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A microbiological survey of handwashing sinks in the hospital built environment reveals differences in patient room and healthcare personnel sinks
Handwashing sinks and their associated premise plumbing are an ideal environment for pathogen-harboring biofilms to grow and spread throughout facilities due to the connected system of wastewater plumbing. This study was designed to understand the distribution of pathogens and antibiotic resistant organisms (ARO) within and among handwashing sinks in healthcare settings, using culture-dependent methods to quantify Pseudomonas aeruginosa, opportunistic pathogens capable of growth on a cefotaxime-containing medium (OPP-C), and carbapenem-resistant Enterobacteriaceae (CRE). Isolates from each medium identified as P. aeruginosa or Enterobacteriaceae were tested for susceptibility to aztreonam, ceftazidime, and meropenem; Enterobacteriaceae were also tested against ertapenem and cefotaxime. Isolates exhibiting resistance or intermediate resistance were designated ARO. Pathogens were quantified at different locations within handwashing sinks and compared in quantity and distribution between healthcare personnel (HCP) and patient room (PR) sinks. ARO were compared between samples within a sink (biofilm vs planktonic samples) and between sink types (HCP vs. PR). The drain cover was identified as a reservoir within multiple sinks that was often colonized by pathogens despite daily sink cleaning. P. aeruginosa and OPP-C mean log 10 CFU/cm 2 counts were higher in p-trap and tail pipe biofilm samples from HCP compared to PR sinks (2.77 ± 2.39 vs. 1.23 ± 1.62 and 5.27 ± 1.10 vs. 4.74 ± 1.06) for P. aeruginosa and OPP-C, respectively. P. aeruginosa and OPP-C mean log 10 CFU/ml counts were also higher (p < 0.05) in HCP compared to PR sinks p-trap water (2.21 ± 1.52 vs. 0.89 ± 1.44 and 3.87 ± 0.78 vs. 3.21 ± 1.11) for P. aeruginosa and OPP-C, respectively. However, a greater percentage of ARO were recovered from PR sinks compared to HCP sinks (p < 0.05) for Enterobacteriaceae (76.4 vs. 32.9%) and P. aeruginosa (25.6 vs. 0.3%). This study supports previous work citing that handwashing sinks are reservoirs for pathogens and ARO and identifies differences in pathogen and ARO quantities between HCP and PR sinks, despite the interconnected premise plumbing.
Modulation of polar auxin transport identifies the molecular determinants of source–sink carbon relationships and sink strength in poplar
Abstract Source-to-sink carbon (C) allocation driven by the sink strength, i.e., the ability of a sink organ to import C, plays a central role in tissue growth and biomass productivity. However, molecular drivers of sink strength have not been thoroughly characterized in trees. Auxin, as a major plant phytohormone, regulates the mobilization of photoassimilates in source tissues and elevates the translocation of carbohydrates toward sink organs, including roots. In this study, we used an ‘auxin-stimulated carbon sink’ approach to understand the molecular processes involved in the long-distance source–sink C allocation in poplar. Poplar cuttings were foliar sprayed with polar auxin transport modulators, including auxin enhancers (AE) (i.e., IBA and IAA) and auxin inhibitor (AI) (i.e., NPA), followed by a comprehensive analysis of leaf, stem and root tissues using biomass evaluation, phenotyping, C isotope labeling, metabolomics and transcriptomics approaches. Auxin modulators altered root dry weight and branching pattern, and AE increased photosynthetically fixed C allocation from leaf to root tissues. The transcriptome analysis identified highly expressed genes in root tissue under AE condition including transcripts encoding polygalacturonase and β-amylase that could increase the sink size and activity. Metabolic analyses showed a shift in overall metabolism including an altered relative abundance levels of galactinol, and an opposite trend in citrate levels in root tissue under AE and AI conditions. In conclusion, we postulate a model suggesting that the source–sink C relationships in poplar could be fueled by mobile sugar alcohols, starch metabolism-derived sugars and TCA-cycle intermediates as key molecular drivers of sink strength.
