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https://www.readbyqxmd.com/read/28218268/rapid-and-sensitive-diagnoses-of-dry-root-rot-pathogen-of-chickpea-rhizoctonia-bataticola-taub-butler-using-loop-mediated-isothermal-amplification-assay
#1
Raju Ghosh, Avijit Tarafdar, Mamta Sharma
Dry root rot (DRR) caused by the fungus Rhizoctonia bataticola (Taub.) Butler, is an emerging disease in chickpea. The disease is often mistaken with other root rots like Fusarium wilt, collar rot and black root rot in chickpea. Therefore, its timely and specific detection is important. Current detection protocols are either based on mycological methods or on protocols involving DNA amplification by polymerase chain reaction (PCR). Here we report the rapid and specific detection of R. bataticola using loop-mediated isothermal amplification (LAMP) assay targeting fungal specific 5...
February 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28214519/detection-and-quantification-of-soil-transmitted-helminths-in-environmental-samples-a-review-of-current-state-of-the-art-and-future-perspectives
#2
REVIEW
Isaac Dennis Amoah, Gulshan Singh, Thor Axel Stenström, Poovendhree Reddy
It is estimated that over a billion people are infected with soil-transmitted helminths (STHs) globally with majority occurring in tropical and subtropical regions of the world. The roundworm (Ascaris lumbricoides), whipworm (Trichuris trichiura), and hookworms (Anclostoma duodenale and Necator americanus) are the main species infecting people. These infections are mostly gained through exposure to faecally contaminated water, soil or contaminated food and with an increase in the risk of infections due to wastewater and sludge reuse in agriculture...
February 15, 2017: Acta Tropica
https://www.readbyqxmd.com/read/28211674/monte-carlo-modeling-based-digital-loop-mediated-isothermal-amplification-on-a-spiral-chip-for-absolute-quantification-of-nucleic-acids
#3
Yun Xia, Shuangqian Yan, Xian Zhang, Peng Ma, Wei Du, Xiaojun Feng, Bi-Feng Liu
Digital loop-mediated isothermal amplification (dLAMP) is an attractive approach for absolute quantification of nucleic acids with high sensitivity and selectivity. Theoretical and numerical analysis of dLAMP provides necessary guidance for the design and analysis of dLAMP devices. In this work, a mathematical model was proposed based on Monte Carlo method and the theories of Poisson statistics and chemometrics. To examine the established model, we fabricated a spiral chip with 1200 uniform and discrete reaction chambers (9...
February 17, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28211246/dna-amplification-in-the-field-move-over-pcr-here-comes-lamp
#4
Patricia L M Lee
It would not be an exaggeration to say that among molecular technologies, it is PCR (polymerase chain reaction) that underpins the discipline of molecular ecology as we know it today. With PCR, it has been possible to target the amplification of particular fragments of DNA, which can then be analysed in a multitude of ways. The capability of PCR to amplify DNA from a mere handful of copies further means that conservationists and ecologists are able to sample DNA unobtrusively and with minimal disturbance to the environment and the organisms of interest...
March 2017: Molecular Ecology Resources
https://www.readbyqxmd.com/read/28199317/colorimetric-tests-for-diagnosis-of-filarial-infection-and-vector-surveillance-using-non-instrumented-nucleic-acid-loop-mediated-isothermal-amplification-nina-lamp
#5
Catherine B Poole, Zhiru Li, Andy Alhassan, Dylan Guelig, Steven Diesburg, Nathan A Tanner, Yinhua Zhang, Thomas C Evans, Paul LaBarre, Samuel Wanji, Robert A Burton, Clotilde K S Carlow
Accurate detection of filarial parasites in humans is essential for the implementation and evaluation of mass drug administration programs to control onchocerciasis and lymphatic filariasis. Determining the infection levels in vector populations is also important for assessing transmission, deciding when drug treatments may be terminated and for monitoring recrudescence. Immunological methods to detect infection in humans are available, however, cross-reactivity issues have been reported. Nucleic acid-based molecular assays offer high levels of specificity and sensitivity, and can be used to detect infection in both humans and vectors...
