Development of an analytical method for the determination of more than 300 pesticides and metabolites in the particulate and gaseous phase of ambient air

Pesticides can enter the atmosphere during spraying or after application, resulting in environmental or human exposure. The study describes the optimisation and validation of analytical methods for the determination of more than 300 pesticides in the particulate and gaseous phases of the air. Pesticides were sampled with high-volume air samplers on glass-fibre filters (GFFs) and glass columns filled with polyurethane foam (PUF) and XAD-2 resin. Comparing different extraction methods, a QuEChERS extraction with acetonitrile was selected for the GFFs. For the PUF/XAD-2 columns, a cold-column extraction with dichloromethane was used. Instrumental determination was performed using liquid chromatography/electrospray ionisation-time-of-flight mass spectrometry (LC/ESI-QTOF) and gas chromatography/electron impact ionisation-tandem mass spectrometry (GC/EI-MS/MS). Recovery experiments showed recovery rates between 70 and 120% for 263 compounds on the GFFs and 75 compounds on the PUF/XAD-2 columns. Semi-quantitative determination was performed for 39 compounds on the GFFs and 110 compounds on the PUF/XAD-2 columns. Finally, 27 compounds on the GFFs and 138 compounds on the PUF/XAD-2 columns could be determined only qualitatively. For the determination of the PUF/XAD-2 samples, signal suppression (LC) or signal enhancement (GC) due to matrix effects were determined. Method quantification limits of the optimised methods ranged from 30 to 240 pg/m3 for the target compounds on the GFFs, and from 8 to 60 pg/m3 on the PUF/XAD-2 columns. The applicability of the method was demonstrated by means of environmental air samples from an agricultural area in the Netherlands.

Spent coffee grounds as a suitable alternative to standard soil in ecotoxicological tests

Eisenia andrei is considered in OECD and ISO guidelines to be a suitable replacement for Eisenia fetida in ecotoxicological assays. This suggests that other alternative materials and methods could also be used in standard procedures for toxicity testing. The guidelines also favor using less time-consuming procedures and reducing costs and other limitations to ecotoxicological assessments. In recent years, spent coffee grounds (SCG) have been used to produce vermicompost and biochar and as an additive to organic fertilizers. In addition, the physicochemical characteristics of SCG indicate that the material is a suitable substrate for earthworms, with the organisms performing as well as in natural soil. In the present study, a battery of ecotoxicological tests was established with unwashed and washed SCG and a natural reference soil (LUFA 2.2). The test substrates were spiked with different concentrations of silver nitrate. Survival and reproduction of the earthworm E. andrei were assessed under different conditions, along with substrate basal respiration (SBR) as a proxy for microbial activity. Seedling emergence and the germination index of Lepidium sativum were also determined, following standard guidelines. Exposure to silver nitrate had similar effects on earthworm survival and reproduction, as the estimated effective concentrations (EC10 and EC50) in unwashed SCG and LUFA 2.2 overlapped. A hormetic effect was observed for SBR in LUFA 2.2 spiked with 12.8 mg/kg but not in unwashed SCG. Both SBR and root development were inhibited by similar concentrations of silver nitrate in washed SCG. The findings indicate that unwashed SCG could potentially be used as a substrate in E. andrei toxicity tests and support the eventual inclusion of this material in the standard guidelines.

Chemical Science Research, Elementary School Children and Their Teachers Are More Closely Related than You May Imagine: The "I Bet You Did Not Know" Project

Topics associated with the chemical sciences form a significant part of the curriculum in science at the primary school level in the U.K. In this methodology paper, we demonstrate how a wide range of research articles associated with the chemical sciences can be disseminated to an elementary school audience and how children can carry out investigations associated with cutting-edge research in the classroom. We discuss how the Primary Science Teaching Trust's (PSTT's) "I bet you did not know" (IBYDK) articles and their accompanying Teacher Guides benefit children, primary (elementary) school teachers, and other stakeholders including the researchers themselves. We define three types of research articles; ones describing how children can reproduce the research themselves without much adaptation, others where children can mirror the research using similar methods, and some where an analogy can be used to explain the research. We provide exemplars of each type and some preliminary feedback on articles written.

