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1.
Neuro Oncol ; 23(4): 599-610, 2021 04 12.
Article in English | MEDLINE | ID: mdl-33249487

ABSTRACT

BACKGROUND: Glioblastomas (GBMs) are the main primary brain tumors in adults with almost 100% recurrence rate. Patients with lateral ventricle proximal GBMs (LV-GBMs) exhibit worse survival compared to distal locations for unknown reasons. One hypothesis is the proximity of these tumors to the cerebrospinal fluid (CSF) and its chemical cues that can regulate cellular phenotype. We therefore investigated the role of CSF on GBM gene expression and the role of a CSF-induced gene, SERPINA3, in GBM malignancy in vitro and in vivo. METHODS: We utilized human CSF and GBM brain tumor-initiating cells (BTICs). We determined the impact of SERPINA3 expression in glioma patients using The Cancer Genome Atlas (TCGA) database. SERPINA3 expression changes were evaluated at mRNA and protein levels. The effects of knockdown (KD) and overexpression (OE) of SERPINA3 on cell migration, viability and cell proliferation were evaluated. Stem cell characteristics on KD cells were evaluated by differentiation and colony formation experiments. Tumor growth was studied by intracranial and flank injections. RESULTS: GBM-CSF increased BTIC migration accompanied by upregulation of the SERPINA3 gene. In patient samples and TCGA data, we observed SERPINA3 to correlate directly with brain tumor grade and indirectly with GBM patient survival. SERPINA3 KD induced a decrease in cell proliferation, migration, invasion, and stem cell characteristics, while SERPINA3 OE increased cell migration. In vivo, SERPINA3 KD BTICs showed increased survival in a murine model. CONCLUSIONS: SERPINA3 plays a key role in GBM malignancy and its inhibition results in a better outcome using GBM preclinical models.


Subject(s)
Brain Neoplasms , Glioblastoma , Neoplastic Stem Cells , alpha 1-Antichymotrypsin , Adult , Animals , Brain Neoplasms/genetics , Cell Line, Tumor , Cell Proliferation , Gene Expression Regulation, Neoplastic , Glioblastoma/genetics , Humans , Mice , Serpins
2.
Genet Mol Res ; 15(4)2016 Dec 19.
Article in English | MEDLINE | ID: mdl-28002584

ABSTRACT

Endometriosis is a common, complicated, and highly heterogeneous endocrine disease. Many genetic factors could affect the development of endometriosis. We performed a case-control study to evaluate the association between polymorphisms in CYP19A1 rs2899470, GSTM1, GSTT1, and GSTP1 rs1695 and the development of endometriosis in a Chinese population. Between March 2014 and October 2015, 262 endometriosis patients and 275 control subjects were recruited from the Inner Mongolia Medical University. Genotyping was conducted using polymerase chain reaction-coupled with restriction fragment length polymorphism. Individuals carrying the TT genotype of CYP19A1 rs2899470 expressed a higher risk of endometriosis than those carrying the GG genotype, and the adjusted ORs (95%CI) was 2.33 (1.27-4.33). Moreover, those with the TG + TT genotype were correlated with an elevated risk of endometriosis, compared to those with the GG genotype (OR = 1.48, 95%CI = 1.03-2.13). However, GSTM1, GSTT1, and GSTP1 rs1695 polymorphisms did not affect the pathogenesis of endometriosis. In conclusion, our results suggested that CYP19A1 rs2899470 polymorphism is associated with risk for endometriosis in the Chinese population.


Subject(s)
Aromatase/genetics , Asian People/genetics , Endometriosis/genetics , Glutathione S-Transferase pi/genetics , Glutathione Transferase/genetics , Adult , Case-Control Studies , Female , Genetic Predisposition to Disease , Genotype , Humans , Polymorphism, Single Nucleotide , Young Adult
3.
Genet Mol Res ; 15(3)2016 Sep 02.
Article in English | MEDLINE | ID: mdl-27706692

