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loop-mediated isothermal amplification

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https://www.readbyqxmd.com/read/28638960/comparative-diagnostic-evaluation-of-omp31-gene-based-taqman%C3%A2-real-time-pcr-assay-with-visual-lamp-assay-and-indirect-elisa-for-caprine-brucellosis
#1
Suman Saini, V K Gupta, K Gururaj, D D Singh, R V S Pawaiya, N K Gangwar, A K Mishra, Deepak Dwivedi, Dimple Andani, Ashok Kumar, T K Goswami
Brucellosis is one of the leading causes of abortion in domestic animals that imposes costs on both economy and society. The disease is highly zoonotic and poses risk to animal handlers due to its zoonotic nature. It causes stillbirth, loss of kids and abortion in last term of pregnancy. Reproductive damage includes infertility in does and orchitis and epididymitis in breeding bucks, which result in high financial losses to farmers and the agriculture industry as a whole. It requires highly sensitive and specific assays to diagnose the disease at field level...
June 21, 2017: Tropical Animal Health and Production
https://www.readbyqxmd.com/read/28628741/amplicon-competition-enables-end-point-quantitation-of-nucleic-acids-following-isothermal-amplification
#2
Yu Sherry Jiang, Apollo Stacy, Marvin Whiteley, Andrew D Ellington, Sanchita Bhadra
It is inherently difficult to quantitate nucleic acid analytes with most isothermal amplification assays. We have now developed loop-mediated isothermal amplification (LAMP) reactions in which competition between defined numbers of 'false' and 'true' amplicons leads to order of magnitude quantitation via a single end-point determination. These thresholded LAMP reactions were successfully used to directly and quantitatively estimate the numbers of nucleic acids in complex biospecimens, including directly from cells and in sewage, with the values obtained closely correlating with qPCR quantitations...
June 19, 2017: Chembiochem: a European Journal of Chemical Biology
https://www.readbyqxmd.com/read/28627822/development-of-a-one-step-reverse-transcription-loop-mediated-isothermal-amplification-system-for-a-highly-sensitive-detection-of-rabbit-hepatitis-e-virus
#3
Jing Wang, Hua Zhang, Shengyuan Yan, Yichao Wang, Xin Lu, Hongwei Fu
BACKGROUND: Hepatitis E virus (HEV) is a major cause of acute viral hepatitis in areas with poor sanitation. Rabbit is one of important animal reservoirs of the virus. Reverse transcription-loop-mediated isothermal amplification (RT-LAMP) system is a novel nucleic acid amplification assay, for which the specificity and sensitivity are much higher than that of conventional PCR. However, previously reported RT-LAMP system cannot detect rabbit HEV, which was identified recently and seems to be another potential source of human HEV infection...
May 1, 2017: Clinical Laboratory
https://www.readbyqxmd.com/read/28619672/point-of-care-diagnosis-of-multiple-schistosome-parasites-species-specific-dna-detection-in-urine-by-loop-mediated-isothermal-amplification-lamp
#4
Nilanjan Lodh, Kei Mikita, Kwabena M Bosompem, William K Anyan, Joseph K Quartey, Joseph Otchere, Clive J Shiff
Schistosomes are easily transmitted and high chance of repeat infection, so if control strategies based on targeted mass drug administration (MDA) are to succeed it is essential to have a test that is sensitive, accurate and simple to use. It is known and regularly demonstrated that praziquantel does not always eliminate an infection so in spite of the successes of control programs a residual of the reservoir survives to re-infect snails. The issue of diagnostic sensitivity becomes more critical in the assessment of program effectiveness...
June 12, 2017: Acta Tropica
https://www.readbyqxmd.com/read/28600772/a-closed-tube-loop-mediated-isothermal-amplification-assay-for-the-visual-endpoint-detection-of-brucella-spp-and-mycobacterium-avium-subsp-paratuberculosis
#5
Marcos D Trangoni, Andrea K Gioffré, Silvio L Cravero
LAMP (loop-mediated isothermal amplification) is an isothermal nucleic acid amplification technique that is characterized by its efficiency, rapidity, high yield of final product, robustness, sensitivity, and specificity, with the blueprint that it can be implemented in laboratories of low technological complexity. Despite the conceptual complexity underlying the mechanistic basis for the nucleic acid amplification, the technique is simple to use and the amplification and detection can be carried out in just one step...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28592104/-loop-mediated-isothermal-amplification-technique-in-the-diagnosis-of-hepatitis-b-virus-infection-a-meta-analysis
#6
H Y Zhou, C Chen, X N Li, X J Ma
Objective: To evaluate the diagnostic performance of Loop-mediated isothermal amplification (LAMP) in the diagnosis of Hepatitis B Virus (HBV) infection using Meta-analysis. Methods: Literatures about LAMP in the diagnosis of HBV throughPubMed database of the National Library of Medicine, the EMBASE database of the Dutch Medical Digest, the Cochrane Clinical Trials Database, China Science Periodical Database, CSPD and the China National Knowledge Infrastructure (CNKI) were searched from 2000 to 2016, and the Language limited to Chinese and English...
