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high resolution melt

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https://www.readbyqxmd.com/read/28346485/identification-and-discrimination-of-toxoplasma-gondii-sarcocystis-spp-neospora-spp-and-cryptosporidium-spp-by-righ-resolution-melting-analysis
#1
Hllytchaikra Ferraz Fehlberg, Bianca Mendes Maciel, George Rêgo Albuquerque
The objective of this study was to standardize the high-resolution melting method for identification and discrimination of Toxoplasma gondii, Sarcocystis spp., Neospora spp., and Cryptosporidium spp. by amplification of 18S ribosomal DNA (rDNA) using a single primer pair. The analyses were performed on individual reactions (containing DNA from a single species of a protozoan), on duplex reactions (containing DNA from two species of protozoa in each reaction), and on a multiplex reaction (containing DNA of four parasites in a single reaction)...
2017: PloS One
https://www.readbyqxmd.com/read/28345837/association-of-the-asp1312gly-thyroglobulin-gene-polymorphism-with-susceptibility-to-differentiated-thyroid-cancer-in-an-iranian-population
#2
Maryam Abidi, Shima Fayaz, Pezhman Fard Esfahani
Background and aim: While the causes of thyroid cancer in most patients remain largely unknown, it has recently been reported that there may be links to particular chromosome regions. In particular, polymorphisms (SNPs) in the thyroglobulin (TG) gene could be susceptibility factors. Methods: In this case-control study, any association of the Asp1312Gly single nucleotide polymorphism (SNP) in the TG gene (rs2069556) with susceptibility to differentiated thyroid cancer (DTC) was investigated among 103 Iranian patients and 100 controls who had no history of any type of cancer...
February 1, 2017: Asian Pacific Journal of Cancer Prevention: APJCP
https://www.readbyqxmd.com/read/28331418/optimization-of-pcr-condition-the-first-study-of-high-resolution-melting-technique-for-screening-of-apoa1-variance
#3
Hesty Wahyuningsih, Ferdy K Cayami, Udin Bahrudin, Mochamad A Sobirin, Farmaditya Ep Mundhofir, Sultana Mh Faradz, Ichiro Hisatome
BACKGROUND: High resolution melting (HRM) is a post-PCR technique for variant screening and genotyping based on the different melting points of DNA fragments. The advantages of this technique are that it is fast, simple, and efficient and has a high output, particularly for screening of a large number of samples. APOA1 encodes apolipoprotein A1 (apoA1) which is a major component of high density lipoprotein cholesterol (HDL-C). This study aimed to obtain an optimal quantitative polymerase chain reaction (qPCR)-HRM condition for screening of APOA1 variance...
March 2017: Yonago Acta Medica
https://www.readbyqxmd.com/read/28330890/direct-detection-of-rifampicin-and-isoniazid-resistance-in-sputum-samples-from-tuberculosis-patients-by-high-resolution-melt-curve-analysis
#4
Divya Anthwal, Rakesh Kumar Gupta, Manpreet Bhalla, Shinjini Bhatnagar, Jaya Sivaswami Tyagi, Sagarika Haldar
Drug-resistant tuberculosis (TB) is a major threat for TB control worldwide. Globally, only 40% of the 340,000 notified TB patients estimated to have multidrug resistant-TB (MDR-TB) were detected in 2015. This study was carried out to evaluate the utility of High Resolution Melt curve analysis (HRM) for the rapid and direct detection of MDR-TB in Mycobacterium tuberculosis (M. tb) in sputum samples. A reference plasmid library was first generated of the most frequently observed mutations in the resistance determining regions of rpoB, katG and inhA promoter and used as positive controls in HRM...
March 22, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28328841/increased-hpv-l1-gene-methylation-and-multiple-infection-status-lead-to-the-difference-of-cervical-epithelial-cell-lesion-in-different-ethnic-women-of-xinjiang-china
#5
Feng Yang-Chun, Zhang Yuan, Liu Cheng-Ming, Huang Yan-Chun, Ma Xiu-Min
Human papillomavirus (HPV) L1 gene methylation deeply involved in the progression and heterogeneity of cervical cell epithelial lesions. The DNA ploidy also represented the early lesions of cervical cell, and it was associated with different HPV infection status in different ethnic women. So, the research was to explore whether it was possible that HPV L1 gene methylation and HPV infection status as the risk factors to lead to the differences of cervical epithelial cells' lesions in different ethnics women...