Legacy and Emerging Plasticizers and Stabilizers in PVC Floorings and Implications for Recycling

Hazardous chemicals in building and construction plastics can lead to health risks due to indoor exposure and may contaminate recycled materials. We systematically sampled new polyvinyl chloride floorings on the Swiss market (n = 151). We performed elemental analysis by X-ray fluorescence, targeted and suspect gas chromatography-mass spectrometry analysis of ortho-phthalates and alternative plasticizers, and bioassay tests for cytotoxicity and oxidative stress, and endocrine, mutagenic, and genotoxic activities (for selected samples). Surprisingly, 16% of the samples contained regulated chemicals above 0.1 wt %, mainly lead and bis(2-ethylhexyl) phthalate (DEHP). Their presence is likely related to the use of recycled PVC in new flooring, highlighting that uncontrolled recycling can delay the phase-out of hazardous chemicals. Besides DEHP, 29% of the samples contained other ortho-phthalates (mainly diisononyl and diisodecyl phthalates, DiNP and DiDP) above 0.1 wt %, and 17% of the samples indicated a potential to cause biological effects. Considering some overlap between these groups, they together make up an additional 35% of the samples of potential concern. Moreover, both suspect screening and bioassay results indicate the presence of additional potentially hazardous substances. Overall, our study highlights the urgent need to accelerate the phase-out of hazardous substances, increase the transparency of chemical compositions in plastics to protect human and ecosystem health, and enable the transition to a safe and sustainable circular economy.

Metabolic engineering of Corynebacterium glutamicum for the production of anthranilate from glucose and xylose

Anthranilate and its derivatives are important basic chemicals for the synthesis of polyurethanes as well as various dyes and food additives. Today, anthranilate is mainly chemically produced from petroleum-derived xylene, but this shikimate pathway intermediate could be also obtained biotechnologically. In this study, Corynebacterium glutamicum was engineered for the microbial production of anthranilate from a carbon source mixture of glucose and xylose. First, a feedback-resistant 3-deoxy-arabinoheptulosonate-7-phosphate synthase from Escherichia coli, catalysing the first step of the shikimate pathway, was functionally introduced into C. glutamicum to enable anthranilate production. Modulation of the translation efficiency of the genes for the shikimate kinase (aroK) and the anthranilate phosphoribosyltransferase (trpD) improved product formation. Deletion of two genes, one for a putative phosphatase (nagD) and one for a quinate/shikimate dehydrogenase (qsuD), abolished by-product formation of glycerol and quinate. However, the introduction of an engineered anthranilate synthase (TrpEG) unresponsive to feedback inhibition by tryptophan had the most pronounced effect on anthranilate production. Component I of this enzyme (TrpE) was engineered using a biosensor-based in vivo screening strategy for identifying variants with increased feedback resistance in a semi-rational library of TrpE muteins. The final strain accumulated up to 5.9 g/L (43 mM) anthranilate in a defined CGXII medium from a mixture of glucose and xylose in bioreactor cultivations. We believe that the constructed C. glutamicum variants are not only limited to anthranilate production but could also be suitable for the synthesis of other biotechnologically interesting shikimate pathway intermediates or any other aromatic compound derived thereof.