ABSTRACT

We investigated the diversity of ectomycorrhiza associated with the endemic Picea crassifolia in Mount Helan National Nature Reserve in Inner Mongolia, China. Toward this objective, we conducted morphological and molecular identification of ectomycorrhizae in soil cubes taken from pure P. crassifolia stands. Eleven types of ectomycorrhizal (ECM) organisms were separated, briefly described, and identified. Nine morphotypes belonged to the phylum Basidiomycotina [Amphinema byssoides, Cortinarius sp (cf. limonius), Cortinarius vernus, Inocybe cf. nitidiscula, Inocybe sp 1, Sebacina incrustans, Sebacina sp, Suillus luteus, and Piceirhiza tuberculata x Picea crassifolia (comb. Nov.)], and two morphotypes to the phylum Ascomycotina (Cenococcum geophilum and Helvella sp). The diversity of ECM organisms in P. crassifolia was lower than that reported by other studies on spruce or pine forests, or on sporocarp diversity in the high-mountain forests of China. Most of the fungi in the rhizosphere did not correspond to species previously recorded as sporocarps above ground. Here, several new ectomycorrhiza morphotypes are proposed and described. We also confirmed the ectomycorrhizal status of the genus Sebacina (order Sebacinales).


Subject(s)
DNA, Fungal/genetics , Mycorrhizae/genetics , Phylogeny , Pinaceae/microbiology , Soil Microbiology , Altitude , Biodiversity , China , Conservation of Natural Resources , DNA, Ribosomal Spacer , Ecosystem , Forests , Mycorrhizae/classification , Symbiosis/physiology
4.
Genet Mol Res ; 15(2)2016 May 13.
Article in English | MEDLINE | ID: mdl-27323014

ABSTRACT

The aim of this study was to investigate the effect of ozone on inflammatory cytokines in diabetic retinopathy (DR) rats. Male rats (40) weighing 300-360 g were included in this study. Thirty rats were randomly divided into the model and ozone groups after DR was induced by streptozotocin. Ten rats served as the blank group. After the diabetic models were established for one month, the rats in the ozone group were treated with 50 mg/kg ozone coloclysis for one month (three times a week). After the rats were anesthetized by intraperitoneal injection, blood samples from the abdominal aorta were collected, and the supernatant was obtained by centrifugation. Vascular endothelial growth factor (VEGF) and inflammatory cytokine content in the serum was detected by enzyme linked immunosorbent assay. The values of VEGF, intercellular cell adhesion molecule-1, interleukin-1 beta, tumor necrosis factor-a, and IL-6 were significantly different among the three groups (P < 0.05). The cytokine levels in the model group were higher than those in the blank group (P < 0.05). The level of each cytokine in the ozone group was higher than that in the blank group. Compared with the model group, the cytokine levels in the ozone group were significantly reduced (P < 0.05). Ozone had no effect on the blood glucose of diabetic rats. Treatment with ozone coloclysis may effectively reduce the secretion of VEGF and inflammatory cytokines in diabetic retinopathy rats.


Subject(s)
Diabetes Mellitus, Experimental/drug therapy , Diabetic Retinopathy/drug therapy , Diabetic Retinopathy/metabolism , Ozone/pharmacology , Vascular Endothelial Growth Factor A/blood , Animals , Blood Glucose/metabolism , Cytokines/blood , Diabetes Mellitus, Experimental/blood , Diabetes Mellitus, Experimental/pathology , Diabetic Retinopathy/blood , Diabetic Retinopathy/pathology , Inflammation/metabolism , Inflammation/pathology , Male , Random Allocation , Rats , Rats, Sprague-Dawley , Vascular Endothelial Growth Factor A/genetics
5.
Genet Mol Res ; 15(2)2016 Jun 10.
Article in English | MEDLINE | ID: mdl-27323153

ABSTRACT

Numerous studies have investigated the relationship between the interleukin-1ß gene (IL1B) -511C/T polymorphism and ischemic stroke (IS) risk. However, the results are inconsistent. We performed this meta-analysis of all available case-control studies that evaluated the relationship between the IL1B -511C/T polymorphism and IS. Studies were retrieved from the PubMed and Embase databases. Statistical analyses were conducted using the STATA 11.0 software. Odds ratios (ORs) with 95% confidence intervals (95%CIs) were applied to determine the strength of association. Nine studies comprising a total of 2072 patients and 2173 controls were included. No significant variation in IS risk was detected in any of the genetic models (CC vs TT: OR = 0.78, 95%CI = 0.48-1.27; CT vs TT: OR = 0.83, 95%CI = 0.62-1.10; dominant model: OR = 0.79, 95%CI = 0.55-1.15; recessive model: OR = 0.90, 95%CI = 0.66-1.24). Taking into account the effects of race, further subgroup analyses were performed and our results showed no association between the IL1B gene -511C/T polymorphism and IS in either Asians or Caucasians. No publication bias was found in our study. In conclusion, the IL1B gene -511C/T polymorphism might not be associated with IS risk.


