Seeing through the gray box: an integrated approach to physiological modeling ofphytoplankton stoichiometry

The‘black boxes’ of ecological stoichiometry, planktonic microbes, have longbeen recognized to have considerable effects on global biogeochemical cycles.Signi cant progress has been made in studying these effects and expanding ourunderstanding of microbial stoichiometry. However, the‘black box’ has...

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Autores: Jones, Catriona L. C., Camps Castellà, Judith, Smykala, Mike, Sobol, Morgan S., Inomura, Keisuke
Formato: artículo
Estado:Versión publicada
Fecha de publicación:2024
País:España
Recursos:Universidad de Barcelona
Repositorio:Dipòsit Digital de la UB
OAI Identifier:oai:dnet:ubarcelona__::94846986cd713680095f455529cee762
Acesso em linha:https://hdl.handle.net/2445/229496
Access Level:acceso abierto
Palavra-chave:Cicles biogeoquímics
Microbiologia marina
Biogeochemical cycles
Marine microbiology
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spelling Seeing through the gray box: an integrated approach to physiological modeling ofphytoplankton stoichiometryJones, Catriona L. C.Camps Castellà, JudithSmykala, MikeSobol, Morgan S.Inomura, KeisukeCicles biogeoquímicsMicrobiologia marinaBiogeochemical cyclesMarine microbiologyThe‘black boxes’ of ecological stoichiometry, planktonic microbes, have longbeen recognized to have considerable effects on global biogeochemical cycles.Signi cant progress has been made in studying these effects and expanding ourunderstanding of microbial stoichiometry. However, the‘black box’ has not beencompletely cracked open; there remain gaps in our knowledge of the fate ofelements within the phytoplankton cell, and the effect of external processes onnutrient uxes through their metabolism and into macromolecules and biomass -the eponymous‘gray box’. In this review paper, we describe the development of anintegrative modeling approach that involves a stoichiometrically explicit model ofMacromolecular Allocation and Genome-scale Metabolic Analysis (MAGMA) togain insights into the intra- and extracellular fluxes of nutrients using thecyanobacterium <em>Parasynechococcus marenigrum</em> WH8102 as a target modelorganism. We then describe an example of the genome-scale resources for P.marenigrum that can be used to build such an integrated modeling tool to seethrough the gray box of phytoplankton stoichiometry and improve ourunderstanding of the effects of resource supplies and other environmentaldrivers, especially temperature, on C:N:P demand, acquisition, and allocation atthe cellular level.Frontiers Media2024info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionapplication/pdfhttps://hdl.handle.net/2445/229496Articles publicats en revistes (Biologia Evolutiva, Ecologia i Ciències Ambientals)reponame:Dipòsit Digital de la UBinstname:Universidad de BarcelonaInglésReproducció del document publicat a: https://doi.org/https://doi.org/10.3389/fevo.2024.1505025Frontiers In Ecology And Evolution, 2024, vol. 12, num.150525https://doi.org/https://doi.org/10.3389/fevo.2024.1505025cc-by (c) Jones, C. et al., 2024http://creativecommons.org/licenses/by/4.0/info:eu-repo/semantics/openAccessoai:dnet:ubarcelona__::94846986cd713680095f455529cee7622026-05-27T06:46:51Z
dc.title.none.fl_str_mv Seeing through the gray box: an integrated approach to physiological modeling ofphytoplankton stoichiometry
title Seeing through the gray box: an integrated approach to physiological modeling ofphytoplankton stoichiometry
spellingShingle Seeing through the gray box: an integrated approach to physiological modeling ofphytoplankton stoichiometry
Jones, Catriona L. C.
Cicles biogeoquímics
Microbiologia marina
Biogeochemical cycles
Marine microbiology
title_short Seeing through the gray box: an integrated approach to physiological modeling ofphytoplankton stoichiometry
title_full Seeing through the gray box: an integrated approach to physiological modeling ofphytoplankton stoichiometry
title_fullStr Seeing through the gray box: an integrated approach to physiological modeling ofphytoplankton stoichiometry
title_full_unstemmed Seeing through the gray box: an integrated approach to physiological modeling ofphytoplankton stoichiometry
title_sort Seeing through the gray box: an integrated approach to physiological modeling ofphytoplankton stoichiometry
dc.creator.none.fl_str_mv Jones, Catriona L. C.
Camps Castellà, Judith
Smykala, Mike
Sobol, Morgan S.
Inomura, Keisuke
author Jones, Catriona L. C.
author_facet Jones, Catriona L. C.
Camps Castellà, Judith
Smykala, Mike
Sobol, Morgan S.
Inomura, Keisuke
author_role author
author2 Camps Castellà, Judith
Smykala, Mike
Sobol, Morgan S.
Inomura, Keisuke
author2_role author
author
author
author
dc.subject.none.fl_str_mv Cicles biogeoquímics
Microbiologia marina
Biogeochemical cycles
Marine microbiology
topic Cicles biogeoquímics
Microbiologia marina
Biogeochemical cycles
Marine microbiology
description The‘black boxes’ of ecological stoichiometry, planktonic microbes, have longbeen recognized to have considerable effects on global biogeochemical cycles.Signi cant progress has been made in studying these effects and expanding ourunderstanding of microbial stoichiometry. However, the‘black box’ has not beencompletely cracked open; there remain gaps in our knowledge of the fate ofelements within the phytoplankton cell, and the effect of external processes onnutrient uxes through their metabolism and into macromolecules and biomass -the eponymous‘gray box’. In this review paper, we describe the development of anintegrative modeling approach that involves a stoichiometrically explicit model ofMacromolecular Allocation and Genome-scale Metabolic Analysis (MAGMA) togain insights into the intra- and extracellular fluxes of nutrients using thecyanobacterium <em>Parasynechococcus marenigrum</em> WH8102 as a target modelorganism. We then describe an example of the genome-scale resources for P.marenigrum that can be used to build such an integrated modeling tool to seethrough the gray box of phytoplankton stoichiometry and improve ourunderstanding of the effects of resource supplies and other environmentaldrivers, especially temperature, on C:N:P demand, acquisition, and allocation atthe cellular level.
publishDate 2024
dc.date.none.fl_str_mv 2024
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv https://hdl.handle.net/2445/229496
url https://hdl.handle.net/2445/229496
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv Reproducció del document publicat a: https://doi.org/https://doi.org/10.3389/fevo.2024.1505025
Frontiers In Ecology And Evolution, 2024, vol. 12, num.150525
https://doi.org/https://doi.org/10.3389/fevo.2024.1505025
dc.rights.none.fl_str_mv cc-by (c) Jones, C. et al., 2024
http://creativecommons.org/licenses/by/4.0/
info:eu-repo/semantics/openAccess
rights_invalid_str_mv cc-by (c) Jones, C. et al., 2024
http://creativecommons.org/licenses/by/4.0/
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv Frontiers Media
publisher.none.fl_str_mv Frontiers Media
dc.source.none.fl_str_mv Articles publicats en revistes (Biologia Evolutiva, Ecologia i Ciències Ambientals)
reponame:Dipòsit Digital de la UB
instname:Universidad de Barcelona
instname_str Universidad de Barcelona
reponame_str Dipòsit Digital de la UB
collection Dipòsit Digital de la UB
repository.name.fl_str_mv
repository.mail.fl_str_mv
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