2017: PloS One
https://www.readbyqxmd.com/read/28197157/loop-mediated-isothermal-amplification-method-for-the-rapid-detection-of-ralstonia-solanacearum-phylotype-i-mulberry-strains-in-china
#6
Wen Huang, Hao Zhang, Jingsheng Xu, Shuai Wang, Xiangjiu Kong, Wei Ding, Jin Xu, Jie Feng
Ralstonia solanacearum phylotype I mulberry strains are causative agent of bacterial wilt of mulberry. Current diagnostic methods are not adopted to the mulberry wilt disease. In this study, we developed a rapid method, loop-mediated isothermal amplification (LAMP), to detect R. solanacearum phylotype I mulberry strains. A set of six primers was designed to target the clone MG67 sequence in this LAMP detection which can be completed in 20 min at 64°C. The results of the LAMP reaction could be observed with the naked eye due to magnesium pyrophosphate precipitate produced during the reaction or the color change after adding SYBR Green I...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28193014/simple-and-highly-sensitive-molecular-diagnosis-of-zika-virus-by-lateral-flow-assays
#7
Dohwan Lee, Yong Shin, Seok Chung, Kyo Seon Hwang, Dae Sung Yoon, Jeong Hoon Lee
We have developed a simple, user-friendly, and highly sensitive Zika virus (ZIKV) detection method by incorporating optimized reverse transcription loop-mediated isothermal amplification (RT-LAMP) and a lateral flow assay (LFA). The optimized RT-LAMP reaction was carried out using Bst 3.0 polymerase, which has robust and fast isothermal amplification performance even in the presence of high concentrations of inhibitors; this permitted the amplification of ZIKV RNA in pure water and human whole blood. In addition, the strong reverse transcription activity of Bst 3...
December 20, 2016: Analytical Chemistry
https://www.readbyqxmd.com/read/28177044/comparison-of-lamp-and-pcr-for-molecular-mass-screening-of-sand-flies-for-leishmania-martiniquensis-infection
#8
Saruda Tiwananthagorn, Hirotomo Kato, Ranchana Yeewa, Amontip Muengpan, Raxsina Polseela, Saovanee Leelayoova
BACKGROUND: Leishmaniasis caused by Leishmania martiniquensis infection has been reported in human and domestic animals of Martinique Island, Germany, Switzerland, USA, Myanmar and Thailand. The peculiar clinical features of disseminated cutaneous and visceral forms co-existence render the urgent need of specific diagnostic tool to identify the natural sand fly vectors for effective prevention and control strategies. Loop-mediated isothermal amplification (LAMP) of 18S rRNA gene as well as polymerase chain reaction (PCR) of minicircle kinetoplast DNA gene (PCR-mkDNA) have never been applied to detect L...
February 2017: Memórias do Instituto Oswaldo Cruz
https://www.readbyqxmd.com/read/28167671/defining-the-ail-ligand-binding-surface-hydrophobic-residues-in-two-extracellular-loops-mediate-cell-and-extracellular-matrix-binding-to-facilitate-yop-delivery
#9
Tiffany M Tsang, Jeffrey S Wiese, Jamal A Alhabeil, Lisa D Usselman, Joshua J Thomson, Rafla Matti, Malte Kronshage, Natalie Maricic, Shanedah Williams, Naama H Sleiman, Suleyman Felek, Eric S Krukonis
Yersinia pestis, the causative agent of plague, binds host cells to deliver cytotoxic Yop proteins into the cytoplasm that prevent phagocytosis and generation of pro-inflammatory cytokines. Ail is an eight-stranded β-barrel outer membrane protein with four extracellular loops that mediates cell binding and resistance to human serum. Following deletion of each of the four extracellular loops that potentially interact with host cells, the Ail-Δloop 2 and Ail-Δloop 3 mutants had no cell binding activity while Ail-Δloop 4 maintained cell binding (the Ail-Δloop 1 protein was unstable)...
February 6, 2017: Infection and Immunity
https://www.readbyqxmd.com/read/28166862/legionella-prevalence-and-risk-of-legionellosis-in-japanese-households
#10
T Kuroki, Y Watanabe, H Teranishi, S Izumiyama, J Amemura-Maekawa, F Kura
This study determined the occurrence of legionellae in private houses for which there were no available data on aquatic environments other than the water supply system. From June 2013 to November 2014, we collected 138 water and 90 swab samples from aquatic environments in 19 houses. Legionella DNA was detected via a loop-mediated isothermal amplification assay in 66 (47·8%) water and 17 (18·9%) swab samples. High Legionella DNA detection rates were observed in water samples from washing machines and aquariums...
