keyword
MENU ▼
Read by QxMD icon Read
search

high resolution melt

keyword
https://www.readbyqxmd.com/read/28549037/evaluation-of-a-dna-extraction-and-purification-protocol-using-archived-formalin-fixed-paraffin-embedded-tissues-for-braf-mutations-analysis-in-papillary-thyroid-microcarcinomas
#1
Adela Nechifor-Boilă, Andrada Loghin, Françoise Descotes, Myriam Decaussin-Petrucci, Angela Borda
The isolation of good quality genomic DNA from formalin-fixed, paraffin-embedded tissues is challenging, especially in cases of small tissue specimens. The aim of our study was to evaluate a DNA extraction protocol using formalin-fixed, paraffin-embedded tissues in our laboratory and apply this method to a series of papillary thyroid microcarcinomas (PTMCs). A total of 25 PTMCs and 3 papillary thyroid carcinoma control cases were included in the study. We assessed a DNA extraction protocol on the basis of a precipitation method (MasterPure DNA purification kit, Epicentre), according to the manufacturer's instructions...
May 25, 2017: Applied Immunohistochemistry & Molecular Morphology: AIMM
https://www.readbyqxmd.com/read/28545452/a-simple-fast-and-inexpensive-method-for-mutation-scanning-of-cftr-gene
#2
Juan Emilio Figueredo Lago, Anny Armas Cayarga, Yaimé Josefina González González, Teresa Collazo Mesa
BACKGROUND: Mutation scanning methods in Cystic Fibrosis Transmembrane Conductance Regulator (CFTR) gene may not distinguish between a Cystic Fibrosis (CF) causing mutation and a benign variant. We have developed a simple and fast method for scanning 14 selected CF-causing mutations which have high frequency in Latin America. METHODS: In a group of 35 samples coming from CF patients previously characterized and using two allele-specific real-time multiplex PCRs targeting wild-type and mutant alleles respectively, we detect the presence of mutations by analyzing the Ct variation...
May 25, 2017: BMC Medical Genetics
https://www.readbyqxmd.com/read/28544267/genetic-variation-within-species-and-haplotypes-of-the-wiseana-lepidoptera-hepialidae-complex-and-development-of-non-sequenced-based-identification-tools-to-aid-field-studies
#3
Nicola K Richards, Sarah Mansfield, Richard J Townsend, Colin M Ferguson
BACKGROUND: Porina is the common name used to describe moths and caterpillars of the seven endemic species and three haplotypes of Wiseana in New Zealand. Several species have adapted to eating introduced pasture plants, however a paucity of defining morphological characteristics has meant that porina are grouped as indistinguishable species within a complex. This study aimed to develop non-sequencing identification methods for porina species. RESULTS: We sequenced 1, 718 bp of the mitochondrial cytochrome oxidase genes for all Wiseana species and haplotypes using 75 specimens collected from 42 sites throughout New Zealand...
May 22, 2017: Pest Management Science
https://www.readbyqxmd.com/read/28543666/high-resolution-melting-analysis-assay-for-identification-of-fonsecaea-species
#4
Minglan Shi, Xiqing Li, Jiao Feng, Shulin Jia, Xing Xiao, Chunmei Chen, Cindy Fransisca, Liyan Xi, Junmin Zhang
BACKGROUND: Chromoblastomycosis (CBM) is a chronic fungal disease. In China, the principle etiologic agent was a group of dematiaceous fungi, including Fonsecaea monophora, Fonsecaea nubica, and Cladophialophora carrionii. Although the Fonsecaea species have similar morphology, their pathogenicity is quite different. This study aims to establish a new solution for early identification of Fonsecaea species because of their distinctive potential infection risk. METHODS: Five reference strains and 35 clinical isolates from patients with CBM, preserved in our laboratory, were used in this study...
May 22, 2017: Journal of Clinical Laboratory Analysis
https://www.readbyqxmd.com/read/28542172/ecosystem-sentinels-for-climate-change-evidence-of-wetland-cover-changes-over-the-last-30-years-in-the-tropical-andes
#5
Olivier Dangles, Antoine Rabatel, Martin Kraemer, Gabriel Zeballos, Alvaro Soruco, Dean Jacobsen, Fabien Anthelme
While the impacts of climate change on individual species and communities have been well documented there is little evidence on climate-mediated changes for entire ecosystems. Pristine alpine environments can provide unique insights into natural, physical and ecological response to climate change yet broad scale and long-term studies on these potential 'ecosystem sentinels' are scarce. We addressed this issue by examining cover changes of 1689 high-elevation wetlands (temporarily or perennial water-saturated grounds) in the Bolivian Cordillera Real, a region that has experienced significant warming and glacier melting over the last 30 years...