Global land carbon sink response to temperature and precipitation varies with ENSO phase
Climate variability associated with the El Niño-Southern Oscillation (ENSO) and its consequent impacts on land carbon sink interannual variability have been used as a basis for investigating carbon cycle responses to climate variability more broadly, and to inform the sensitivity of the tropical carbon budget to climate change. Past studies have presented opposing views about whether temperature or precipitation is the primary factor driving the response of the land carbon sink to ENSO. We show that the dominant driver varies with ENSO phase. And whereas tropical temperature explains sink dynamics following El Niño conditions (r TG,P = 0.59, p < 0.01), the post La Niña sink is driven largely by tropical precipitation (r PG,T= -0.46, p = 0.04). This finding points to an ENSO-phase-dependent interplay between water availability and temperature in controlling the carbon uptake response to climate variations in tropical ecosystems. Furthermore, we find that none of a suite of ten contemporary terrestrial biosphere models captures these ENSO-phase-dependent responses, highlighting a key uncertainty in modeling climate impacts on the future of the global land carbon sink.
Atomistic study of grain boundary sink strength under prolonged electron irradiation
Grain boundaries (GBs) are sinks and sources of point defects, which are produced in large number under radiation damage. As grain size decreases, many of the point defects sink into GBs. It is unknown whether GBs will saturate as sinks of point defects, particularly when grain size is at the nanoscale. Using a combination of molecular dynamics (MD) simulations and rate theory for BCC Mo, the authors show that large-angle GBs do not saturate as sinks of point defects. The MD simulations serve to provide direct measurement of defect evolution, and the rate theory serves to test whether grain boundary sink strength is a constant and to extend the MD results to realistic defect production rates.
Regulation of assimilate import into sink organs: update on molecular drivers of sink strength
Recent developments have altered our view of molecular mechanisms that determine sink strength, defined here as the capacity of non-photosynthetic structures to compete for import of photoassimilates. We review new findings from diverse systems, including stems, seeds, flowers, and fruits. An important advance has been the identification of new transporters and facilitators with major roles in the accumulation and equilibration of sugars at a cellular level. Exactly where each exerts its effect varies among systems. Sugarcane and sweet sorghum stems, for example, both accumulate high levels of sucrose, but may do so via different paths. The distinction is central to strategies for targeted manipulation of sink strength using transporter genes, and shows the importance of system-specific analyses. Another major advance has been the identification of deep hypoxia as a feature of normal grain development. This means that molecular drivers of sink strength in endosperm operate in very low oxygen levels, and under metabolic conditions quite different than previously assumed. Successful enhancement of sink strength has nonetheless been achieved in grains by up-regulating genes for starch biosynthesis. Additionally, our understanding of sink strength is enhanced by awareness of the dual roles played by invertases (INVs), not only in sucrose metabolism, but also in production of the hexose sugar signals that regulate cell cycle and cell division programs. These contributions of INV to cell expansion and division prove to be vital for establishment of young sinks ranging from flowers to fruit. Since INV genes are themselves sugar-responsive “feast genes,” they can mediate a feed-forward enhancement of sink strength when assimilates are abundant. Greater overall productivity and yield have thus been attained in key instances, indicating that even broader enhancements may be achievable as we discover the detailed molecular mechanisms that drive sink strength in diverse systems.
Increased Photochemical Efficiency in Cyanobacteria via an Engineered Sucrose Sink
In plants, a limited capacity to In plants, a limited capacity to utilize or export the end-products of the Calvin–Benson cycle (CB) from photosynthetically active source cells to non-photosynthetic sink cells can result in reduced carbon capture and photosynthetic electron transport (PET), and lowered photochemical efficiency. The down-regulation of photosynthesis caused by reduced capacity to utilize photosynthate has been termed ‘sink limitation’. Recently, several cyanobacterial and algal strains engineered to overproduce target metabolites have exhibited increased photochemistry, suggesting that possible source–sink regulatory mechanisms may be involved. Here, we directly examined photochemical properties following induction of a heterologous sucrose ‘sink’ in the unicellular cyanobacterium Synechococcus elongatus PCC 7942. We show that total photochemistry increases proportionally to the experimentally controlled rate of sucrose export. Importantly, the quantum yield of PSII (ΦII) increases in response to sucrose export while the PET chain becomes more oxidized from less PSI acceptor-side limitation, suggesting increased CB activity and a decrease in sink limitation. Enhanced photosynthetic activity and linear electron flow are detectable within hours of induction of the heterologous sink and are independent of pigmentation alterations or the ionic/osmotic effects of the induction system. These observations provide direct evidence that secretion of heterologous carbon bioproducts can be used as an alternative approach to improve photosynthetic efficiency, presumably by by-passing sink limitation. Our results also suggest that engineered microalgal production strains are valuable alternative models for examining photosynthetic sink limitation because they enable greater control and monitoring of metabolite fluxes relative to plants.