Subject(s)
Brain Ischemia/genetics , Genetic Association Studies , Genetic Predisposition to Disease , Interleukin-1beta/genetics , Stroke/genetics , Asian People , Brain Ischemia/pathology , Female , Humans , Male , Polymorphism, Single Nucleotide , Risk Factors , Stroke/pathology
6.
Genet Mol Res ; 14(4): 16222-32, 2015 Dec 08.
Article in English | MEDLINE | ID: mdl-26662415

ABSTRACT

We aimed to evaluate dendritic cell (DC) tumor vaccines for preventing liver cancer recurrence and metastasis. DCs were induced from mononuclear cells in the peripheral blood with recombinant human granulocyte macrophage colony stimulating factor (rhGM-CSF) and recombinant human interleukin 4 (rhIL-4), followed by sensitization with lysis of autologous liver cancer cells. One hundred and sixty patients with hepatocellular carcinoma were randomly divided into two groups of 80. One group was treated postoperatively with six cycles of the DC tumor vaccine. The other group was treated postoperatively with six cycles of FOLFOX 6, beginning 1 week after surgery. After treatment with DC tumor vaccines, the levels of CD3+, CD4+, and CD8+, the ratio of CD4+ to CD8+ DC, and the serum levels of IL-12 and IFN-γ were significantly increased both in comparison to the pre-treatment levels (P < 0.001) and to the chemotherapy group (P < 0.001). After a postoperative follow-up of 18 months, the metastatic recurrence rate in the DC tumor vaccine group was significantly lower than that in the chemotherapy group (17.50 vs 48.75%, P < 0.005), and the survival rate of the patients in the DC tumor vaccine group was higher than that of the chemotherapy treatment group (86.25 vs 52.50%, P < 0.005). Treatment with DC tumor vaccines was safe and feasible. It can enhance the immunity of the patients, reduce the rates of metastasis and recurrence, and improve survival rates. This is a promising treatment for the prevention of postoperative recurrence in patients with liver cancer.


Subject(s)
Cancer Vaccines/immunology , Carcinoma, Hepatocellular/immunology , Carcinoma, Hepatocellular/therapy , Dendritic Cells/immunology , Liver Neoplasms/immunology , Liver Neoplasms/therapy , Antigens, Surface/metabolism , Biomarkers , Cancer Vaccines/adverse effects , Carcinoma, Hepatocellular/diagnosis , Carcinoma, Hepatocellular/surgery , Combined Modality Therapy , Cytokines/blood , Dendritic Cells/metabolism , Female , Follow-Up Studies , Humans , Immunophenotyping , Liver Neoplasms/diagnosis , Liver Neoplasms/surgery , Male , Middle Aged , Neoplasm Metastasis , Neoplasm Recurrence, Local , T-Lymphocyte Subsets/immunology , T-Lymphocyte Subsets/metabolism , Treatment Outcome
7.
Genet Mol Res ; 14(3): 8359-65, 2015 Jul 28.
Article in English | MEDLINE | ID: mdl-26345762

ABSTRACT

The coconut leaf beetle, Brontispa longissima, is a destructive pest of palm plants. Although its ecological and biological characteristics are well understood, its genetic information remains largely unknown. To advance our understanding of its molecular ba-sis of biology and ecology, we sequenced and analyzed its whole transcriptome by using high-throughput Illumina paired-end sequencing technology. Approximately 8.08 Gb of clean reads were generated in a single run, which were assembled by using Trinity into 41,652 unigenes with an average length of 932 bp. By sequence similarity searches for known proteins, 23,077 (55.4%) unigenes were annotated by BLASTx searches against the NCBI non-redundant protein database. Of the unigenes assembled, 18,153 and 13,733 were assigned to Gene Ontology and Clusters of Orthologous Groups of proteins, respectively. In addition, 10,415 unigenes were mapped onto 247 pathways using the Kyoto Encyclopedia of Genes and Genomes Pathway database. These transcriptomic resources will facilitate gene identification and elucidate the molecular mechanisms of biological and ecological aspects under-lying this palm pest, in order to design a new control strategy.


