title: Accurate encoding and decoding by single cells: amplitude versus frequency modulation.
abstract: Cells sense external concentrations and, via biochemical signaling, respond by regulating the expression of target proteins. Both in signaling networks and gene regulation there are two main mechanisms by which the concentration can be encoded internally: amplitude modulation (AM), where the absolute concentration of an internal signaling molecule encodes the stimulus, and frequency modulation (FM), where the period between successive bursts represents the stimulus. Although both mechanisms have been observed in biological systems, the question of when it is beneficial for cells to use either AM or FM is largely unanswered. Here, we first consider a simple model for a single receptor (or ion channel), which can either signal continuously whenever a ligand is bound, or produce a burst in signaling molecule upon receptor binding. We find that bursty signaling is more accurate than continuous signaling only for sufficiently fast dynamics. This suggests that modulation based on bursts may be more common in signaling networks than in gene regulation. We then extend our model to multiple receptors, where continuous and bursty signaling are equivalent to AM and FM respectively, finding that AM is always more accurate. This implies that the reason some cells use FM is related to factors other than accuracy, such as the ability to coordinate expression of multiple genes or to implement threshold crossing mechanisms.
authors.affiliation: Department of Life Sciences, Imperial College, London, United Kingdom; Centre for Integrative Systems Biology and Bioinformatics, Imperial College, London, United Kingdom; Dipartimento di Fisica, Università degli Studi di Milano, Milano, Italy.
authors.forename: Gabriele
authors.initials: G
authors.lastname: Micali
authors.affiliation: Department of Life Sciences, Imperial College, London, United Kingdom; Centre for Integrative Systems Biology and Bioinformatics, Imperial College, London, United Kingdom.
authors.forename: Gerardo
authors.initials: G
authors.lastname: Aquino
authors.affiliation: Department of Life Sciences, Imperial College, London, United Kingdom; Centre for Integrative Systems Biology and Bioinformatics, Imperial College, London, United Kingdom.
authors.forename: David M
authors.initials: DM
authors.lastname: Richards
authors.affiliation: Department of Life Sciences, Imperial College, London, United Kingdom; Centre for Integrative Systems Biology and Bioinformatics, Imperial College, London, United Kingdom.
authors.forename: Robert G
authors.initials: RG
authors.lastname: Endres
mesh_terms: D002450:Cell Communication / Q000502:physiology*; D019295:Computational Biology; D007473:Ion Channels / Q000378:metabolism / Q000502:physiology*; D008954:Models, Biological; D018160:Receptors, Cytoplasmic and Nuclear / Q000378:metabolism / Q000502:physiology*
chemical_list: D007473:Ion Channels; D018160:Receptors, Cytoplasmic and Nuclear