterial/analysis , Dyspepsia/microbiology , Helicobacter Infections/genetics , Polymerase Chain Reaction , Predictive Value of Tests , Young Adult
20.
Braz. j. med. biol. res ; 40(7): 919-926, July 2007. tab, graf
Article in English | LILACS | ID: lil-455989

ABSTRACT

The aim of the present study was to determine if there is an association between the single nucleotide polymorphisms (SNPs) of the lipoprotein lipase (LPL) and apolipoprotein E (apo E) genes and the serum lipid profile in pregnancy and puerperium. Non-diabetic women of European descent in the third semester of pregnancy (N = 120) were selected. Those with diseases or other condition that could modify their lipid profile were excluded from the study (N = 32). Serum lipids were measured by routine laboratory procedures and genomic DNA was extracted by a salting out method. LPL (PvuII and HindIII) and apo E (HhaI) SNPs were detected by the polymerase chain reaction and restriction fragment length polymorphism. Categorical and continuous variables were compared by the chi-square test and Student t-test or ANOVA, respectively. Women carrying the LPL P1P1 genotype had higher serum LDL cholesterol (N = 21; 155 ± 45 mg/dL) than women carrying the P1P2/P2P2 genotypes (N = 67; 133 ± 45 mg/dL; P = 0.032). During the puerperium period, serum levels of triglycerides and VLDL cholesterol were significantly reduced in women carrying the P1P1 (73 percent, P = 0.006) and P1P2 (51 percent, P = 0.002) genotypes but not in women carrying the P2P2 genotype (23 percent, P > 0.05). On the other hand, serum concentrations of lipids did not differ between the LPL HindIII and apo E genotypes during pregnancy and after delivery. We conclude that LPL PvuII SNP is associated with variations in serum lipids during pregnancy and the puerperal period in non-diabetic women.


Subject(s)
Adolescent , Adult , Female , Humans , Apolipoproteins E/genetics , Deoxyribonucleases, Type II Site-Specific/genetics , Lipids/blood , Lipoprotein Lipase/genetics , Postpartum Period/blood , Pregnancy/blood , Analysis of Variance , DNA , White People , Gene Frequency , Genotype , Lipids/genetics , Polymerase Chain Reaction , Polymorphism, Restriction Fragment Length , Polymorphism, Single Nucleotide/genetics , Reference Values
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