February 7, 2017: Epidemiology and Infection
https://www.readbyqxmd.com/read/28166235/development-and-clinical-performance-of-high-throughput-loop-mediated-isothermal-amplification-for-detection-of-malaria
#11
Rushini S Perera, Xavier C Ding, Frank Tully, James Oliver, Nigel Bright, David Bell, Peter L Chiodini, Iveth J Gonzalez, Spencer D Polley
BACKGROUND: Accurate and efficient detection of sub-microscopic malaria infections is crucial for enabling rapid treatment and interruption of transmission. Commercially available malaria LAMP kits have excellent diagnostic performance, though throughput is limited by the need to prepare samples individually. Here, we evaluate the clinical performance of a newly developed high throughput (HTP) sample processing system for use in conjunction with the Eiken malaria LAMP kit. METHODS: The HTP system utilised dried blood spots (DBS) and liquid whole blood (WB), with parallel sample processing of 94 samples per run...
2017: PloS One
https://www.readbyqxmd.com/read/28160461/foxo1-malat1-mir-26a-5p-feedback-loop-mediates-proliferation-and-migration-in-osteosarcoma-cells
#12
Juntao Wang, Guodong Sun
MiR-26a has been found to be downregulated in osteosarcoma (OS) compared with normal control tissues and has been shownto be able to suppress the malignant behaviors of OS cells. The underlying mechanism, nevertheless, remains unknown. Here, in our study, the long non-coding RNA MALAT1, confirmed to be significantly up-regulated in OS, was firstly shown to be capable of promoting proliferation and migration by directly suppressing miR-26a-5p in OS cells. In addition, we've identified Forkhead Box O 1 (FOXO1) was a transcriptional factor of MALAT1 that can negatively regulate MALAT1...
February 3, 2017: Oncology Research
https://www.readbyqxmd.com/read/28155195/clinical-evaluation-of-the-isothermal-amplification-assays-for-the-detection-of-four-common-respiratory-viruses-in-children-with-pneumonia
#13
Hangyu Zhou, Mengchuan Zhao, Xinna Li, Dan Zhang, Shuaifeng Zhou, Chen Chen, Zhishan Feng, Xuejun Ma
Respiratory viruses are recognized as serious causes of morbidity and mortality in lower respiratory tract infections in patients. Isothermal amplification assays are increasingly used in their detection because of their rapidity, simplicity and cost-effectiveness, when compared to traditional molecular diagnostic methods. However, systematic assessment of these assays in the clinical settings is rarely reported. MEDLINE (Pubmed) searches were done analysing subject headings and words in the abstract related to isothermal amplification assay and virus...
February 2, 2017: Archives of Virology
https://www.readbyqxmd.com/read/28142124/quantitative-real-time-monitoring-of-rca-amplification-of-cancer-biomarkers-mediated-by-a-flexible-ion-sensitive-platform
#14
Bruno Veigas, Joana Pinto, Raquel Vinhas, Tomás Calmeiro, Rodrigo Martins, Elvira Fortunato, Pedro Viana Baptista
Ion sensitive field-effect transistors (ISFET) are the basis of radical new sensing approaches. Reliable molecular characterization of specific detection of DNA and/or RNA is vital for disease diagnostics and to follow up alterations in gene expression profiles. Devices and strategies for biomolecular recognition and detection should be developed into reliable and inexpensive platforms. Here, we describe the development of a flexible thin-film sensor for label free gene expression analysis. A charge modulated ISFET based sensor was integrated with real-time DNA/RNA isothermal nucleic acid amplification: Loop-mediated isothermal amplification (LAMP) and Rolling Circle Amplification (RCA) techniques for c-MYC and BCR-ABL1 genes, allowing for the real-time quantification of template...
May 15, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/28140634/development-of-loop-mediated-isothermal-amplification-based-diagnostic-assays-for-detection-of-pasteurella-multocida-and-hemorrhagic-septicemia-associated-p-multocida-serotype-b-2
#15
Ahmed M Moustafa, Mark D Bennett
OBJECTIVE To develop 2 rapid loop-mediated isothermal amplification (LAMP) assays for detection of Pasteurella multocida DNA (Pm-LAMP assay) and P multocida DNA from strains associated with hemorrhagic septicemia (HS) in cattle and buffalo (HS-LAMP assay). SAMPLE Solutions containing 16 P multocida strains and 9 other bacterial species at various concentrations. PROCEDURES Optimal conditions were determined for running the Pm-LAMP and HS-LAMP assays. The assays were then used to detect DNA of the test organisms...
