Journal ArticleDOI
Progress in understanding preferential detection of live cells using viability dyes in combination with DNA amplification.
TLDR
Sample pretreatment with viability dyes has so far been mainly used in combination with PCR (leading to the term viability PCR, v-PCR), and increasingly with isothermal amplification method, but has also successfully been applied to fungi, protozoa and viruses.About:
This article is published in Journal of Microbiological Methods.The article was published on 2012-11-01. It has received 338 citations till now. The article focuses on the topics: Propidium monoazide & Loop-mediated isothermal amplification.read more
Citations
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Critical review on biofilm methods
Joana Azeredo,Nuno F. Azevedo,Romain Briandet,Nuno Cerca,Tom Coenye,Ana Rita Costa,Mickaël Desvaux,Giovanni Di Bonaventura,Michel Hébraud,Zoran Jaglic,Miroslava Kačániová,Susanne Knøchel,Anália Lourenço,Filipe Mergulhão,Rikke Louise Meyer,George Nychas,Manuel Simões,Odile Tresse,Claus Sternberg +18 more
TL;DR: This review aims at helping scientists in finding the most appropriate and up-to-date methods to study their biofilms by giving a critical perspective, highlighting the advantages and limitations of several methods.
Journal ArticleDOI
Relic DNA is abundant in soil and obscures estimates of soil microbial diversity.
Paul Carini,Patrick J. Marsden,Jonathan W. Leff,Jonathan W. Leff,Emily E Morgan,Michael S. Strickland,Noah Fierer,Noah Fierer +7 more
TL;DR: Examination of soils using viability PCR based on the photoreactive DNA-intercalating dye propidium monoazide found that, on average, 40% of both prokaryotic and fungal DNA was extracellular or from cells that were no longer intact, implying that this ‘relic DNA’ remaining in soil after cell death can obscure treatment effects, spatiotemporal patterns and relationships between microbial taxa and environmental conditions.
Journal ArticleDOI
Schrödinger’s microbes: Tools for distinguishing the living from the dead in microbial ecosystems
Joanne B. Emerson,Joanne B. Emerson,Rachel I. Adams,Clarisse M. Betancourt Román,Brandon Brooks,David A. Coil,Katherine E. Dahlhausen,Holly H. Ganz,Erica M. Hartmann,Erica M. Hartmann,Tiffany Hsu,Tiffany Hsu,Nicholas B. Justice,Ivan G. Paulino-Lima,Julia C. Luongo,Despoina S. Lymperopoulou,Cinta Gomez-Silvan,Cinta Gomez-Silvan,Brooke Rothschild-Mancinelli,Melike Balk,Curtis Huttenhower,Curtis Huttenhower,Andreas Nocker,Parag Vaishampayan,Lynn J. Rothschild +24 more
TL;DR: A number of techniques that have been used to test for viability (live/dead determination) and/or activity in various contexts are described, including newer techniques that are compatible with or complementary to downstream nucleic acid sequencing.
Journal ArticleDOI
Fungal allergy in asthma–state of the art and research needs
David W. Denning,Catherine H. Pashley,Domink Hartl,Andrew J. Wardlaw,Cendrine Godet,Stefano Del Giacco,Laurence Delhaes,Svetlana Sergejeva +7 more
TL;DR: Key evidence supporting the role of fungal exposure, sensitisation and infection in asthmatics is set out, what is understood about pathogenesis and natural history is understood and the numerous areas for research studies are identified.
Journal ArticleDOI
Enumeration of probiotic strains: Review of culture-dependent and alternative techniques to quantify viable bacteria ☆
TL;DR: In this paper, the authors proposed an operational definition of live probiotic bacteria that includes this range of metabolic states is needed for reliable enumeration, and validated these alternative techniques to strengthen the accuracy and reliability of probiotic strain enumeration.
References
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Journal ArticleDOI
A fluorescent complex between ethidium bromide and nucleic acids. Physical-chemical characterization.
J.-B. Lepecq,Claude Paoletti +1 more
TL;DR: Evidence is presented that formation of this complex (complex I) is specific for base-paired regions either in DNA, RNA or RNA: DNA hybrids, and that the basis of this specificity is intercalation of the dye between base pairs.
Journal ArticleDOI
Complex formation between ethidium bromide and nucleic acids.
TL;DR: The interaction between ethidium bromide and nucleic acids shows a pronounced metachromatic effect which has been used to obtain quantitative data on the process of complex formation and is shown to be reversible in solution by demonstrating an exchange reaction between free and bound ethidium.
Journal ArticleDOI
rrndb: the Ribosomal RNA Operon Copy Number Database
TL;DR: This work has created a phylogenetically arranged report on rRNA gene copy number for a diverse collection of prokaryotic microorganisms in an attempt to understand the evolutionary implications of rRNA operon redundancy.
Journal ArticleDOI
Lactic acid permeabilizes gram-negative bacteria by disrupting the outer membrane
Hanna-Leena Alakomi,Eija Skyttä,Maria Saarela,Tiina Mattila-Sandholm,Kyösti Latva-Kala,Ilkka M. Helander +5 more
TL;DR: Lactic acid, in addition to its antimicrobial property due to the lowering of the pH, also functions as a permeabilizer of the gram-negative bacterial outer membrane and may act as a potentiator of the effects of other antimicrobial substances.
Journal ArticleDOI
Comparison of propidium monoazide with ethidium monoazide for differentiation of live vs. dead bacteria by selective removal of DNA from dead cells
TL;DR: A novel chemical, propidium monoazide (PMA), that (like propidium iodide) is highly selective in penetrating only into 'dead' bacterial cells with compromised membrane integrity but not into live cells with intact cell membranes/cell walls.
Related Papers (5)
Novel approaches toward preferential detection of viable cells using nucleic acid amplification techniques
Andreas Nocker,Anne K. Camper +1 more