2017: PloS One
https://www.readbyqxmd.com/read/28527015/a-genome-wide-association-study-identifies-the-genomic-region-associated-with-shell-color-in-yesso-scallop-patinopecten-yessoensis
#6
Liang Zhao, Yangping Li, Yajuan Li, Jiachen Yu, Huan Liao, Shuyue Wang, Jia Lv, Jun Liang, Xiaoting Huang, Zhenmin Bao
The shell color polymorphism widely exists in economic shellfish, which not only results in a better visual perception but also shows great value as an economic trait for breeding. Small numbers of reddish-orange shell Yesso scallops, Patinopecten yessoensis, were found in cultured populations compared to the brown majority. In this study, a genome-wide association study was conducted to understand the genetic basis of shell color. Sixty-six 2b-RAD libraries with equal numbers of reddish-orange and brown shell individuals were constructed and sequenced using the Illumina HiSeq 2000 platform...
May 19, 2017: Marine Biotechnology
https://www.readbyqxmd.com/read/28525658/genotyping-of-snps-associated-with-meat-tenderness-comparison-of-two-pcr-based-methods
#7
L E López-Rojas, L Patiño-Cadavid, A López-Herrera, J J Echeverri-Zuluaga
Single nucleotide polymorphisms (SNPs) carried in calpain (CAPN1), calpastatin (CAST), and leptin (LEP) genes are associated with meat tenderness. Due to the economic importance of this meat quality attribute, the development of fast, reliable, and affordable methods to identify bovine carriers of favorable alleles is of great importance for genetic improvement. Currently, PCR-RFLP is accepted as the standard gold method for genotyping SNPs associated with meat tenderness. But these SNPs can be detected by other techniques as high-resolution melting (HRM) analysis - a post-PCR method - that offers several advantages and has great application potential in the meat industry...
May 18, 2017: Genetics and Molecular Research: GMR
https://www.readbyqxmd.com/read/28523436/hrm-and-snapshot-as-alternative-forensic-snp-genotyping-methods
#8
Bhavik Mehta, Runa Daniel, Dennis McNevin
Single nucleotide polymorphisms (SNPs) have been widely used in forensics for prediction of identity, biogeographical ancestry (BGA) and externally visible characteristics (EVCs). Single base extension (SBE) assays, most notably SNaPshot® (Thermo Fisher Scientific), are commonly used for forensic SNP genotyping as they can be employed on standard instrumentation in forensic laboratories (e.g. capillary electrophoresis). High resolution melt (HRM) analysis is an alternative method and is a simple, fast, single tube assay for low throughput SNP typing...
May 18, 2017: Forensic Science, Medicine, and Pathology
https://www.readbyqxmd.com/read/28512568/acemetacin-cocrystal-structures-by-powder-x-ray-diffraction
#9
Geetha Bolla, Vladimir Chernyshev, Ashwini Nangia
Cocrystals of acemetacin drug (ACM) with nicotinamide (NAM), p-aminobenzoic acid (PABA), valerolactam (VLM) and 2-pyridone (2HP) were prepared by melt crystallization and their X-ray crystal structures determined by high-resolution powder X-ray diffraction. The powerful technique of structure determination from powder data (SDPD) provided details of molecular packing and hydrogen bonding in pharmaceutical cocrystals of acemetacin. ACM-NAM occurs in anhydrate and hydrate forms, whereas the other structures crystallized in a single crystalline form...
May 1, 2017: IUCrJ
https://www.readbyqxmd.com/read/28512015/the-association-between-mir-34-dysregulation-and-distant-metastases-formation-in-lung-adenocarcinoma
#10
Iben Daugaard, Alice Knudsen, Tina E Kjeldsen, Henrik Hager, Lise Lotte Hansen
Lung cancer has the highest mortality rate amongst human cancers and the majority of deaths can be attributed to metastatic spread. The miR-34 family includes three tumor suppressive miRs: miR-34a, miR-34b and miR-34c. miR-34 downregulation is a frequent observation in human malignancies and is often attributed to hypermethylation of the miR-34a and miR-34b/c promoters. Here, the potential association between aberrant miR-34 expression and promoter methylation and distant metastases formation in lung adenocarcinoma (LAC) is investigated...
May 13, 2017: Experimental and Molecular Pathology
https://www.readbyqxmd.com/read/28511704/the-use-of-kdna-minicircle-subclass-relative-abundance-to-differentiate-between-leishmania-l-infantum-and-leishmania-l-amazonensis
#11
Marcello Ceccarelli, Luca Galluzzi, Aurora Diotallevi, Francesca Andreoni, Hailie Fowler, Christine Petersen, Fabrizio Vitale, Mauro Magnani
BACKGROUND: Leishmaniasis is a neglected disease caused by many Leishmania species, belonging to subgenera Leishmania (Leishmania) and Leishmania (Viannia). Several qPCR-based molecular diagnostic approaches have been reported for detection and quantification of Leishmania species. Many of these approaches use the kinetoplast DNA (kDNA) minicircles as the target sequence. These assays had potential cross-species amplification, due to sequence similarity between Leishmania species. Previous works demonstrated discrimination between L...