March 2017: Medicine (Baltimore)
https://www.readbyqxmd.com/read/28316763/serotonin-transporter-gene-slc6a4-polymorphism-and-mucosal-serotonin-levels-in-southeastern-iranian-patients-with-irritable-bowel-syndrome
#6
Mojgan Mohammadi, Hossein Tahmasebi Abdar, Hamid Reza Mollaei, Hossein Hajghani, Mohammad Reza Baneshi, Mohammad Mahdi Hayatbakhsh
BACKGROUND Irritable bowel syndrome (IBS) is a digestive system disorder with an unknown etiology. Serotonin has a key role in the secretion and motility of the intestine. Polymorphism in serotonin re-uptake transporter (SERT or SLC6A4) gene may have a functional role in the gut of patients with IBS. The aims of the present study were to investigate the association between SLC6A4 gene polymorphism and IBS and to detect the correlation between rectal serotonin levels and IBS sub-types. METHODS SLC6A4 gene polymorphism in 131 patients with IBS and 211 healthy controls were analysed using the quantitative polymerase chain reaction high-resolution melting (qPCR-HRM) curve technique...
January 2017: Middle East Journal of Digestive Diseases
https://www.readbyqxmd.com/read/28314271/identification-of-methylation-profiles-of-cancer-related-genes-in-circulating-tumor-cells-population
#7
Anna Lyberopoulou, Michail Galanopoulos, Gerasimos Aravantinos, George E Theodoropoulos, Evangelos Marinos, Efstathios P Efstathopoulos, Maria Gazouli
BACKGROUND: We performed an epigenetic analysis of the first exon of the hVIM gene and the SFRP2 in circulating tumor cells (CTCs) and correlation with the corresponding primary colorectal cancer (CRC) tissue. PATIENTS AND METHODS: CTCs detection in 52 colorectal cancer patients was managed by a multi-marker immunomagnetic method with the use of quantum dots (QDs). To determine methylation levels we used high-resolution melting (HRM) technology. RESULTS: In the case of VIM we found 76...
March 2017: Anticancer Research
https://www.readbyqxmd.com/read/28296931/helios-expression-and-foxp3-tsdr-methylation-of-ifny-and-ifny-treg-from-kidney-transplant-recipients-with-good-long-term-graft-function
#8
Karina Trojan, Christian Unterrainer, Rolf Weimer, Nuray Bulut, Christian Morath, Mostafa Aly, Li Zhu, Gerhard Opelz, Volker Daniel
BACKGROUND: There is circumstantial evidence that IFNy+ Treg might have clinical relevance in transplantation. IFNy+ Treg express IFNy receptors and are induced by IFNy. In the present study we investigated in kidney transplant recipients with good long-term stable graft function the absolute cell counts of IFNy+ Treg subsets and whether their expression of Foxp3 is stable or transient. METHOD: Helios expression determined by eight-color-fluorescence flow cytometry and methylation status of the Foxp3 Treg specific demethylation region (TSDR) served as indicators for stability of Foxp3 expression...
2017: PloS One
https://www.readbyqxmd.com/read/28289589/polymorphism-of-the-il13-gene-may-be-associated-with-uterine-leiomyomas-in-slovenian-women
#9
J Krsteski, S Jurgec, M Pakiž, I But, U Potočnik
Uterine leiomyomas (ULM) are a common cause of solid pelvic tumors in women. Their etiopathogenesis remains unclear. Interleukins (ILs) and their receptors can influence tumor biology of ULM. The aim of this study was to evaluate single nucleotide polymorphisms (SNPs) exhibited in the genes IL4 (rs2070874), IL4R (rs1801275), IL12RB1 (rs11575934), IL12B (rs6887695), IL13 (rs20541) and IL23R (rs7517847) as risk factors for ULM in Slovenian women and to identify associations between corresponding clinical parameters and the analyzed SNPs...
December 1, 2016: Balkan Journal of Medical Genetics: BJMG
https://www.readbyqxmd.com/read/28280076/identification-of-cadherin-2-cdh2-mutations-in-arrhythmogenic-right-ventricular-cardiomyopathy
#10
Bongani M Mayosi, Maryam Fish, Gasnat Shaboodien, Elisa Mastantuono, Sarah Kraus, Thomas Wieland, Maria-Christina Kotta, Ashley Chin, Nakita Laing, Ntobeko B A Ntusi, Michael Chong, Christopher Horsfall, Simon N Pimstone, Davide Gentilini, Gianfranco Parati, Tim-Matthias Strom, Thomas Meitinger, Guillaume Pare, Peter J Schwartz, Lia Crotti
BACKGROUND: Arrhythmogenic right ventricular cardiomyopathy (ARVC) is a genetically heterogeneous condition caused by mutations in genes encoding desmosomal proteins in up to 60% of cases. The 40% of genotype-negative cases point to the need of identifying novel genetic substrates by studying genotype-negative ARVC families. METHODS AND RESULTS: Whole exome sequencing was performed on 2 cousins with ARVC. Validation of 13 heterozygous variants that survived internal quality and frequency filters was performed by Sanger sequencing...
