Mathematical modeling of a real‐time isothermal amplification assay for Erwinia amylovora. Issue 3 (21st October 2019)

• Record Type: Journal Article
• Authors: Gordon, Michael I.; Klemer, David P.; Fuller, Skylar L.; Chang, Jeff H.; Klemer, Daniel R.; Putnam, Melodie L.
• Is Part Of: Engineering reports. Volume 1:Issue 3(2019)
• Page Start: n/a
• Page End: n/a
• Publication Date: 2019-10-21
• Subjects: Erwinia amylovora -- isothermal amplification -- LAMP assay -- mathematical modeling; Engineering -- Periodicals; Computer science -- Periodicals; 620.005
• DOI: 10.1002/eng2.12047
• Languages: English
• ISSNs: 2577-8196

Abstract

Abstract : A general mathematical model that describes the temporal behavior of a real‐time isothermal process used for nucleic acid amplification is derived. A monotonically‐increasing fluorescence signal s ( t ) generated and measured during the amplification reaction can be modeled in the form of a logistic function of time that is completely described by three parameters ( k, t 50, and S max ), which may be readily estimated from experimentally acquired s ( t ) data. Experimental data obtained from a real‐time loop‐mediated isothermal amplification (LAMP) assay for the infectious pathogen Erwinia amylovora ( E. amylovora ) are used to illustrate and validate the mathematical model. Implementation of such a modeling approach can allow for the extraction of quantitative information from real‐time LAMP data through parameter estimation techniques; this is demonstrated experimentally using real‐time amplification data acquired using the real‐time E. amylovora assay.