May 16, 2017: Parasites & Vectors
https://www.readbyqxmd.com/read/28506262/identification-and-quantification-of-virulence-factors-of-enterotoxigenic-escherichia-coli-by-high-resolution-melting-curve-quantitative-pcr
#12
Weilan Wang, Ruurd T Zijlstra, Michael G Gänzle
BACKGROUND: Diagnosis of enterotoxigenic E. coli (ETEC) associated diarrhea is complicated by the diversity of E.coli virulence factors. This study developed a multiplex quantitative PCR assay based on high-resolution melting curves analysis (HRM-qPCR) to identify and quantify genes encoding five ETEC fimbriae related to diarrhea in swine, i.e. K99, F41, F18, F6 and K88. METHODS: Five fimbriae expressed by ETEC were amplified in multiple HRM-qPCR reactions to allow simultaneous identification and quantification of five target genes...
May 15, 2017: BMC Microbiology
https://www.readbyqxmd.com/read/28504825/one-step-simultaneous-detection-of-ureaplasma-parvum-and-genotypes-sv1-sv3-and-sv6-from-clinical-samples-using-plexpcr-technology
#13
Matthew S Payne, Lucy L Furfaro, Rachel Tucker, Lit Y Tan, Elisa Mokany
Ureaplasma spp. are associated with preterm birth. In recent times, it has become apparent that U. parvum, but not U. urealyticum, is of most relevance. We recently demonstrated this in Australian pregnant women and using high-resolution melt (HRM) PCR, further showed that U. parvum genotype SV6 was of particular significance. However, our assay was unable to identify multiple genotypes in the same sample, required a separate species-level qPCR for low titre samples and was not ideal for diagnostic laboratories due to the nature of HRM PCR result interpretation...
May 15, 2017: Letters in Applied Microbiology
https://www.readbyqxmd.com/read/28504812/overexpression-of-the-yap1-oncogene-in-clear-cell-renal-cell-carcinoma-is-associated-with-poor-outcome
#14
Agnieszka Rybarczyk, Jakub Klacz, Agata Wronska, Marcin Matuszewski, Zbigniew Kmiec, Piotr M Wierzbicki
Clear cell renal cell carcinoma (ccRCC) is the most common subtype of RCC (70-80%). Yes-associated protein 1 (YAP1) protein is a nuclear effector of the Hippo pathway and acts as a transcriptional co-activator of genes involved in the processes of growth and development of tissues. Hippo signaling, with its key kinases, MST2 and large tumor suppressor kinase 1 (LATS1), plays a significant role in the negative regulation of the amount and activity of YAP1 protein. Components of the Hippo pathway and YAP1 levels are frequently dysregulated in a variety of tumors, suggestive of their possible involvement in carcinogenesis...
May 15, 2017: Oncology Reports
https://www.readbyqxmd.com/read/28500962/the-methylation-levels-of-the-h19-differentially-methylated-region-in-human-umbilical-cords-reflect-newborn-parameters-and-changes-by-maternal-environmental-factors-during-early-pregnancy
#15
Hidenobu Miyaso, Kenichi Sakurai, Shunya Takase, Akifumi Eguchi, Masahiro Watanabe, Hideoki Fukuoka, Chisato Mori
H19 is a tumor-suppressor gene, and changes in the methylation of the H19-differential methylation region (H19-DMR) are related to human health. However, little is known about the factors that regulate the methylation levels of H19-DMR. Several recent studies have shown that maternal environmental factors during pregnancy, such as smoking, drinking, chemical exposure, and nutrient intake, can alter the methylation levels of several genes in fetal tissues. In this study, we examined the effects of maternal factors on changes in the methylation levels of H19-DMR in the human umbilical cord (UC), an extra-embryonic tissue...
May 10, 2017: Environmental Research
https://www.readbyqxmd.com/read/28500802/high-resolution-melting-curve-analysis-of-the-16s-ribosomal-gene-to-detect-and-identify-pathogenic-and-saprophytic-leptospira-species-in-colombian-isolates
#16
Ronald G Peláez Sánchez, Juan Álvaro López Quintero, Martha María Pereira, Piedad Agudelo-Flórez
AbstractIt is important to identify the circulating Leptospira agent to enhance the performance of serodiagnostic tests by incorporating specific antigens of native species, develop vaccines that take into account the species/serovars circulating in different regions, and optimize prevention and control strategies. The objectives of this study were to develop a polymerase chain reaction (PCR)-high-resolution melting (HRM) assay for differentiating between species of the genus Leptospira and to verify its usefulness in identifying unknown samples to species level...