June 6, 2017: Zhonghua Yu Fang Yi Xue za Zhi [Chinese Journal of Preventive Medicine]
https://www.readbyqxmd.com/read/28591662/a-loop-mediated-isothermal-amplification-lamp-assay-for-the-rapid-detection-of-enterococcus-spp-in-water
#7
Roland Martzy, Claudia Kolm, Kurt Brunner, Robert L Mach, Rudolf Krska, Hana Šinkovec, Regina Sommer, Andreas H Farnleitner, Georg H Reischer
Faecal pollution of water and the resulting potential presence of human enteric pathogens is a predominant threat to public health. Microbiological water quality can be assessed by the detection of standard faecal indicator bacteria (SFIB) such as E. coli or certain Enterococcus species. In recent years, isothermal amplification methods have become a useful alternative to polymerase chain reaction (PCR), allowing molecular diagnostics with simple or no instrumentation. In this study, a novel screening method for the molecular detection of Enterococcus spp...
May 13, 2017: Water Research
https://www.readbyqxmd.com/read/28585379/groel-is-a-suitable-genetic-marker-for-detecting-vibrio-parahaemolyticus-by-loop-mediated-isothermal-amplification-lamp-assay
#8
Mahbubul Pratik Siddique, Won Je Jang, Jong Min Lee, Sun-Hee Ahn, Sharmin Suraiya, Chang-Hoon Kim, In-Soo Kong
A groEL gene-based loop-mediated isothermal amplification (LAMP) assay was developed to detect Vibrio parahaemolyticus in contaminated seafood and water. The assay was optimized and conducted at 63°C for 40 min using Bacillus stearothermophilus (Bst) DNA polymerase, large fragment. Amplification was analyzed via multiple detection methods, including opacity, formation of white precipitate, DNA intercalating dyes (ethidium bromide and SYBR Green I), metal ion-binding indicator dye, calcein, and 2% agarose gel electrophoresis...
June 5, 2017: Letters in Applied Microbiology
https://www.readbyqxmd.com/read/28585170/rapid-and-simple-identification-of-carbapenemase-genes-bla-ndm-bla-oxa-48-bla-vim-bla-imp-14-and-bla-kpc-groups-in-gram-negative-bacilli-by-in-house-loop-mediated-isothermal-amplification-with-hydroxynaphthol-blue-dye
#9
Arpasiri Srisrattakarn, Aroonlug Lulitanond, Chotechana Wilailuckana, Nicha Charoensri, Lumyai Wonglakorn, Pimjai Saenjamla, Prajuab Chaimanee, Jureerut Daduang, Aroonwadee Chanawong
Carbapenem-resistant Enterobacteriaceae isolates by carbapenemase production are being reported globally with increasing frequency, leading to limited therapeutic options. We therefore developed a loop-mediated isothermal amplification method with hydroxynaphthol blue dye (LAMP-HNB) for rapid confirmation of bla NDM, bla OXA-48, bla VIM, bla IMP-14 and bla KPC groups. Sixty-two Enterobacteriaceae and Pseudomonas spp. isolates carrying various carbapenemase genes (28 bla NDM-1, 9 bla IMP-14a, 2 bla IMP-48, 1 bla IMP-1, 1 bla IMP-4, 1 bla IMP-9, 1 bla IMP-15, 4 bla VIM-2, 1 bla VIM-1, 1 bla IMP-14a & bla VIM-2, 7 bla KPC-2, 3 bla OXA-48 and 3 bla OXA-181) and 37 non-carbapenemase-producing Enterobacteriaceae isolates as confirmed by the PCR methods were included...