April 2017: Circulation. Cardiovascular Genetics
https://www.readbyqxmd.com/read/28278270/methylation-level-of-cpg-islands-in-ggh-gene-promoter-in-pediatric-acute-leukemia
#11
Yue Li, Sixi Liu, Huihui Wang, Huirong Mai, Xiuli Yuan, Changgang Li, Xiaowen Chen, Feiqiu Wen
BACKGROUND: γ-Glutamyl hydrolase (GGH) regulates intracellular folates and antifolates such as methotrexate (MTX) for proper nucleotide biosynthesis and antifolate-induced cytotoxicity, respectively. In addition to genetic polymorphism and karyotypic abnormalities, methylation of CpG island 1 (CpG1) in the promoter region is found to modulate GGH activity by reducing GGH mRNA expression in acute lymphoblastic leukemia (ALL) cells. We aim to investigate methylation status of two CpG islands (CpG1 and CpG2) in the GGH promoter region in pediatric patients with ALL and acute myelogenous leukemia (AML)...
2017: PloS One
https://www.readbyqxmd.com/read/28272245/single-nucleotide-polymorphism-rs1058205-of-klk3-is-associated-with-the-risk-of-prostate-cancer-a-case-control-study-of-han-chinese-men-in-northeast-china
#12
Chen Chen, Zhongqiu Xin
BACKGROUND: Prostate cancer (PCa) is a serious public health concern for men worldwide. However, the risk factors for PCa remain largely unclear. Aim of this study was to investigate statistical associations between the risk of prostate cancer and the rs1058205 single-nucleotide polymorphism (SNP) of the KLK3 gene, which encodes the prostate specific antigen (PSA), in a case-control study of Han Chinese men in Northeast China. METHODS: Using a high-resolution melting curve genotyping method, we determined the genotype and allele distributions of rs1058205 in 2 groups of Han Chinese men, consisting of 268 PCa patients and 298 healthy control subjects...
March 2017: Medicine (Baltimore)
https://www.readbyqxmd.com/read/28266003/erratum-to-high-resolution-melting-analysis-is-very-useful-to-identify%C3%A2-brca1%C3%A2-c-4964_4982del19-rs80359876-founder-calabrian-pathogenic-variant-on-peripheral-blood-and-buccal-swab-dna
#13
Angelo Minucci, Maria De Bonis, Elisa De Paolis, Leonarda Gentile, Concetta Santonocito, Paola Concolino, Flavio Mignone, Ettore Capoluongo
No abstract text is available yet for this article.
March 7, 2017: Molecular Diagnosis & Therapy
https://www.readbyqxmd.com/read/28264030/dynamic-time-warping-assessment-of-high-resolution-melt-curves-provides-a-robust-metric-for-fungal-identification
#14
Sha Lu, Gordana Mirchevska, Sayali S Phatak, Dongmei Li, Janos Luka, Richard A Calderone, William A Fonzi
Fungal infections are a global problem imposing considerable disease burden. One of the unmet needs in addressing these infections is rapid, sensitive diagnostics. A promising molecular diagnostic approach is high-resolution melt analysis (HRM). However, there has been little effort in leveraging HRM data for automated, objective identification of fungal species. The purpose of these studies was to assess the utility of distance methods developed for comparison of time series data to classify HRM curves as a means of fungal species identification...
2017: PloS One
https://www.readbyqxmd.com/read/28262116/its2-barcoding-dna-region-combined-with-high-resolution-melting-hrm-analysis-of-hyoscyami-semen-the-mature-seed-of-hyoscyamus-niger
#15
Chao Xiong, Zhi-Gang Hu, Yuan Tu, He-Gang Liu, Ping Wang, Ming-Ming Zhao, Yu-Hua SHIi, Lan Wu, Wei Sun, Shi-Lin Chen
Hyoscyami Semen, the mature dried seed of Hyoscyamus niger L., has long been used as a traditional Chinese medicine to treat human diseases. Hyoscyami Semen is found in local markets in China. In markets, sellers and buyers commonly inadvertently mix the seeds of H. niger with the seeds of related species such as Hygrophila salicifolia (Vahl) Nees, Astragalus complanatus R. Br., Cuscuta australis R. Br., Cuscuta chinensis Lam., and Impatiens balsamina L. because of their similar morphologies or similar names...