February 2017: American Journal of Veterinary Research
https://www.readbyqxmd.com/read/28137456/flower-like-zno-nanostructure-assisted-loop-mediated-isothermal-amplification-assay-for-detection-of-japanese-encephalitis-virus
#16
Yonghua Ma, Yan Lu, Guiquan Guan, Jianxun Luo, Qingli Niu, Junlong Liu, Hong Yin, Guangyuan Liu
In this study, we described a novel and effective flower-like ZnO nanostructure assisted Reverse Transcription Loop-Mediated Isothermal Amplification (RT-LAMP) method to detect Japanese Encephalitis Virus (JEV). The effects of different concentrations of ZnO nanoflower on the RT-LAMP reaction were investigated. With the increase of concentration of ZnO nanoflower, RT-LAMP reaction obtained optimization, until the concentration exceeded 1.5nM, RT-LAMP reaction was inhibited. Made 1nM as optimum concentration of ZnO nanoflower, we found that optimum RT-LAMP reaction temperature and time were 60°C and 30min, respectively...
January 27, 2017: Virus Research
https://www.readbyqxmd.com/read/28134241/establishment-and-application-of-a-novel-isothermal-amplification-assay-for-rapid-detection-of-chloroquine-resistance-k76t-in-plasmodium-falciparum
#17
Madhvi Chahar, Neelima Mishra, Anup Anvikar, Rajnikant Dixit, Neena Valecha
Chloroquine (CQ) resistance in Plasmodium falciparum is determined by the mutations in the chloroquine resistance transporter (Pfcrt) gene. The point mutation at codon 76 (K76T), which has been observed in more than 91% of P. falciparum isolates in India, is the major determinant of CQ resistance. To overcome the limitations and challenges of traditional methods, in this investigation we developed an easy to use loop mediated isothermal amplification (LAMP) protocol for rapid detection of the K76T mutation associated with CQ resistance in P...
January 30, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28126051/loop-mediated-isothermal-amplification-lamp-assay-for-rapid-detection-of-streptococcus-agalactiae-group-b-streptococcus-gbs-in-vaginal-swabs-a-proof-of-concept-study
#18
James Patrick McKenna, Ciara Cox, Derek John Fairley, Rachael Burke, Michael D Shields, Alison Watt, Peter Valentine Coyle
PURPOSE: Neonatal infection with Streptococcus agalactiae (Group B streptococcus - GBS) is a life threatening condition which is preventable if colonised mothers are identified and given antibiotic prophylaxis during labour. Conventional culture is time consuming and unreliable, and many available non-culture diagnostics are too complex to implement routinely at point of care. Loop-mediated isothermal amplification (LAMP) is a method which enables the rapid and specific detection of target nucleic acid sequences in clinical material without requirements for extensive sample preparation...
January 24, 2017: Journal of Medical Microbiology
https://www.readbyqxmd.com/read/28122564/genetic-detection-of-peste-des-petits-ruminants-virus-under-field-conditions-a-step-forward-towards-disease-eradication
#19
Waqas Ashraf, Hermann Unger, Sunaina Haris, Ameena Mobeen, Muhammad Farooq, Muhammad Asif, Qaiser Mahmood Khan
BACKGROUND: The devastating viral disease of small ruminants namely Peste des petits ruminants (PPR) declared as target for "Global Eradication" in 2015 by the Food and Agriculture Organization (FAO) and the World Organization for Animal Health (OIE). For a successful eradication campaign, molecular diagnostic tools are preferred for their specificity, efficacy and robustness to compliment prophylactic measures and surveillance methods. However, molecular tools have a few limitations including, costly equipment, multi-step template preparation protocols, target amplification and analysis that restrict their use to the sophisticated laboratory settings...
January 25, 2017: BMC Veterinary Research
https://www.readbyqxmd.com/read/28118889/the-development-of-loop-mediated-isothermal-amplification-combined-with-lateral-flow-dipstick-for-detection-of-karlodinium-veneficum
#20
Hai-Long Huang, Peng Zhu, Cheng-Xu Zhou, Shan He, Xiao-Jun Yan
The aim of this study was to develop a loop-mediated isothermal amplification (LAMP) combined with a chromatographic lateral flow dipstick (LFD) assay to rapidly and specifically detect the Karlodinium veneficum ITS gene. Four groups of LAMP primers were specially designed to target the K. veneficum ITS gene. The LAMP-LFD detection limit was 7.4pg/μL (approximately 6.5cells/mL) of K. veneficum genomic DNA and was 10 times more sensitive than standard PCR. The LAMP-LFD method exhibited high specificity and accurately identified K...
February 2017: Harmful Algae
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