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Creators/Authors contains: "Holmes, Christopher"

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  1. Abstract The assembly of host‐associated microbial communities is influenced by multiple factors, but the effect of microbiomes on host phenotypes is often not well understood. To address questions of food‐web effects on host microbiome assembly, we manipulated the resource environment (grass only [G] vs. grass + nutrients [GN]), competition type (intra‐ vs. inter‐specific) and density (high vs. low) forCulex restuans mosquito larvae. We predicted the microbial communities in fourth‐instar larvae would differ between these environmental treatments and that these treatments would translate into differences in the adult phenotype.Resource environment and density influenced the larval microbiome. In addition, the larval microbiome exhibited notable differences compared to the free‐living microbial communities.Resource‐driven differences in the larval samples can be attributed to Arcobacteraceae being more abundant in larvae reared in the GN treatments relative to those reared in the G treatments and Comamonadaceae being more abundant in the G treatment. Although significant, the difference in community structure between density treatments was difficult to discern. This appears to be driven by Weeksellaceae only being abundant in the high‐density, interspecific, GN treatment.Rearing larvae to adulthood under severe food limitation resulted in low survival (<25%) in both resource environments. Approximately 60% of survivors to adulthood were male. Larvae reared in the intraspecific, G treatment had the shortest development time to adulthood and emerged as the smallest adults.These results demonstrate how environmental variation can significantly alter the alpha and beta diversity of free‐living microbes, which in turn can significantly affect host phenotype and critical life history traits, such as development time, size at adulthood, and survival. These findings highlight the importance of considering environmental influences on microbiome diversity to understand and predict host outcomes, offering valuable insights for diverse applications in fields such as ecology, public health, and agriculture. 
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    Free, publicly-accessible full text available July 3, 2025
  2. Brown carbon (BrC) plays an important role in global radiative budget but there have been few studies on BrC in Arctic despite rapid warming and increasing wildfires in this region. Here we investigate the optical properties of BrC from boreal fires in Alaska summer, with two sets of measurements from PILS-LWCC-TOC (Particle-Into-Liquid-Sampler – Liquid-Waveguide Capillary flow-through optical Cell - Total-Organic-Carbon analyzer) and filter measurements. We show that during intense wildfires, the mass absorption coefficient at 365 nm (MAC365) from water soluble organic carbon (WSOC) remained stable at ∼1 m2 g−1. With all plumes sampled and derived transport time, we show a decrease of MAC365 with plume age, with a shorter photobleaching lifetime (∼11 h) at 365 nm compared to 405 nm (∼20 h). The total absorption by organic aerosols measured from filters at 365 nm is higher than the absorption by WSOC by a factor 2–3, suggesting a dominant role of insoluble organic carbon. Overall BrC dominates absorption in the near-ultraviolet and visible radiation during wildfire season in Alaska summer. 
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  3. Abstract. Marine emissions of dimethyl sulfide (DMS) and the subsequent formation of its oxidation products methanesulfonic acid (MSA) and sulfuric acid (H2SO4) are well-known natural precursors of atmospheric aerosols, contributing to particle mass and cloud formation over ocean and coastal regions. Despite a long-recognized and well-studied role in the marine troposphere, DMS oxidation chemistry remains a work in progress within many current air quality and climate models, with recent advances exploring heterogeneous chemistry and uncovering previously unknown intermediate species. With the identification of additional DMS oxidation pathways and intermediate species that influence the eventual fate of DMS, it is important to understand the impact of these pathways on the overall sulfate aerosol budget and aerosol size distribution. In this work, we update and evaluate the DMS oxidation mechanism of the chemical transport model GEOS-Chem by implementing expanded DMS oxidation pathways in the model. These updates include gas- and aqueous-phase reactions, the formation of the intermediates dimethyl sulfoxide (DMSO) and methanesulfinic acid (MSIA), and cloud loss and aerosol uptake of the recently quantified intermediate hydroperoxymethyl thioformate (HPMTF). We find that this updated mechanism collectively decreases the global mean surface-layer gas-phase sulfur dioxide (SO2) mixing ratio by 40 % and enhances the sulfate aerosol (SO42-) mixing ratio by 17 %. We further perform sensitivity analyses exploring the contribution of cloud loss and aerosol uptake of HPMTF to the overall sulfur budget. Comparing modeled concentrations to available observations, we find improved biases relative to previous studies. To quantify the impacts of these chemistry updates on global particle size distributions and the mass concentration, we use the TwO-Moment Aerosol Sectional (TOMAS) aerosol microphysics module coupled to GEOS-Chem and find that changes in particle formation and growth affect the size distribution of aerosol. With this new DMS-oxidation scheme, the global annual mean surface-layer number concentration of particles with diameters smaller than 80 nm decreases by 16.8 %, with cloud loss processes related to HPMTF being mostly responsible for this reduction. However, the global annual mean number of particles larger than 80 nm (corresponding to particles capable of acting as cloud condensation nuclei, CCN) increases by 3.8 %, suggesting that the new scheme promotes seasonal particle growth to these sizes. 