May 2017: American Journal of Tropical Medicine and Hygiene
https://www.readbyqxmd.com/read/28498980/fowl-adenovirus-serotype-4-epidemiology-pathogenesis-diagnostic-detection-and-vaccine-strategies
#17
P H Li, P P Zheng, T F Zhang, G Y Wen, H B Shao, Q P Luo
Fowl adenovirus (FAdV) serotype-4 is highly pathogenic for chickens, especially for broilers aged 3 to 5 wk, and it has emerged as one of the foremost causes of economic losses to the poultry industry in the last 30 years. The liver is a major target organ of FAdV-4 infections, and virus-infected chickens usually show symptoms of hydropericardium syndrome. The virus is very contagious, and it is spread both vertically and horizontally. It can be isolated from infected liver homogenates and detected by several laboratory diagnostic methods (including an agar gel immunodiffusion test, indirect immunofluorescence assays, counterimmunoelectrophoresis, enzyme-linked immunosorbent assays, restriction endonuclease analyses, polymerase chain reaction (PCR), real-time PCR, and high-resolution melting-curve analyses)...
May 12, 2017: Poultry Science
https://www.readbyqxmd.com/read/28498350/comparison-of-direct-sequencing-real-time-pcr-high-resolution-melt-pcr-hrm-and-pcr-restriction-fragment-length-polymorphism-pcr-rflp-analysis-for-genotyping-of-common-thiopurine-intolerant-variant-alleles-nudt15-c-415c-t-and-tpmt-c-719a-g-tpmt-3c
#18
Wai-Ying Fong, Chi-Chun Ho, Wing-Tat Poon
Thiopurine intolerance and treatment-related toxicity, such as fatal myelosuppression, is related to non-function genetic variants encoding thiopurine S-methyltransferase (TPMT) and Nudix hydrolase 15 (NUDT15). Genetic testing of the common variants NUDT15:NM_018283.2:c.415C>T (Arg139Cys, dbSNP rs116855232 T allele) and TPMT: NM_000367.4:c.719A>G (TPMT*3C, dbSNP rs1142345 G allele) in East Asians including Chinese can potentially prevent treatment-related complications. Two complementary genotyping approaches, real-time PCR-high resolution melt (PCR-HRM) and PCR-restriction fragment length morphism (PCR-RFLP) analysis were evaluated using conventional PCR and Sanger sequencing genotyping as the gold standard...
May 12, 2017: Diagnostics
https://www.readbyqxmd.com/read/28489866/magmatic-evolution-of-panama-canal-volcanic-rocks-a-record-of-arc-processes-and-tectonic-change
#19
David W Farris, Agustin Cardona, Camilo Montes, David Foster, Carlos Jaramillo
Volcanic rocks along the Panama Canal present a world-class opportunity to examine the relationship between arc magmatism, tectonic forcing, wet and dry magmas, and volcanic structures. Major and trace element geochemistry of Canal volcanic rocks indicate a significant petrologic transition at 21-25 Ma. Oligocene Bas Obispo Fm. rocks have large negative Nb-Ta anomalies, low HREE, fluid mobile element enrichments, a THI of 0.88, and a H2Ocalc of >3 wt. %. In contrast, the Miocene Pedro Miguel and Late Basalt Fm...
2017: PloS One
https://www.readbyqxmd.com/read/28485966/electrochemical-liquid-phase-epitaxy-ec-lpe-a-new-methodology-for-the-synthesis-of-crystalline-group-iv-semiconductor-epifilms
#20
Joshua Demuth, Eli Fahrenkrug, Luyao Ma, Titilayo Shodiya, Julia I Deitz, Tyler J Grassman, Stephen Maldonado
Deposition of epitaxial germanium (Ge) thin films on silicon (Si) wafers has been achieved over large areas with aqueous feedstock solutions using electrochemical liquid phase epitaxy (ec-LPE) at low temperatures (T ≤ 90 °C). The ec-LPE method uniquely blends the simplicity and control of traditional electrodeposition with the material quality of melt growth. A new electrochemical cell design based on the compression of a liquid metal electrode into a thin cavity that enables ec-LPE is described. The epitaxial nature, low strain character, and crystallographic defect content of the resultant solid Ge films were analyzed by electron backscatter diffraction, scanning transmission electron microscopy, high resolution X-ray diffraction, and electron channeling contrast imaging...
May 9, 2017: Journal of the American Chemical Society
keyword
keyword
68414
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"