A metabolic modeling platform for the computation of microbial ecosystems in time and space (COMETS)

I Dukovski, D Bajić, JM Chacón, M Quintin, JCC Vila… - Nature protocols, 2021 - nature.com
Genome-scale stoichiometric modeling of metabolism has become a standard systems
biology tool for modeling cellular physiology and growth. Extensions of this approach are …

[HTML][HTML] Ediacara biota flourished in oligotrophic and bacterially dominated marine environments across Baltica

K Pehr, GD Love, A Kuznetsov, V Podkovyrov… - Nature …, 2018 - nature.com
Abstract Middle-to-late Ediacaran (575–541 Ma) marine sedimentary rocks record the first
appearance of macroscopic, multicellular body fossils, yet little is known about the …

[HTML][HTML] Quantitative Proteomics Reveals Common and Specific Responses of a Marine Diatom Thalassiosira pseudonana to Different Macronutrient Deficiencies

XH Chen, YY Li, H Zhang, JL Liu, ZX Xie, L Lin… - Frontiers in …, 2018 - frontiersin.org
Macronutrients such as nitrogen (N), phosphorus (P), and silicon (Si) are essential for the
productivity and distribution of diatoms in the ocean. Responses of diatoms to a particular …

[HTML][HTML] Elucidation of trophic interactions in an unusual single-cell nitrogen-fixing symbiosis using metabolic modeling

D Sarkar, M Landa, A Bandyopadhyay… - PLoS computational …, 2021 - journals.plos.org
Marine nitrogen-fixing microorganisms are an important source of fixed nitrogen in oceanic
ecosystems. The colonial cyanobacterium Trichodesmium and diatom symbionts were …

Adaptation to a limiting element involves mitigation of multiple elemental imbalances

PD Jeyasingh, RE Sherman… - Journal of the …, 2023 - royalsocietypublishing.org
About 20 elements underlie biology and thus constrain biomass production. Recent systems-
level observations indicate that altered supply of one element impacts the processing of …

Phosphorus availability regulates intracellular nucleotides in marine eukaryotic phytoplankton

EB Kujawinski, K Longnecker… - Limnology and …, 2017 - Wiley Online Library
Marine eukaryotic phytoplankton adapt to low phosphorus (P) in the oceans through a
variety of step‐wise mechanisms including lipid substitution and decreased nucleic acid …

[HTML][HTML] Magnitude and influence of atmospheric phosphorus deposition on the southern Baltic Sea coast over 23 years: implications for coastal waters

M Berthold, R Wulff, V Reiff, U Karsten… - Environmental Sciences …, 2019 - Springer
Background There are various ways for nutrients to enter aquatic ecosystems causing
eutrophication. Phosphorus deposition through precipitation can be one pathway, besides …

[HTML][HTML] Dynamic Allocation of Carbon Storage and Nutrient-Dependent Exudation in a Revised Genome-Scale Model of Prochlorococcus

S Ofaim, S Sulheim, E Almaas, D Sher… - Frontiers in Genetics, 2021 - frontiersin.org
Microbial life in the oceans impacts the entire marine ecosystem, global biogeochemistry
and climate. The marine cyanobacterium Prochlorococcus, an abundant component of this …

The maximum growth rate hypothesis is correct for eukaryotic photosynthetic organisms, but not cyanobacteria

TAV Rees, JA Raven - New Phytologist, 2021 - Wiley Online Library
The (maximum) growth rate (µmax) hypothesis predicts that cellular and tissue phosphorus
(P) concentrations should increase with increasing growth rate, and RNA should also …

[HTML][HTML] Using maximum entropy production to describe microbial biogeochemistry over time and space in a meromictic pond

JJ Vallino, JA Huber - Frontiers in Environmental Science, 2018 - frontiersin.org
Determining how microbial communities organize and function at the ecosystem level is
essential to understanding and predicting how they will respond to environmental change …