Subject(s)
Coleoptera/genetics , High-Throughput Nucleotide Sequencing , Transcriptome/genetics , Animals , Coleoptera/pathogenicity , Gene Expression Profiling , Gene Expression Regulation , Microsatellite Repeats/genetics , Molecular Sequence Annotation , Pest Control, Biological , Phoeniceae/parasitology , Plant Leaves/parasitology
8.
Genet Mol Res ; 14(3): 9804-12, 2015 Aug 19.
Article in English | MEDLINE | ID: mdl-26345913

ABSTRACT

This study investigated the effects of CpG ODN1826 plus radiotherapy (RT) on tumor growth and angiogenesis of subcutaneous tumor in a rat model. Four treatment groups were tested in which rats were injected with 100 µL CpG ODN1826 (1 µg/µL) or 100 µL vehicle, with and without exposure to 8 Gy after 2 h. At 7 days after inoculation of lung cancer cells, drugs were injected in the tumor and radiation was administered over 5 days, after which the rate of tumor inhibition was calculated. Expression of VEGF-C in tumor tissue was seen in 10, 50, 80, and 100% of tumors in the CpG ODN1826 + RT, CpG ODN1826, vehicle + RT, and vehicle alone groups, respectively, while positive expression of NRP-1 was seen in 10, 40, 90, and 100% of tumors. The decreases in expression of VEGF-C mRNA in the CpG ODN1826 + RT and CpG ODN1826 groups compared with the NS + RT and NS groups were significant (P < 0.01), as were the decreases in NRP-1 mRNA in the CpG ODN1826 + RT group compared with the CpG ODN1826 group (P < 0.01). Thus, CpG ODN1826 can significantly inhibit tumor growth in a rat model, the mechanism of which may be related to inhibition of the expression of VEGF-C and NRP-1, which have an inhibitory effect on angiogenesis.


Subject(s)
Oligodeoxyribonucleotides/pharmacology , Radiation Tolerance/drug effects , Animals , Cell Line, Tumor , Disease Models, Animal , Gene Expression , Humans , Lung Neoplasms/genetics , Lung Neoplasms/pathology , Lung Neoplasms/therapy , Neuropilin-1/genetics , Oligodeoxyribonucleotides/administration & dosage , RNA, Messenger/genetics , Rats , Tumor Burden/drug effects , Tumor Burden/radiation effects , Vascular Endothelial Growth Factor C/genetics , Xenograft Model Antitumor Assays
9.
Genet Mol Res ; 14(3): 7469-80, 2015 Jul 06.
Article in English | MEDLINE | ID: mdl-26214426

ABSTRACT

Olfaction is crucial for insects' survival because it enables them to recognize various environmental information. It is primarily mediated by a large family of chemoreceptors, including olfactory receptors (ORs), gustatory receptors (GRs), and ionotropic receptors (IRs). Here, we assembled the transcriptome of the economically important pest of palms, Rhynchophorus ferrugineus, to reveal its chemoreceptor gene repertoire. About 8.08 Gbp data were generated using a HiSeq platform and their assembly led to a total of 24,439 unigenes. Among the transcripts, 12,523 (51.24%) showed significant similarity (E-value <10(-5)) to known proteins in the National Center for Biotechnology Information Nr database. From these sequences, 18 candidate genes of ORs were identified. Nine putative transcripts were homologous to GR genes, while 9 were similar to IR genes. The expression profiles of all identified chemoreceptor genes were determined by quantitative real-time PCR in antenna, head, thorax, abdomen, and legs of both sexes. Most chemoreceptor genes were antenna-enriched. This study demonstrated a successful application of a transcriptome for discovering a large number of divergent chemoreceptor genes of a non-model organism. The findings provide a valuable sequence resource and gene tissue distribution information for systematic functional analysis of molecular mechanisms underlying chemoreception in this pest.