Assessing Contamination Profiles in Livers from Road-Killed Owls

Raptors are recognized as valuable sentinel species for monitoring environmental contaminants owing to their foraging behavior across terrestrial and aquatic food webs and their high trophic position. The present study monitored environmental contaminants in livers from road-killed owls to evaluate differences in the exposure patterns due to factors such as species, age, and sex of individuals. Carcasses of road-killed individuals of eagle owl (Bubo bubo), long-eared owl (Asio otus), little owl (Athene noctua), tawny owl (Strix aluco), and barn owl (Tyto alba) were collected in Alentejo (Portugal). Eighty-one organic contaminants were analyzed, including organochlorine pesticides (OCPs), per- and polyfluoroalkyl substances (PFAS), polychlorinated biphenyls (PCBs), polycyclic aromatic hydrocarbons (PAHs), pharmaceuticals, in-use pesticides, and organophosphate esters (OPEs). Overall, 21 contaminants were detected. In all species ∑OCPs were prevalent at concentrations from 3.24 to 4480 ng/g wet weight, followed by perfluorooctane sulfonic acid (PFOS), the only PFASs detected (from 2.88 to 848 ng/g wet wt) and ∑PCBs (1.98-2010 ng/g wet wt); ∑PAHs were ubiquitous but detected at the lowest concentrations (7.35-123 ng/g wet wt). Differences among species were observed according to principal component analysis. Eagle owl and long-eared owl presented the highest levels of ∑OCPs, ∑PCBs, and PFOS, consistent with its higher trophic position, while ∑PAHs prevailed in tawny owl, barn owl, and little owl, related to their frequent use of urban areas for nesting and roadsides for hunting. Adults presented higher concentrations of ∑OCPs and ∑PCBs than juveniles, while no differences were observed for PFOS and ∑PAHs. Pharmaceuticals, in-use pesticides, and OPEs were not detected. Overall, the present study shows specific contamination patterns in five species with similar diet but with differences in habitat preferences. Environ Toxicol Chem 2024;00:1-12. © 2023 The Authors. Environmental Toxicology and Chemistry published by Wiley Periodicals LLC on behalf of SETAC.

Wastewater Treatment for Carbon Dioxide Removal

Wastewater treatment is notorious for its hefty carbon footprint, accounting for 1-2% of global greenhouse gas (GHG) emissions. Nonetheless, the treatment process itself could also present an innovative carbon dioxide removal (CDR) approach. Here, the calcium (Ca)-rich effluent of a phosphorus (P) recovery system from municipal wastewater (P recovered as calcium phosphate) was used for CDR. The effluent was bubbled with concentrated CO2, leading to its mineralization, i.e., CO2 stored as stable carbonate minerals. The chemical and microstructural properties of the newly formed minerals were ascertained by using state-of-the-art analytical techniques. FTIR identified CO3 bonds and carbonate stretching, XRF and SEM-EDX measured a high Ca concentration, and SEM imaging showed that Ca is well distributed, suggesting homogeneous formation. Furthermore, FIB-SEM revealed rhombohedral and needle-like structures and TEM revealed rod-like structures, indicating that calcium carbonate (CaCO3) was formed, while XRD suggested that this material mainly comprises aragonite and calcite. Results imply that high-quality CaCO3 was synthesized, which could be stored or valorized, while if atmospheric air is used for bubbling, a partial direct air capture (DAC) system could be achieved. The quality of the bubbled effluent was also improved, thus creating water reclamation and circular economy opportunities. Results are indicative of other alkaline Ca-rich wastewaters such as effluents or leachates from legacy iron and steel wastes (steel slags) that can possibly be used for CDR. Overall, it was identified that wastewater can be used for carbon mineralization and can greatly reduce the carbon footprint of the treatment process, thus establishing sustainable paradigms for the introduction of CDR in this sector.

ShinyTPs: Curating Transformation Products from Text Mining Results

Transformation product (TP) information is essential to accurately evaluate the hazards compounds pose to human health and the environment. However, information about TPs is often limited, and existing data is often not fully Findable, Accessible, Interoperable, and Reusable (FAIR). FAIRifying existing TP knowledge is a relatively easy path toward improving access to data for identification workflows and for machine-learning-based algorithms. ShinyTPs was developed to curate existing transformation information derived from text-mined data within the PubChem database. The application (available as an R package) visualizes the text-mined chemical names to facilitate the user validation of the automatically extracted reactions. ShinyTPs was applied to a case study using 436 tentatively identified compounds to prioritize TP retrieval. This resulted in the extraction of 645 reactions (associated with 496 compounds), of which 319 were not previously available in PubChem. The curated reactions were added to the PubChem Transformations library, which was used as a TP suspect list for identification of TPs using the open-source workflow patRoon. In total, 72 compounds from the library were tentatively identified, 18% of which were curated using ShinyTPs, showing that the app can help support TP identification in non-target analysis workflows.

