An individual-based model for the analysis of Prochlorococcus diel cycle behavior
Authored by Annette M Hynes, Brian J Binder, Brad J Blythe
Date Published: 2015
DOI: 10.1016/j.ecolmodel.2015.01.011
Sponsors:
United States National Science Foundation (NSF)
Platforms:
MATLAB
Model Documentation:
ODD
Flow charts
Mathematical description
Model Code URLs:
http://www.sciencedirect.com.ezproxy1.lib.asu.edu/science/MiamiMultiMediaURL/1-s2.0-S030438001500023X/1-s2.0-S030438001500023X-mmc1.pdf/271743/html/S030438001500023X/e4624a1cc6a6b70c27b00fcfd1ec9376/mmc1.pdf
Abstract
Prochlorococcus spp. are the smallest and most numerous phytoplankton in
the ocean. The tightly-phased diel dynamics of cellular growth and
division can be used to estimate population growth and mortality rates
of Prochlorococcus in the field. However, traditional approaches for
making these estimates involve deconvolving cell cycle phases from DNA
distributions, a potential source of error. In this study, we used an
individual-based model (IBM) to capture the cell size patterns, DNA
content, and cell cycle phase distributions of Prochlorococcus. Model
parameters were estimated from cell cycle data of field populations in
the North Atlantic Ocean and then optimized using the Nelder-Mead
algorithm. The model reproduced observed field diel growth and cell
cycle dynamics well. Model optimization can be used to estimate
population growth rates and other cell cycle parameters directly from
DNA distributiohs, independent of cell cycle phase deconvolution. (C)
2015 Elsevier B.V. All rights reserved.
Tags
Light
Phytoplankton
Dna-replication
Equatorial pacific
Photosynthetic prokaryote
Marine cyanobacterium prochlorococcus
North pacific-ocean
Cell-cycle
Circadian clock
Limited growth