July 2017: World Journal of Microbiology & Biotechnology
https://www.readbyqxmd.com/read/28580365/low-quality-housing-is-associated-with-increased-risk-of-malaria-infection-a-national-population-based-study-from-the-low-transmission-setting-of-swaziland
#10
Nomcebo Dlamini, Michelle S Hsiang, Nyasatu Ntshalintshali, Deepa Pindolia, Regan Allen, Nomcebo Nhlabathi, Joseph Novotny, Mi-Suk Kang Dufour, Alemayehu Midekisa, Roly Gosling, Arnaud LeMenach, Justin Cohen, Grant Dorsey, Bryan Greenhouse, Simon Kunene
BACKGROUND: Low-quality housing may confer risk of malaria infection, but evidence in low transmission settings is limited. METHODS: To examine the relationship between individual level housing quality and locally acquired infection in children and adults, a population-based cross-sectional analysis was performed using existing surveillance data from the low transmission setting of Swaziland. From 2012 to 2015, cases were identified through standard diagnostics in health facilities and by loop-mediated isothermal amplification in active surveillance, with uninfected subjects being household members and neighbors...
2017: Open Forum Infectious Diseases
https://www.readbyqxmd.com/read/28578093/direct-bacterial-loop-mediated-isothermal-amplification-detection-on-the-pathogenic-features-of-the-nosocomial-pathogen-methicillin-resistant-staphylococcus-aureus-strains-with-respiratory-origins
#11
Qun Lin, Pusheng Xu, Jiaowu Li, Yin Chen, Jieyi Feng
Loop-mediated isothermal amplification based detection assays using bacterial culture or colony for direct detection of methicillin resistant Staphylococcus aureus(MRSA) had been developed and evaluated, followed by its extensive application on a large scale of clinical MRSA isolated from respiratory origins, including nasal swabs and sputums. Six primers, including outer primers, inner primers and loop primers, were specifically designed for recognizing eight distinct sequences on four targets: 16SrRNA, femA, mecA and orfX...
May 31, 2017: Microbial Pathogenesis
https://www.readbyqxmd.com/read/28573341/identification-of-methicillin-resistant-staphylococcus-aureus-mrsa-using-simultaneous-detection-of-meca-nuc-and-femb-by-loop-mediated-isothermal-amplification-lamp
#12
Changguo Chen, Qiangyuan Zhao, Jianwei Guo, Yanjun Li, Qiuyuan Chen
The aim of this study was to develop a rapid detection assay to identify methicillin-resistant Staphylococcus aureus by simultaneous testing for the mecA, nuc, and femB genes using the loop-mediated isothermal amplification (LAMP) method. LAMP primers were designed using online bio-software ( http://primerexplorer.jp/e/ ), and amplification reactions were performed in an isothermal temperature bath. The products were then examined using 2% agarose gel electrophoresis. MecA, nuc, and femB were confirmed by triplex TaqMan real-time PCR...
June 2, 2017: Current Microbiology
https://www.readbyqxmd.com/read/28551733/rt-lamp-assay-an-alternative-approach-for-profiling-of-bovine-heat-shock-protein-70-gene-in-pbmc-cultured-model
#13
Gyanendra Singh Sengar, Rajib Deb, T V Raja, Umesh Singh, Rajiv Kant, V Bhanuprakash, R R Alyethodi, Sushil Kumar, Preetam Verma, Soumendu Chakraborty, Rani Alex, Rani Singh
The purpose of this study is to develop a novel Reverse Transcriptase Loop-mediated isothermal amplification (RT-LAMP) based assay for in vitro profiling of heat shock protein 70 (Hsp70) in bovine peripheral blood mononuclear cell (PBMC) culture model utilizing the absorbance level of magnesium pyrophosphate-a by-product of LAMP reaction. A set of bovine Hsp70 specific RT-LAMP primers were designed to detect the differential absorbance level of magnesium pyrophosphate by-product which signifies the degree of Hsp70 amplification from cDNA of thermally induced cultured cells at different recovery periods...
May 27, 2017: Molecular Biology Reports
https://www.readbyqxmd.com/read/28542573/development-of-real-time-pcr-and-loop-mediated-isothermal-amplification-lamp-assays-for-the-differential-detection-of-digital-dermatitis-associated-treponemes
#14
Kelly Anklam, Megan Kulow, Wataru Yamazaki, Dörte Döpfer
Bovine digital dermatitis (DD) is a severe infectious cause of lameness in cattle worldwide, with important economic and welfare consequences. There are three treponeme phylogroups (T. pedis, T. phagedenis, and T. medium) that are implicated in playing an important causative role in DD. This study was conducted to develop real-time PCR and loop-mediated isothermal amplification (LAMP) assays for the detection and differentiation of the three treponeme phylogroups associated with DD. The real-time PCR treponeme phylogroup assays targeted the 16S-23S rDNA intergenic space (ITS) for T...