Material Requirements of Decent Living Standards

Decent living standards (DLS) provide a framework to estimate a practical threshold for the energy, GHG, and material consumption required to alleviate poverty. Currently, most research has focused on estimating the energy required to provide the DLS. However, no attempt has been made to estimate the material consumption needed to provide the DLS. Thus, we ask the following questions: First, what is the amount of materials in stocks and flows needed to provide a DLS? Second, which lifestyle and technology choices are effective in providing a DLS without creating an excessive demand for additional materials? To provide a DLS, a material footprint (MF) of 6 t/(cap*yr) with a lower and upper bound between 3 and 14 t/(cap*yr) is required. The direct and indirect in-use stocks required are estimated at 32 t/cap and 11 t/cap, respectively. Nutrition (39%) and mobility (26%) contribute the most to total MF. Buildings account for 98% of direct stocks, while the construction sector accounts for 61% of indirect stocks. We extend the coverage of the DLS by including the collective service dimension and link the material stock-flow-service nexus and life cycle assessment to compute the MF and in-use stocks needed to provide the DLS.

The Role of Operating Conditions in the Precipitation of Magnesium Hydroxide Hexagonal Platelets Using NaOH Solutions

Magnesium hydroxide, Mg(OH)2, is an inorganic compound extensively employed in several industrial sectors. Nowadays, it is mostly produced from magnesium-rich minerals. Nevertheless, magnesium-rich solutions, such as natural and industrial brines, could prove to be a great treasure. In this work, synthetic magnesium chloride and sodium hydroxide (NaOH) solutions were used to recover Mg(OH)2 by reactive crystallization. A detailed experimental campaign was conducted aiming at producing grown Mg(OH)2 hexagonal platelets. Experiments were carried out in a stirred tank crystallizer operated in single- and double-feed configurations. In the single-feed configuration, globular and nanoflakes primary particles were obtained, as always reported in the literature when NaOH is used as a precipitant. However, these products are not complying with flame-retardant applications that require large hexagonal Mg(OH)2 platelets. This work suggests an effective precipitation strategy to favor crystal growth while, at the same time, limiting the nucleation mechanism. The double-feed configuration allowed the synthesis of grown Mg(OH)2 hexagonal platelets. The influence of reactant flow rates, reactant concentrations, and reaction temperature was analyzed. Scanning electron microscopy (SEM) pictures were also taken to investigate the morphology of Mg(OH)2 crystals. The proposed precipitation strategy paves the road to satisfy flame-retardant market requirements.

Molecular confirmation of pearl formation in arctic mussels (Mytilus edulis) caused by Gymnophallus bursicola (Odhner 1900) metacercariae

In recent field studies, suspected gymnophallid metacercariae were histologically located in the mantle of mussels from the Norwegian Sea. Mussels from the sites in which that infection was detected also presented abnormally high pearl numbers. It has been previously described that gymnophallid metacercariae could cause pearl formation processes in mussels, as a host reaction to encapsulate these metacercariae. Given the pathological host reaction these parasites elicit, a study was performed to identify gymnophallid metacercariae found in mussels collected from Tromsø at morphological and molecular level and to assess, by the use of molecular tools, the relationship between the parasite and the biological material inside the pearls. As a result, Gymnophallus bursicola metacercariae infecting Norwegian Mytilus edulis were identified according to morphological characters, along with the first 18S rDNA and COI sequences for this trematode species. In addition, parasite DNA from the core of the pearls was extracted and amplified for the first time, confirming the parasitological origin of these pearls. This procedure could allow identifying different parasitic organisms responsible for the generation of pearls in bivalves.