Subject(s)
Gene Expression Profiling , Genes, Insect , Receptors, Odorant/genetics , Transcriptome/genetics , Weevils/genetics , Animals , Female , Gene Ontology , Male , Molecular Sequence Annotation , Organ Specificity/genetics , Receptors, Odorant/metabolism , Sequence Analysis, DNA
10.
Genet Mol Res ; 14(2): 3633-9, 2015 Apr 17.
Article in English | MEDLINE | ID: mdl-25966132

ABSTRACT

Herein, we investigated the clinical value of concurrent radiochemotherapy for patients with advanced cervical cancer and its effects on adverse clinical symptoms. Forty patients with cervical cancer were recruited from January 2011 to January 2014 for this study. Participants were randomly allocated into a test or control group, with 20 patients in each group. Patients in the test group were treated with concurrent radiochemotherapy, whereas patients in the control group received only traditional radiotherapy. At the end of the observation period, clinical efficacy in the two groups was compared. Patients were followed up for 2 years, and the rates of recurrence, survival, and complications were compared; ultrasonographic findings before and after radiotherapy were also correlated. Patients in the test group who received concurrent radiochemotherapy showed significantly higher clinical efficacy than the control group at the end of treatment cycles. After 2 years of follow-up, the rates of recurrence, mortality, and complications were all significantly lower in the test group than in the control group (P < 0.05). Comparison of ultrasonographic findings before and after radiochemotherapy showed that the size of the tumor was significantly smaller in patients after concurrent radiochemotherapy. Compared with traditional radiotherapy, concurrent radiochemotherapy significantly improved clinical outcomes in patients with advanced cervical cancer. Concurrent radiochemotherapy also enhanced the rate of survival and decreased the rate of relapse, with enhanced clinical safety and no significant side effects. Thus, concurrent radiochemotherapy can be more broadly applied in the treatment of advanced cervical cancer.


Subject(s)
Chemoradiotherapy/methods , Uterine Cervical Neoplasms/diagnostic imaging , Uterine Cervical Neoplasms/therapy , Adult , Cervix Uteri/drug effects , Cervix Uteri/radiation effects , Cervix Uteri/ultrastructure , Chemoradiotherapy/adverse effects , Cystitis/etiology , Disease-Free Survival , Female , Follow-Up Studies , Humans , Middle Aged , Neoplasm Recurrence, Local , Radiotherapy/adverse effects , Radiotherapy/methods , Treatment Outcome , Ultrasonography , Uterine Cervical Neoplasms/radiotherapy
11.
Rev. bras. pesqui. méd. biol ; Braz. j. med. biol. res;48(1): 91-95, 01/2015. tab, graf
Article in English | LILACS | ID: lil-730435

ABSTRACT

Our goal was to analyze the anatomical parameters of the lumbar spine spinous process for an interspinous stabilization device designed for the Chinese population and to offer an anatomical basis for its clinical application. The posterior lumbar spines (T12-S1) of 52 adult cadavers were used for measuring the following: distance between two adjacent spinous processes (DB), distance across two adjacent spinous processes (DA), thickness of the central spinous processes (TC), thickness of the superior margin of the spinous processes (TS), thickness of the inferior margin of the spinous processes (TI), and height of the spinous processes (H). Variance and correlation analyses were conducted for these data, and the data met the normal distribution and homogeneity of variance. DB decreased gradually from L1-2 to L5-S1. DA increased from T12-L1 to L2-3 and then decreased from L2-3 to L4-5. The largest H in males was noted at L3 (25.45±5.96 mm), whereas for females the largest H was noted at L4 (18.71±4.50 mm). Usually, TS of the adjacent spinous process was lower than TI. Based on the anatomical parameters of the lumbar spinous processes obtained in this study, an “H”-shaped coronal plane (posterior view) was proposed as an interspinous stabilization device for the Chinese population. This study reports morphometric data of the lumbar spinous processes in the Chinese population, which provides an anatomical basis for future clinical applications.

12.
Braz J Med Biol Res ; 48(1): 91-95, 2015 Jan.
Article in English | MEDLINE | ID: mdl-25493388

ABSTRACT

Our goal was to analyze the anatomical parameters of the lumbar spine spinous process for an interspinous stabilization device designed for the Chinese population and to offer an anatomical basis for its clinical application. The posterior lumbar spines (T12-S1) of 52 adult cadavers were used for measuring the following: distance between two adjacent spinous processes (DB), distance across two adjacent spinous processes (DA), thickness of the central spinous processes (TC), thickness of the superior margin of the spinous processes (TS), thickness of the inferior margin of the spinous processes (TI), and height of the spinous processes (H). Variance and correlation analyses were conducted for these data, and the data met the normal distribution and homogeneity of variance. DB decreased gradually from L1-2 to L5-S1. DA increased from T12-L1 to L2-3 and then decreased from L2-3 to L4-5. The largest H in males was noted at L3 (25.45±5.96 mm), whereas for females the largest H was noted at L4 (18.71±4.50 mm). Usually, TS of the adjacent spinous process was lower than TI. Based on the anatomical parameters of the lumbar spinous processes obtained in this study, an "H"-shaped coronal plane (posterior view) was proposed as an interspinous stabilization device for the Chinese population. This study reports morphometric data of the lumbar spinous processes in the Chinese population, which provides an anatomical basis for future clinical applications.