Carbon source-sink limitations differ between two species with contrasting growth strategies: Source-sink limitations vary with growth strategy
When we understand how carbon source and sink strengths limit plant growth we realized how critical the knowledge gap is in hindering efforts to maximize crop yield. Here, we investigated how differences in growth rate arise from source–sink limitations, using a model system comparing a fast-growing domesticated annual barley (Hordeum vulgare cv. NFC Tipple) with a slow-growing wild perennial relative (Hordeum bulbosum). Source strength was manipulated by growing plants at sub-ambient and elevated CO 2 concentrations ([CO 2 ]). Limitations on vegetative growth imposed by source and sink were diagnosed by measuring relative growth rate, developmental plasticity, photosynthesis and major carbon and nitrogen metabolite pools. Growth was sink limited in the annual but source limited in the perennial. RGR and carbon acquisition were higher in the annual, but photosynthesis responded weakly to elevated [CO 2 ] indicating that source strength was near maximal at current [CO 2 ]. In contrast, photosynthetic rate and sink development responded strongly to elevated [CO 2 ] in the perennial, indicating significant source limitation. Sink limitation was avoided in the perennial by high sink plasticity: a marked increase in tillering and root:shoot ratio at elevated [CO 2 ], and lower non-structural carbohydrate accumulation. Finally, by alleviating sink limitation during vegetative development could be important for maximizing growth of elite cereals under future elevated [CO 2 ].
Capillary spreading of contact line over a sinking sphere
The contact line dynamics over a sinking solid sphere are investigated in comparison with classical spreading theories. Experimentally, high-speed imaging systems with optical light or x-ray illumination are employed to accurately measure the spreading motion and dynamic contact angle of the contact line. Millimetric spheres are controlled to descend with a constant speed ranging from 3.2 x 10 4 to 0.79 m/s. We observed three different spreading stages over a sinking sphere, which depends on the contact line velocity and contact angle. These stages consistently showed the characteristics of capillarity-driven spreading as the contact line spreads faster with a higher contact angle. The contact line velocity is observed to follow a classical capillary-viscous model at a higher Ohnesorge number (> 0.02). For the cases with a relatively low Ohnesorge number (< 0.02), the contact line velocity is significantly lower than the speed predicted by the capillary-viscous balance. This indicates the existence of an additional opposing force (inertia), which is a similar transition from capillary viscous to capillary-inertia balances found in drop-impact dynamics. Additionally, we observed the linear relation between the contact line velocity and the sphere sinking speed during the second stage, in which the contact line inertia is balanced with the impact pressure by a sphere at high inertia regimes.
Defect sink characteristics of specific grain boundary types in 304 stainless steels under high dose neutron environments
Radiation induced segregation (RIS) is a well-studied phenomena which occurs in many structurally relevant nuclear materials including austenitic stainless steels. RIS occurs due to solute atoms preferentially coupling to mobile point defect fluxes that migrate and interact with defect sinks. Here, a 304 stainless steel was neutron irradiated up to 47.1 dpa at 320 °C. Investigations into the RIS response at specific grain boundary types were utilized to determine the sink characteristics of different boundary types as a function of irradiation dose. A rate theory model built on the foundation of the modified inverse Kirkendall (MIK) model is proposed and benchmarked to the experimental results. This model, termed the GiMIK model, includes alterations in the boundary conditions based on grain boundary structure and includes expressions for interstitial binding. This investigation, through experiment and modeling, found specific grain boundary structures exhibit unique defect sink characteristics depending on their local structure. Such interactions were found to be consistent across all doses investigated and had larger global implications including precipitation of Ni-Si clusters near different grain boundary types.