Spatial and Temporal Trends of Persistent Organic Pollutants across Europe after 15 Years of MONET Passive Air Sampling

The Global Monitoring Plan of the Stockholm Convention on Persistent Organic Pollutants (POPs) was established to generate long-term data necessary for evaluating the effectiveness of regulatory measures at a global scale. After 15 years of passive air monitoring (2003-2019), MONET is the first network to produce sufficient data for the analysis of continuous long-term temporal trends of POPs in air across the entire European continent. This study reports long-term concentrations of 20 POPs monitored at 32 sites in 27 European countries. As of January 1, 2019, the concentration ranges (pg/m3) were 1.1-52.8 (∑6PCB), 0.3-8.5 (∑12dl-PCB), 0.007-0.175 (∑17PCDD/F), 0.02-2.2 (∑9PBDE), 0.4-24.7 (BDE 209), 0.5-247 (∑6DDT), 1.7-818 (∑4HCH), 15.8-74.7 (HCB), and 5.9-21.5 (PeCB). Temporal trends indicate that concentrations of most POPs have declined significantly over the past 15 years, with median annual decreases ranging from -8.0 to -11.5% (halving times of 6-8 years) for ∑6PCB, ∑17PCDD/F, HCB, PeCB, and ∑9PBDE. Furthermore, no statistically significant differences were observed in either the trends or the concentrations of specific POPs at sites in Western Europe (WEOG) compared to sites in Central and Eastern Europe (CEE), which suggests relatively uniform compound-specific distribution and removal at the continental scale.

Computational Modeling of Magnesium Hydroxide Precipitation and Kinetics Parameters Identification

Magnesium is a critical raw material and its recovery as Mg(OH)₂ from saltwork brines can be realized via precipitation. The effective design, optimization, and scale-up of such a process require the development of a computational model accounting for the effect of fluid dynamics, homogeneous and heterogeneous nucleation, molecular growth, and aggregation. The unknown kinetics parameters are inferred and validated in this work by using experimental data produced with a T_2mm-mixer and a T_3mm-mixer, guaranteeing fast and efficient mixing. The flow field in the T-mixers is fully characterized by using the k-ε turbulence model implemented in the computational fluid dynamics (CFD) code OpenFOAM. The model is based on a simplified plug flow reactor model, instructed by detailed CFD simulations. It incorporates Bromley's activity coefficient correction and a micro-mixing model for the calculation of the supersaturation ratio. The population balance equation is solved by exploiting the quadrature method of moments, and mass balances are used for updating the reactive ions concentrations, accounting for the precipitated solid. To avoid unphysical results, global constrained optimization is used for kinetics parameters identification, exploiting experimentally measured particle size distribution (PSD). The inferred kinetics set is validated by comparing PSDs at different operative conditions both in the T_2mm-mixer and the T_3mm-mixer. The developed computational model, including the kinetics parameters estimated for the first time in this work, will be used for the design of a prototype for the industrial precipitation of Mg(OH)₂ from saltwork brines in an industrial environment.

Southern ocean carbon and heat impact on climate

The Southern Ocean greatly contributes to the regulation of the global climate by controlling important heat and carbon exchanges between the atmosphere and the ocean. Rates of climate change on decadal timescales are therefore impacted by oceanic processes taking place in the Southern Ocean, yet too little is known about these processes. Limitations come both from the lack of observations in this extreme environment and its inherent sensitivity to intermittent processes at scales that are not well captured in current Earth system models. The Southern Ocean Carbon and Heat Impact on Climate programme was launched to address this knowledge gap, with the overall objective to understand and quantify variability of heat and carbon budgets in the Southern Ocean through an investigation of the key physical processes controlling exchanges between the atmosphere, ocean and sea ice using a combination of observational and modelling approaches. Here, we provide a brief overview of the programme, as well as a summary of some of the scientific progress achieved during its first half. Advances range from new evidence of the importance of specific processes in Southern Ocean ventilation rate (e.g. storm-induced turbulence, sea-ice meltwater fronts, wind-induced gyre circulation, dense shelf water formation and abyssal mixing) to refined descriptions of the physical changes currently ongoing in the Southern Ocean and of their link with global climate. This article is part of a discussion meeting issue 'Heat and carbon uptake in the Southern Ocean: the state of the art and future priorities'.