13.
Genet Mol Res ; 13(1): 336-43, 2014 Jan 21.
Article in English | MEDLINE | ID: mdl-24535860

ABSTRACT

Hand, foot, and mouth disease (HFMD) is a systemic illness in children and is usually caused by enterovirus 71 (EV71). To provide new insights into the genetic features of EV71 and the relationship between the overall codon usage pattern of this virus and that of humans, values for relative synonymous codon usage (RSCU), effective number of codons (ENC), codon adaptation index (CAI), and nucleotide composition were calculated and analyzed. The relationship between ENC values and (G+C)3% suggests that, although nucleotide composition plays an important role in shaping the overall codon usage pattern of this virus, other factors also affect this pattern. In addition, the negative correlation between the CAI value and (G+C)3% suggests that the secondary structure of the EV71 coding sequence caused by its nucleotide composition can affect gene expression. Moreover, there was no significant correlation between ENC and CAI, suggesting that gene expression does not play a role in shaping the overall codon usage pattern of EV71. The overall codon usage pattern of the EV71 virus is only partly similar to the general codon pattern of human, suggesting that, although EV71 has co-evolved with humans for extended periods, mutation pressure played an important role in shaping the virus's overall codon usage pattern. These results revealed that the EV71 virus has developed a subtle strategy during evolution for adapting to environmental changes in its host cells solely by means of mutation pressure.


Subject(s)
Codon/genetics , DNA, Viral/genetics , Enterovirus A, Human/genetics , Base Composition , DNA, Viral/chemistry , Enterovirus A, Human/chemistry , Evolution, Molecular , Mutation , Nucleic Acid Conformation
14.
Genet Mol Res ; 13(1): 1491-6, 2014 Mar 06.
Article in English | MEDLINE | ID: mdl-24446343

ABSTRACT

Previous studies focusing on the association of PTGS2 polymorphism -765G>C with coronary artery disease (CAD) have failed to reach the same conclusion. In the present study, we performed a meta-analysis to systematically summarize the possible association between PTGS2 polymorphism -765G>C and the risk of CAD. We conducted a search of case-control studies on the associations of PTGS2 with susceptibility to CAD in PubMed, EMBASE, and Chinese National Knowledge Infrastructure databases. Data from eligible studies were extracted for meta-analysis. CAD risk associated with PTGS2 -765G>C was estimated by pooled odds ratios (ORs) and 95% confidence intervals (95%CI) with the RevMan 5.2 software. Eleven independent case-control studies on PTGS2 -765G>C were included in our meta-analysis. Our results showed that PTGS2 -765G>C was associated with a decreased risk of CAD (OR = 0.66, 95%CI = 0.56-0.79; P < 0.001). This meta-analysis suggests that PTGS2 -765G>C is associated with a decreased risk of CAD.


Subject(s)
Coronary Artery Disease/genetics , Cyclooxygenase 2/genetics , Genetic Predisposition to Disease , Polymorphism, Genetic , Alleles , Case-Control Studies , Genetic Association Studies , Genotype , Humans , Odds Ratio , Publication Bias
15.
Genet Mol Res ; 12(4): 4162-70, 2013 Oct 07.
Article in English | MEDLINE | ID: mdl-24114211

ABSTRACT

Exposure of humans to low levels of environmental oxygen results in alveolar hypoxia and normally causes chronic pulmonary hypertension and morphological alterations of precapillary pulmonary vessels. In this study, the microarray dataset GSE11341 was used to identify potential differentially expressed genes related with human lung microvascular endothelial cell hypoxia. In addition, gene ontology term enrichment analysis was performed to explore their underlying functions. In addition, we also investigated the small molecules by comparing with the Connectivity Map. We found that hypoxia samples of 3, 24, and 48 h relative to 0 h displayed 22, 21, and 29 differentially expressed genes, respectively. Among them, six genes (ADM, HMOX1, VEGFA, EGLN3, APOLD1, and ANGPTL4) were closely related to pulmonary microvascular endothelial cell hypoxia response. Three drugs (pindolol, sulfapyridine, and ciclopirox) were selected as candidates to treat hypoxia-related pulmonary diseases. In conclusion, our results provide some underlying drug targets for treatment of hypoxic pulmonary patients.


