Cameron Thrash

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Professor, USC Marine and Environmental Biology, microbe hunter. Not a bot. he/him
Alternative dynamic regimes of marine biogeochemical models in perturbed environments https://bg.copernicus.org/articles/23/2003/2026/
Alternative dynamic regimes of marine biogeochemical models in perturbed environments

Abstract. The existence of alternative dynamic regimes or equilibria has been widely observed in the biosphere and the climate system. In order to assess the potential impacts of climate change and develop effective mitigation and adaptation strategies, a comprehensive knowledge of these alternative regimes is crucial. We studied marine biogeochemical cycles, which are fundamental for sustaining ocean life and for climate regulation, with a state-of-the-art biogeochemical model. We investigated whether the perturbation of the environment (e.g. air temperature, wind velocity, nutrient input) to extreme values can push biogeochemical cycles into a different regime. We have established that alternative regimes exist and that the biogeochemical cycles commonly respond reversibly to the perturbation of the environment, i.e. when the perturbation is removed the original regime is recovered. A single forcing, depletion of nutrients, induced hysteresis in the dynamic regimes associated with changes in the planktonic trophic web, which sustains the biogeochemical cycles. The large number of numerical simulations, with a 1D water-column physical-biogeochemical model, under a vast range of environments and methodologies (sequential simulations, initial condition perturbation and demographic stochasticity) underpins the generality of the results and the sensitivity analysis of the model parameters confirms the accuracy of the model even under extreme environments. The occurrence of alternative dynamic regimes permitted us to identify possible dangerous path of the ocean state under the future climate, such as the hysteretical response under the changes of nutrient influx.

Environmental quality affects the formation of generalist and specialist taxa in microbial communities https://academic.oup.com/ismecommun/advance-article/doi/10.1093/ismeco/ycag057/8526242?rss=1&login=false
Hypoxia increases microbial carbon assimilation of taurine in a seasonally anoxic fjord https://academic.oup.com/ismej/advance-article/doi/10.1093/ismejo/wrag057/8526244?rss=1&login=false
Density-dependent feedback and higher-order interactions enable coexistence in phage-bacteria community dynamics https://academic.oup.com/ismej/advance-article/doi/10.1093/ismejo/wrag041/8526250?rss=1&login=false
MATRIX: Rapid Quantification of Total and Active Microbial Cells with Single Cell Phenotypes for Environmental Microbiomes https://www.biorxiv.org/content/10.64898/2026.03.16.712149v1?rss=1
MATRIX: Rapid Quantification of Total and Active Microbial Cells with Single Cell Phenotypes for Environmental Microbiomes

Quantifying the abundance and activity of bacteria within populations and communities is fundamental to systems microbiology and microbiome research. Yet direct microscopic cell counting remains low-throughput, labor-intensive, and prone to user variability, leading many researchers to rely on indirect proxies such as optical density or multicopy marker-gene quantification. These indirect approaches do not distinguish between active and inactive cells and can obscure ecological interpretation. Here, we introduce MATRIX (Microbial Activity and Total cell quantification via Rapid Imaging and eXtraction), an efficient workflow that integrates sample extraction, fluorescence staining, automated microscopy and image analysis, and Bayesian statistical inference to quantify total and redox-active cells and derive single?cell measurements for environmental microbial populations and communities. We demonstrate its reproducibility and versatility using both cultured isolates and high-diversity soil communities. The resulting quantitative, phenotypic datasets provide rapid, direct measurements of population of community size and activity, enabling well-powered analyses that strengthen mechanistic insight into microbial responses and improve the ecological grounding of microbiome studies.

bioRxiv
Variations in deep-sea microbial composition and assembly mechanisms under different culture strategies https://www.frontiersin.org/journals/microbiology/articles/10.3389/fmicb.2026.1783610/full
Frontiers | Variations in deep-sea microbial composition and assembly mechanisms under different culture strategies

Deep-sea sediments harbor diverse microbial resources with immense biotechnological potential. Cultivating of these microorganisms is essential for studying ...

Frontiers
Exploring the energy landscape of bacterial chromosome segregation https://www.pnas.org/doi/abs/10.1073/pnas.2535321123?af=R
Phosphate scarcity governs methane production in the global open ocean https://www.pnas.org/doi/abs/10.1073/pnas.2521235123?af=R
Characterization of phytoplankton-excreted metabolites mediating carbon flux through the surface ocean https://www.pnas.org/doi/abs/10.1073/pnas.2531765123?af=R
Origin of eukaryotic plasmalogen biosynthesis by horizontal gene transfer from myxobacteria https://www.pnas.org/doi/abs/10.1073/pnas.2529738123?af=R