PhytoSFDM version 1.0.0: Phytoplankton Size and Functional Diversity Model

@article{Acevedo-Trejos2016,
  Title = {PhytoSFDM version 1.0.0: Phytoplankton Size and Functional Diversity Model},
  Author = {Acevedo-Trejos, Esteban and Brandt, Gunnar and Smith, S. Lan and Merico, Agostino},
  Editor = {},
  Journal = {Geoscientific Model Development Discussions},
  Year = {2016},
  Pages = {4071-4085},
  Volume = {9},
  Doi = {10.5194/gmd-9-4071-2016},
  Abstract = {Biodiversity is one of the key mechanisms that facilitate the adaptive response of planktonic communities to afluctuating environment. How to allow for such a flexible response in marine ecosystem models is, however, not entirelyclear. One particular way is to resolve the natural complexity of phytoplankton communities by explicitly incorporating alarge number of species or plankton functional types. Alternatively, models of aggregate community properties focus onmacroecological quantities such as total biomass, mean trait,and trait variance (or functional trait diversity), thus reduc-ing the observed natural complexity to a few mathematicalexpressions. We developed the PhytoSFDM modelling tool,which can resolve species discretely and can capture aggre-gate community properties. The tool also provides a set ofmethods for treating diversity under realistic oceanographicsettings. This model is coded in Python and is distributed asopen-source software. PhytoSFDM is implemented in a zero-dimensional physical scheme and can be applied to any location of the global ocean. We show that aggregate communitymodels  reduce  computational  complexity  while  preservingrelevant macroecological features of phytoplankton commu-nities. Compared to species-explicit models, aggregate models  are  more  manageable  in  terms  of  number  of  equationsand have faster computational times. Further developmentsof  this  tool  should  address  the  caveats  associated  with  theassumptions of aggregate community models and about implementations into spatially resolved physical settings (one-dimensional and three-dimensional). With PhytoSFDM weembrace the idea of promoting open-source software and en-courage scientists to build on this modelling tool to furtherimprove our understanding of the role that biodiversity playsin shaping marine ecosystems.},
}

TY  - JOUR
AU  - Acevedo-Trejos, Esteban
AU  - Brandt, Gunnar
AU  - Smith, S. Lan
AU  - Merico, Agostino
TI  - PhytoSFDM version 1.0.0: Phytoplankton Size and Functional Diversity Model
T2  - Geoscientific Model Development Discussions
PY  - 2016
SP  - 4071-4085
VL  - 9
DO  - 10.5194/gmd-9-4071-2016
AB  - Biodiversity is one of the key mechanisms that facilitate the adaptive response of planktonic communities to afluctuating environment. How to allow for such a flexible response in marine ecosystem models is, however, not entirelyclear. One particular way is to resolve the natural complexity of phytoplankton communities by explicitly incorporating alarge number of species or plankton functional types. Alternatively, models of aggregate community properties focus onmacroecological quantities such as total biomass, mean trait,and trait variance (or functional trait diversity), thus reduc-ing the observed natural complexity to a few mathematicalexpressions. We developed the PhytoSFDM modelling tool,which can resolve species discretely and can capture aggre-gate community properties. The tool also provides a set ofmethods for treating diversity under realistic oceanographicsettings. This model is coded in Python and is distributed asopen-source software. PhytoSFDM is implemented in a zero-dimensional physical scheme and can be applied to any location of the global ocean. We show that aggregate communitymodels  reduce  computational  complexity  while  preservingrelevant macroecological features of phytoplankton commu-nities. Compared to species-explicit models, aggregate models  are  more  manageable  in  terms  of  number  of  equationsand have faster computational times. Further developmentsof  this  tool  should  address  the  caveats  associated  with  theassumptions of aggregate community models and about implementations into spatially resolved physical settings (one-dimensional and three-dimensional). With PhytoSFDM weembrace the idea of promoting open-source software and en-courage scientists to build on this modelling tool to furtherimprove our understanding of the role that biodiversity playsin shaping marine ecosystems.
ER  -