Subject(s)
Endothelial Cells/metabolism , Lung Diseases/metabolism , Transcriptome , Cell Hypoxia , Cells, Cultured , Endothelium, Vascular/pathology , Gene Expression Profiling , Gene Ontology , Humans , Lung/blood supply , Microvessels/pathology , Oligonucleotide Array Sequence Analysis
16.
Genet Mol Res ; 12(4): 6454-61, 2013 Dec 10.
Article in English | MEDLINE | ID: mdl-24390994

ABSTRACT

As part of a series of pharmacogenomics studies of the Chinese population, we investigated genetic polymorphisms of some UGT1A regions. The three genes that were analyzed were UGT1A9, 1A7, and 1A1; we sequenced their exons, together with promoters, surrounding introns and 3'-untranslated regions (3'UTR) in 100 unrelated-healthy Chinese Tibetan individuals. We compared the data with information on Han Chinese of the same region, which we downloaded from the HapMap database. We identified 40 polymorphisms; 16 of them were shared by the two populations. We then analyzed their linkage disequilibrium map. The UGT1As cluster can be divided into two linkage blocks in the Tibetan population: Block 1 (UGT1A9, UGT1A7), Block 2 (3'-UTR). Furthermore, we identified haplotypes and selected their tagSNPs. In exon 1 of UGT1A7 gene, 393G>A (Arg131Gln, rs17868324) was found at a frequency of 44.4% in the Tibetan population, compared to only 0.7% in the Han population. The linkage blocks in the Han Chinese sample differed from that of the Chinese Tibetan group; the former had Block 1 (UGT1A9, UGT1A7), Block 2 (UGT1A7), and Block 3 (3'-UTR). These findings provide fundamental information for future molecular genetic studies of the UGT1A gene cluster as well as for personalized medicine in Chinese.


Subject(s)
Ethnicity/genetics , Glucuronosyltransferase/genetics , 3' Untranslated Regions/genetics , Adolescent , Adult , Alleles , Base Sequence , China , Female , Gene Frequency , Haplotypes , Humans , Linkage Disequilibrium/genetics , Male , Polymorphism, Single Nucleotide , Promoter Regions, Genetic/genetics , Sequence Analysis, DNA , Tibet , UDP-Glucuronosyltransferase 1A9 , Young Adult
17.
Virol J ; 8: 291, 2011 Jun 10.
Article in English | MEDLINE | ID: mdl-21658280

ABSTRACT

BACKGROUND: Porcine circovirus type 2 (PCV2), the causative agent of postweaning multisystemic wasting syndrome (PMWS), is a serious economic problem in the swine industry. Different genotypes (PCV2a, PCV2b and PCV2d) of the virus are present in the clinical cases in China, and it is necessary to elucidate the pathogenic difference among different genotypes of PCV2. In this study, four strains of different genotypes were isolated, two were ordinary strains and another two were mutation strains, which there are one and two amino acids elongation in the capsid protein (Cap) of PCV2, respectively. Representative strains of different genotypes of the virus were constructed by infectious molecular clone and biological characterization of the rescued viruses were identified in vitro. RESULTS: Four PCV2 isolates (PCV2a/CL, PCV2b/YJ, PCV2b/JF and PCV2d/BDH) of different genotypes were isolated from the clinical cases of PMWS in China. Four infectious clones of PCV2 were constructed and the rescued viruses were harvested after transfection into PK15 cells. The rescued viruses were verified by nucleotide sequence analysis, morphology of the viruses and immunoperoxidase monolayer assay (IPMA). The rescued viruses propagated stably after consecutive incubation for more than ten passages, and virus propagation reached its peak 72h post infection (PI), and the virus titers were up to 105·7 TCID50/ml. By using neutralizing 1D2 monoclonal antibody (mAb) of PCV2, the antigen capture ELISA showed that only the PCV2a/rCL and PCV2b/rJF strains has immunoreactivity with the 1D2 mAb, however, another two rescued strains (PCV2b/rYJ and PCV2d/rBDH) do not, which indicated the antigenic difference among the rescued viruses of different genotypes. In addition, here is the first report of obtaining the newly emerging PCV2 with mutation in vitro by infectious molecular clone technology. CONCLUSIONS: Conclusions drawn from this study show that PCV2 has prevailing differences in genomic and ORF2 gene length and antigen in swine herds in China. Four representative clones for different genotypes were constructed and rescued, which will facilitate further studies on the pathogenic differences resulting from different subtypes of PCV2.