Field-experiment constraints on the enhancement of the terrestrial carbon sink by CO2 fertilization
How much elevated atmospheric CO2 concentration (eCO2) contributes to the terrestrial carbon sink (NEP) is a debated issue (Friedlingstein et al., 1995; Field & Raupach, 2004; Schimel et al., 2015; Keenan et al., 2016; Huntzinger et al., 2017). The results from Free-Air CO2-Enrichment (FACE) experiments at the site scale show that eCO2 generally increase plant growth and net ecosystem CO2 uptake for a few years after exposure to eCO2, but the effects were highly variable across sites (Jastrow et al., 2005; De Graaff et al., 2006), which poses a challenge for scaling up these local observations. Here, we extract the simulated short-term responses of NEP to eCO2 from global carbon models using a substitute pulse-response approach, and compare them with site-scale responses from FACE experiments in temperate ecosystems. In 12 gridded terrestrial ecosystem models examined, the large-scale NEP sensitivity to eCO2 across the Northern Hemisphere (NH) temperate region is linearly related to the site-scale sensitivity across different ecosystems. We use this emergent relationship, together with the observed response to eCO2 in the FACE site-scale data to estimate a data constrained effect of eCO2 on the NH temperate NEP of 0.73 ± 0.22 Pg C yr-1 per hundred parts per million (ppm) of CO2 increase during the past five decades. This is 26% higher than the mean of the model ensemble. Among the models, those with carbon-nitrogen interactions underestimate the sensitivity of NEP to eCO2, suggesting overly strong nitrogen-limitations on carbon uptake. We further identify that the NEP sensitivity to eCO2 at NH temperate scale is linearly correlated with that at global scale across the models. Extrapolating the constrained NH eCO2 effect to the global terrestrial carbon sink provides an estimate of 4.1 ± 1.5 Pg C yr-1 [100 ppm]-1. Large uncertainties remain regarding the global response broadly inferred from temperate FACE data, due to the lack of observations in boreal and tropical regions, emphasizing the importance of deploying new FACE experiments in those regions.
Cross-biome synthesis of source versus sink limits to tree growth
Uncertainties surrounding tree carbon allocation to growth are a major limitation to projections of forest carbon sequestration and response to climate change. The prevalence and extent to which carbon assimilation (source) or cambial activity (sink) mediate wood production are fundamentally important and remain elusive. We quantified source-sink relations across biomes by combining eddy-covariance gross primary production with extensive on-site and regional tree ring observations. We found widespread temporal decoupling between carbon assimilation and tree growth, underpinned by contrasting climatic sensitivities of these two processes. Substantial differences in assimilation-growth decoupling between angiosperms and gymnosperms were determined, as well as stronger decoupling with canopy closure, aridity, and decreasing temperatures. Our results reveal pervasive sink control over tree growth that is likely to be increasingly prominent under global climate change.
A substantial role of soil erosion in the land carbon sink and its future changes
Realistic representation of land carbon sink in climate models is vital for predicting carbon climate feedbacks in a changing world. Although soil erosion that removes land organic carbon has increased substantially since the onset of agriculture, it is rarely included in the current generation of climate models. Using an Earth system model with soil erosion represented, we estimated that on average soil erosion displaces 5% of newly fixed land organic carbon downslope annually in the continental US. In the lower Mississippi river basin and the Cascades, the fraction can be as large as 40%. About 12% of the eroded organic carbon is eventually exported to inland waters, which is equal to 14% of the simulated net carbon gain by terrestrial ecosystems. By comparing the eroded organic carbon export to rivers with the particulate organic carbon export to oceans, we demonstrated that a large fraction of the carbon export to rivers could have been mineralized in inland waters. Importantly, with a direct comparison of eroded and exported soil organic carbon and land net carbon uptake, we found that Earth system models that ignore soil erosion likely offset the erosional carbon loss by increasing heterotrophic respiration implicitly. But as soil erosion and heterotrophic respiration respond differently to a warming climate, this unrealistic compensation would lead to biased predictions of future land carbon sink.