2017: PloS One
https://www.readbyqxmd.com/read/28540698/introduction-on-using-the-fastpcr-software-and-the-related-java-web-tools-for-pcr-and-oligonucleotide-assembly-and-analysis
#15
Ruslan Kalendar, Timofey V Tselykh, Bekbolat Khassenov, Erlan M Ramanculov
This chapter introduces the FastPCR software as an integrated tool environment for PCR primer and probe design, which predicts properties of oligonucleotides based on experimental studies of the PCR efficiency. The software provides comprehensive facilities for designing primers for most PCR applications and their combinations. These include the standard PCR as well as the multiplex, long-distance, inverse, real-time, group-specific, unique, overlap extension PCR for multi-fragments assembling cloning and loop-mediated isothermal amplification (LAMP)...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28534230/trueperella-pyogenes-isolated-from-a-brain-abscess-of-an-adult-roebuck-capreolus-capreolus
#16
Jörn-Peter Wickhorst, Abdulwahed Ahmed Hassan, Omar Hashim Sheet, Tobias Eisenberg, Osama Sammra, Mazen Alssahen, Christoph Lämmler, Ellen Prenger-Berninghoff, Michael Zschöck, Markus Timke, Amir Abdulmawjood
The present study was designed to characterize phenotypically and genotypically a Trueperella pyogenes strain isolated from a brain abscess of an adult roebuck (Capreolus capreolus). The species identity could be confirmed by phenotypical investigations, by MALDI-TOF MS analysis, and by sequencing the 16S ribosomal RNA (rRNA) gene, the 16S-23S rRNA intergenic spacer region (ISR); by sequencing the target genes rpoB, gap, and tuf; and by detection of T. pyogenes chaperonin-encoding gene cpn60 with a previously developed loop-mediated isothermal amplification (LAMP) assay...
May 23, 2017: Folia Microbiologica
https://www.readbyqxmd.com/read/28527390/on-filter-direct-amplification-of-legionella-pneumophila-for-rapid-assessment-of-its-abundance-and-viability
#17
Farag A Samhan, Tiffany M Stedtfeld, Hassan Waseem, Maggie R Williams, Robert D Stedtfeld, Syed A Hashsham
Guidelines and regulations to control Legionella pneumophila in cooling water systems of large buildings are evolving due to the increasing number of outbreaks. Rapid, on-site, simple, and sensitive quantification methods that are also able to assess viability may be extremely useful in monitoring and control. Culture-based methods for measuring L. pneumophila may take 4-10 days and qPCR-based methods are also slow, requiring at least a day from sample to result, albeit mainly due to the need for sample transport to a centralized laboratory...
May 13, 2017: Water Research
https://www.readbyqxmd.com/read/28514671/evaluation-of-improved-is6110-lamp-assay-for-diagnosis-of-pulmonary-and-extra-pulmonary-tuberculosis
#18
Deepali Joon, Manoj Nimesh, Mandira Varma-Basil, Daman Saluja
In the present study, IS6110 loop mediated isothermal amplification (LAMP) assay was modified using dUTP-UNG (uracil-DNA N-glycosylase) strategy to prevent carryover contamination, and was evaluated using clinical specimens. The clinical specimens were collected from 236 suspected patients of pulmonary tuberculosis and 315 specimens of suspected patients of extra pulmonary tuberculosis. DNA was extracted from specimens and used as template for nucleic acid amplification. The results were evaluated with culture method as gold standard...
May 14, 2017: Journal of Microbiological Methods
https://www.readbyqxmd.com/read/28512232/loop-mediated-isothermal-amplification-for-extended-spectrum-%C3%AE-lactamase-gene-detection-in-poultry-carcase
#19
M Kirchner, F Lemma, L Randall, M F Anjum
No abstract text is available yet for this article.
May 16, 2017: Veterinary Record
https://www.readbyqxmd.com/read/28493052/development-of-a-colorimetric-reverse-transcription-loop-mediated-isothermal-amplification-assay-for-the-detection-of-mirafiori-lettuce-big-vein-virus
#20
Mohammad Amin Almasi
An RT-LAMP assay was developed to detect Mirafiori lettuce big vein virus (MiLBVV) and was compared with DAS-ELISA and RT-PCR. All primers were designed on the basis of the coat protein gene of the virus. In addition, a novel immunocapture (IC) RT-LAMP assay for rapid and easy detection of MiLBVV was developed, and factors such as safety, simplicity, cost, user-friendliness and safety were compared with those of DAS-ELISA, RT-PCR and RT-LAMP assays. Compared with DAS-ELISA and RT-PCR, RT-LAMP and IC-RT-LAMP had higher sensitivity (100-fold) but similar specificity, with the advantage of a shorter assay time and no need for RNA extraction (in IC-RT-LAMP)...
May 10, 2017: Archives of Virology
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