Subject(s)
Circovirus/genetics , Circovirus/pathogenicity , DNA, Viral/genetics , Genetic Engineering/methods , Recombination, Genetic , Virology/methods , Animals , Capsid Proteins/genetics , Cell Line , China , Circovirus/isolation & purification , Genotype , Mutagenesis, Insertional , Swine
18.
Genet Mol Res ; 10(1): 150-9, 2011 Feb 01.
Article in English | MEDLINE | ID: mdl-21308656

ABSTRACT

Polymerase chain reaction (PCR) technology plays an important role in molecular biology research, but false-positive and nonspecific PCR amplification have plagued many researchers. Currently, research on the optimization of the PCR system focuses on double-primer-based PCR products. This research has shown that PCR amplification based on single-primer binding to the DNA template is an important contributing factor to obtaining false-positive results, fragment impurity, and nonspecific fragment amplification, when the PCR conditions are highly restricted during PCR-based target gene cloning, detection of transgenic plants, simple-sequence repeat marker-assisted selection, and mRNA differential display. Here, we compared single- and double-primer amplification and proposed "single-primer PCR correction"; improvements in PCR that eliminate interference caused by single-primer-based nonspecific PCR amplification were demonstrated and the precision and success rates of experiments were increased. Although for some kinds of experiments, the improvement effect of single-primer PCR correction was variable, the precision and success rate could be elevated at 12-50% in our experiment by this way.


Subject(s)
DNA Primers/genetics , Polymerase Chain Reaction/methods , Blotting, Southern , Oryza/genetics , Promoter Regions, Genetic/genetics
19.
J Med Chem ; 43(9): 1826-40, 2000 May 04.
Article in English | MEDLINE | ID: mdl-10794699

ABSTRACT

As a part of our project directed at the search of new chemotherapeutic agents against American trypanosomiasis (Chagas' disease), several drugs possessing the 4-phenoxyphenoxy skeleton and other closely related structures employing the thiocyanate moiety as polar end group were designed, synthesized, and evaluated as antiproliferative agents against Trypanosoma cruzi, the parasite responsible for this disease. These thiocyanate analogues were envisioned bearing in mind the potent activity shown by 4-phenoxyphenoxyethyl thiocyanate (compound 8) taken as lead drug. This compound had previously proved to be an extremely active growth inhibitor against T. cruzi with IC(50) values ranging from the very low micromolar level in epimastigotes to the low nanomolar level in the intracellular form of the parasite. Of the designed compounds, the ethyl thiocyanate drugs connected to nonpolar skeletons, namely, arylthio, 2,4-dichlorophenoxy, ortho-substituted aryloxy, and 2-methyl-4-phenoxyphenoxy (compounds 15, 34, 47, 52, 72, respectively), were shown to be very potent antireplicative agents against T. cruzi. On the other hand, conformationally restricted analogues as well as branched derivatives at the aliphatic side chain were shown to be moderately active against T. cruzi growth. The biological activity of drugs bearing the thiocyanate group correlated quite well with the activity exhibited by their normal precursors, the tetrahydropyranyl ether derivatives, when bonded to the same nonpolar skeleton. Compounds having the tetrahydropyranyl moeity as polar end were proportionally much less active than sulfur-containing derivatives in all cases. Drugs 47 and 72 also resulted to be very active against the amastigote form of the parasite growing in myoblasts; however, they were slightly less active than the lead drug 8. On the other hand, compounds 34 and 52 were almost devoid of activity against myoblasts. Surprisingly, the dithio derivative 15 was toxic for myoblasts.


Subject(s)
Thiocyanates/chemical synthesis , Trypanocidal Agents/chemical synthesis , Trypanosoma cruzi/drug effects , Animals , Cell Division/drug effects , Drug Design , Indicators and Reagents , Magnetic Resonance Spectroscopy , Mass Spectrometry , Spectrophotometry, Ultraviolet , Structure-Activity Relationship , Thiocyanates/pharmacology , Trypanocidal Agents/pharmacology , Trypanosoma cruzi/growth & development
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