December 2016: Chinese Journal of Natural Medicines
https://www.readbyqxmd.com/read/28241454/next-generation-sequencing-approach-in-methylation-analysis-of-hnf1b-and-gata4-genes-searching-for-biomarkers-in-ovarian-cancer
#16
Ivana Bubancova, Helena Kovarikova, Jan Laco, Ema Ruszova, Ondrej Dvorak, Vladimir Palicka, Marcela Chmelarova
DNA methylation is well-known to be associated with ovarian cancer (OC) and has great potential to serve as a biomarker in monitoring response to therapy and for disease screening. The purpose of this study was to investigate methylation of HNF1B and GATA4 and correlate detected methylation with clinicopathological characteristic of OC patients. The study group consisted of 64 patients with OC and 35 control patients. To determine the most important sites of HNF1B and GATA4, we used next-generation sequencing...
February 22, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28239231/genome-wide-discovery-of-dna-polymorphisms-in-mei-prunus-mume-sieb-et-zucc-an-ornamental-woody-plant-with-contrasting-tree-architecture-and-their-functional-relevance-for-weeping-trait
#17
Jie Zhang, Kai Zhao, Dan Hou, Junhuo Cai, Qixiang Zhang, Tangren Cheng, Huitang Pan, Weiru Yang
Next-generation sequencing technologies provide opportunities to ascertain the genetic basis of phenotypic differences, even in the closely related cultivars via detection of large amount of DNA polymorphisms. In this study, we performed whole-genome re-sequencing of two mei cultivars with contrasting tree architecture. 75.87 million 100 bp pair-end reads were generated, with 92 % coverage of the genome. Re-sequencing data of two former upright mei cultivars were applied for detecting DNA polymorphisms, since we were more interested in variations conferring weeping trait...
2017: Plant Molecular Biology Reporter
https://www.readbyqxmd.com/read/28238495/maternal-common-variant-rs2305957-spanning-plk4-is-associated-with-blastocyst-formation-and-early-recurrent-miscarriage
#18
Qian Zhang, Guangyu Li, Lei Zhang, Xiaohe Sun, Dandan Zhang, Juanjuan Lu, Jinlong Ma, Junhao Yan, Zi-Jiang Chen
OBJECTIVE: To investigate whether the common variant rs2305957 spanning PLK4 (Polo-like kinase 4) confers risk to embryo development in Northern Chinese Han (CHN) women. DESIGN: Genetic association study. SETTING: University hospital. PATIENT(S): A total of 2,015 infertile women who underwent in vitro fertilization (IVF), 530 women with early recurrent miscarriage (ERM), and 600 fertile control women in the CHN population...
February 23, 2017: Fertility and Sterility
https://www.readbyqxmd.com/read/28230734/deep%C3%A2-transcriptome%C3%A2-sequencing%C3%A2-of%C3%A2-two%C3%A2-green%C3%A2-algae-chara%C3%A2-vulgaris%C3%A2-and%C3%A2-chlamydomonas%C3%A2-reinhardtii-%C3%A2-provides%C3%A2-no%C3%A2-evidence%C3%A2-of%C3%A2-organellar%C3%A2-rna%C3%A2-editing
#19
A Bruce Cahoon, John A Nauss, Conner D Stanley, Ali Qureshi
Nearly all land plants post-transcriptionally modify specific nucleotides within RNAs, a process known as RNA editing. This adaptation allows the correction of deleterious mutations within the asexually reproducing and presumably non-recombinant chloroplast and mitochondrial genomes. There are no reports of RNA editing in any of the green algae so this phenomenon is presumed to have originated in embryophytes either after the invasion of land or in the now extinct algal ancestor of all land plants. This was challenged when a recent in silico screen for RNA edit sites based on genomic sequence homology predicted edit sites in the green alga Chara vulgaris, a multicellular alga found within the Streptophyta clade and one of the closest extant algal relatives of land plants...
February 20, 2017: Genes
https://www.readbyqxmd.com/read/28224031/first-report-of-tasmanian-sheep-strain-g2-genotype-isolated-from-iranian-goat-using-the-high-resolution-melting-hrm-analysis
#20
Ahmad Hosseini-Safa, Mohammad Ali Mohag Hegh, Nader Pestechian, Maryam Ganji, Rasoul Mohammadi, Reza Mahmoudi Lamouki, Mohammad Rostami-Nejad
AIM: The present study was aimed to evaluate E. granulosus genotypes isolated from goats using HRM analysis in Isfahan province. BACKGROUND: Cystic echincoccosis, so-called hydatidosis, is widespread infection caused by the larval stage of Echinococcus granulosus. This is an important zoonotic disease worldwide, especially in the developing countries such as Iran. To date, molecular studies mainly based on the mitochondrial DNA sequences have identified distinct genotypes termed G1-G10 which can differ in some characteristics such as the growth and infectivity to different intermediate hosts or the survival rate in the definitive hosts that are important for the development of control strategies...
December 2016: Gastroenterology and Hepatology From Bed to Bench
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