North America carbon dioxide sources and sinks: magnitude, attribution, and uncertainty
North America is both a source and sink of atmospheric CO2. Sources, predominately fossil-fuel combustion in the United States along with contributions from deforestation in Mexico, add CO2 to the atmosphere. Most North America ecosystems, particularly regrowing forests in the United States, are sinks for atmospheric CO2. CO2 is removed from the atmosphere in photosynthesis, converted into biomass and stored as carbon in vegetation, soil and wood products. Fossil-fuel emissions dominate the North American source-sink balance. North America is a net source of atmospheric CO2 with ecosystem sinks balancing approximately 35% of fossil-fuel CO2 emissions from North America.
Hydrogenation of organic matter as a terminal electron sink sustains high CO 2 :CH 4 production ratios during anaerobic decomposition
Once inorganic electron acceptors are depleted, organic matter in anoxic environments decomposes by hydrolysis, fermentation, and methanogenesis, requiring syntrophic interactions between microorganisms to achieve energetic favorability. In this classic anaerobic food chain, methanogenesis represents the terminal electron accepting (TEA) process, ultimately producing equimolar CO2 and CH4 for each molecule of organic matter degraded. However, CO2:CH4 production in Sphagnum-derived, mineral-poor, cellulosic peat often substantially exceeds this 1:1 ratio, even in the absence of measureable inorganic TEAs. Since the oxidation state of C in both cellulose-derived organic matter and acetate is 0, and CO2 has an oxidation state of +4, if CH4 (oxidation state -4) is not produced in equal ratio, then some other compound(s) must balance CO2 production by receiving 4 electrons. Here we present evidence for ubiquitous hydrogenation of diverse unsaturated compounds that appear to serve as organic TEAs in peat, thereby providing the necessary electron balance to sustain CO2:CH4 >1. While organic electron acceptors have previously been proposed to drive microbial respiration of organic matter through the reversible reduction of quinone moieties, the hydrogenation mechanism that we propose, by contrast, reduces C-C double bonds in organic matter thereby serving as 1) a terminal electron sink, 2) a mechanism for degrading complex unsaturated organic molecules, 3) a potential mechanism to regenerate electron-accepting quinones, and, in some cases, 4) a means to alleviate the toxicity of unsaturated aromatic acids. This mechanism for CO2 generation without concomitant CH4 production has the potential to regulate the global warming potential of peatlands by elevating CO2:CH4 production ratios.
Lignin depolymerization by fungal secretomes and a microbial sink
In Nature, powerful oxidative enzymes secreted by white rot fungi and some bacteria catalyze lignin depolymerization and some microbes are able to catabolize the resulting aromatic compounds as carbon and energy sources. Taken together, these two processes offer a potential route for microbial valorization of lignin. However, many challenges remain in realizing this concept, including that oxidative enzymes responsible for lignin depolymerization also catalyze polymerization of low molecular weight (LMW) lignin. Here, multiple basidiomycete secretomes were screened for ligninolytic enzyme activities in the presence of a residual lignin solid stream from a corn stover biorefinery, dubbed DMR-EH (Deacetylation, Mechanical Refining, and Enzymatic Hydrolysis) lignin. Two selected fungal secretomes, with high levels of laccases and peroxidases, were utilized for DMR-EH lignin depolymerization assays. The secretome from Pleurotus eryngii, which exhibited the highest laccase activity, reduced the lignin average molecular weight by 63% and 75% at pH 7 compared to the Mw of the control treated at the same conditions and the initial DMR-EH lignin, respectively, and was applied in further depolymerization assays as a function of time. As repolymerization was observed after 3 days of incubation, an aromatic-catabolic microbe (Pseudomonas putida KT2440) was incubated with the fungal secretome and DMR-EH lignin. These experiments demonstrated that the presence of the bacterium enhances lignin depolymerization, likely due to bacterial catabolism of LMW lignin, which may partially prevent repolymerization. In addition, proteomics was also applied to the P. eryngii secretome to identify the enzymes present in the fungal cocktail utilized for the depolymerization assays, which highlighted a significant number of glucose/ methanol/choline (GMC) oxidoreductases and laccases. Overall, this study demonstrates that ligninolytic enzymes can be used to partially depolymerize a solid, high lignin content biorefinery stream and that the presence of an aromatic-catabolic bacterium as a “microbial sink” improves the extent of enzymatic lignin depolymerization.