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  4. Abstract. Ground-level ozone (O3) is a major air pollutant that adversely affects human health and ecosystem productivity. Removal of troposphericO3 by plant stomatal uptake can in turn cause damage to plant tissues with ramifications for ecosystem and crop health. In manyatmospheric and land surface models, the functionality of stomata opening is represented by a bulk stomatal conductance, which is oftensemi-empirically parameterized and highly fitted to historical observations. A lack of mechanistic linkage to ecophysiological processes such asphotosynthesis may render models inadequate to represent plant-mediated responses of atmospheric chemistry to long-term changes in CO2,climate, and short-lived air pollutant concentrations. A new ecophysiology module was thus developed to mechanistically simulate land−atmosphereexchange of important gas species in GEOS-Chem, a chemical transport model widely used in atmospheric chemistry studies. The implementation not onlyallows for dry deposition to be coupled with plant ecophysiology but also enables plant and crop productivity and functions to respond dynamically toatmospheric chemical changes. We conduct simulations to evaluate the effects of the ecophysiology module on simulated dry deposition velocity andconcentration of surface O3 against an observation-derived dataset known as SynFlux. Our estimated stomatal conductance and dry depositionvelocity of O3 are close to SynFlux with root-mean-squared errors (RMSEs) below 0.3 cm s−1 across different plant functionaltypes (PFTs), despite an overall positive bias in surface O3 concentration (by up to 16 ppbv). Representing ecophysiology wasfound to reduce the simulated biases in deposition fluxes from the prior model but worsen the positive biases in simulated O3concentrations. The increase in positive concentration biases is mostly attributable to the ecophysiology-based stomatal conductance being generallysmaller (and closer to SynFlux values) than that estimated by the prior semi-empirical formulation, calling for further improvements in non-stomataldepositional and non-depositional processes relevant for O3 simulations. The estimated global O3 deposition flux is864 Tg O3 yr−1 with GEOS-Chem, and the new module decreases this estimate by 92 Tg O3 yr−1. Estimated global grossprimary production (GPP) without O3 damage is 119 Pg C yr−1. O3-induced reduction in GPP is 4.2 Pg C yr−1(3.5 %). An elevated CO2 scenario (580 ppm) yields higher global GPP (+16.8 %) and lower global O3depositional sink (−3.3 %). Global isoprene emission simulated with a photosynthesis-based scheme is 317.9 Tg C yr−1, which is31.2 Tg C yr−1 (−8.9 %) less than that calculated using the MEGAN(Model of Emissions of Gases and Aerosols from Nature) emission algorithm. This new model development dynamicallyrepresents the two-way interactions between vegetation and air pollutants and thus provides a unique capability in evaluating vegetation-mediatedprocesses and feedbacks that can shape atmospheric chemistry and air quality, as well as pollutant impacts on vegetation health, especially for anytimescales shorter than the multidecadal timescale. 
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  5. Abstract. Dry deposition is a key process for surface ozone(O3) removal. Stomatal uptake is a major component of O3 drydeposition, which is parameterized differently in current land surfacemodels and chemical transport models. We developed and used a standaloneterrestrial biosphere model, driven by a unified set of prescribedmeteorology, to evaluate two widely used dry deposition modeling frameworks,Wesely (1989) and Zhang et al. (2003), with different configurations ofstomatal resistance: (1) the default multiplicative method in the Weselyscheme (W89) and Zhang et al. (2003) scheme (Z03), (2) the traditionalphotosynthesis-based Farquhar–Ball–Berry (FBB) stomatal algorithm, and (3) theMedlyn stomatal algorithm (MED) based on optimization theory. We found thatusing the FBB stomatal approach that captures ecophysiological responses toenvironmental factors, especially to water stress, can generally improve thesimulated dry deposition velocities compared with multiplicative schemes.The MED stomatal approach produces higher stomatal conductance than FBB andis likely to overestimate dry deposition velocities for major vegetationtypes, but its performance is greatly improved when spatially varying slopeparameters based on annual mean precipitation are used. Large discrepancieswere also found in stomatal responses to rising CO2 levels from 390to 550 ppm: the multiplicative stomatal method with an empirical CO2response function produces reduction (−35 %) in global stomatalconductance on average much larger than that with the photosynthesis-basedstomatal method (−14 %–19 %). Our results show the potential biases inO3 sink caused by errors in model structure especially in the Weselydry deposition scheme and the importance of using photosynthesis-basedrepresentation of stomatal resistance in dry deposition schemes under achanging climate and rising CO2 concentration. 
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  6. Diseases that are transmitted by mosquitoes are a tremendous health and socioeconomic burden with hundreds of millions of people being impacted by mosquito-borne illnesses annually. Many factors have been implicated and extensively studied in disease transmission dynamics, but knowledge regarding how dehydration impacts mosquito physiology, behavior, and resulting mosquito-borne disease transmission remain underdeveloped. The lapse in understanding on how mosquitoes respond to dehydration stress likely obscures our ability to effectively study mosquito physiology, behavior, and vectorial capabilities. The goal of this review is to develop a profile of factors underlying mosquito biology that are altered by dehydration and the implications that are related to disease transmission. 
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  7. Scientific knowledge has been under attack recently, especially during and from the Trump administration. This article discusses the value of research in social studies of science in relation to scientific practice and post‐truth attacks on science. This literature analyzes the expert work and social values that enter into the production of evidence, the development and testing of methods, and the construction of theoretical and epistemological frames for connecting evidence, methods, and methodologies. Although researchers in this area argue that there are politics in science, this article demonstrates that their analyses of the processes of adjudicating evidence and epistemologies contribute to science. In contrast, post‐truth attacks on scientific expertise exemplify a particular kind of politics aimed at supporting a particular group's political and economic interests. 
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