Local hydrophobicity allows high-performance electrochemical carbon monoxide reduction to C2+ products

While CO can already be produced at industrially relevant current densities via CO₂ electrolysis, the selective formation of C₂₊ products seems challenging. CO electrolysis, in principle, can overcome this barrier, hence forming valuable chemicals from CO₂ in two steps. Here we demonstrate that a mass-produced, commercially available polymeric pore sealer can be used as a catalyst binder, ensuring high rate and selective CO reduction. We achieved above 70% faradaic efficiency for C₂₊ products formation at j = 500 mA cm^-2 current density. As no specific interaction between the polymer and the CO reactant was found, we attribute the stable and selective operation of the electrolyzer cell to the controlled wetting of the catalyst layer due to the homogeneous polymer coating on the catalyst particles' surface. These results indicate that sophistically designed surface modifiers are not necessarily required for CO electrolysis, but a simpler alternative can in some cases lead to the same reaction rate, selectivity and energy efficiency; hence the capital costs can be significantly decreased.

A stratified compartmental model for the transmission of Sparicotyle chrysophrii (Platyhelminthes: Monogenea) in gilthead seabream (Sparus aurata) fish farms†

The rapid development of intensive fish farming has been associated with the spreading of infectious diseases, pathogens and parasites. One such parasite is Sparicotyle chrysophrii (Platyhelminthes: Monogenea), which commonly infects cultured gilthead seabream (Sparus aurata)-a vital species in Mediterranean aquaculture. The parasite attaches to fish gills and can cause epizootics in sea cages with relevant consequences for fish health and associated economic losses for fish farmers. In this study, a novel stratified compartmental epidemiological model of S. chrysophrii transmission was developed and analysed. The model accounts for the temporal progression of the number of juvenile and adult parasites attached to each fish, as well as the abundance of eggs and oncomiracidia. We applied the model to data collected in a seabream farm, where the fish population and the number of adult parasites attached to fish gills were closely monitored in six different cages for 10 months. The model successfully replicated the temporal dynamics of the distribution of the parasite abundance within fish hosts and simulated the effects of environmental factors, such as water temperature, on the transmission dynamics. The findings highlight the potential of modelling tools for farming management, aiding in the prevention and control of S. chrysophrii infections in Mediterranean aquaculture.

Correlative Light, Electron Microscopy and Raman Spectroscopy Workflow To Detect and Observe Microplastic Interactions with Whole Jellyfish

Many researchers have turned their attention to understanding microplastic interaction with marine fauna. Efforts are being made to monitor exposure pathways and concentrations and to assess the impact such interactions may have. To answer these questions, it is important to select appropriate experimental parameters and analytical protocols. This study focuses on medusae of Cassiopea andromeda jellyfish: a unique benthic jellyfish known to favor (sub-)tropical coastal regions which are potentially exposed to plastic waste from land-based sources. Juvenile medusae were exposed to fluorescent poly(ethylene terephthalate) and polypropylene microplastics (<300 μm), resin embedded, and sectioned before analysis with confocal laser scanning microscopy as well as transmission electron microscopy and Raman spectroscopy. Results show that the fluorescent microplastics were stable enough to be detected with the optimized analytical protocol presented and that their observed interaction with medusae occurs in a manner which is likely driven by the microplastic properties (e.g., density and hydrophobicity).

Optimizing Chemicals Management in the United States and Canada through the Essential-Use Approach

Chemicals have improved the functionality and convenience of industrial and consumer products, but sometimes at the expense of human or ecological health. Existing regulatory systems have proven to be inadequate for assessing and managing the tens of thousands of chemicals in commerce. A different approach is urgently needed to minimize ongoing production, use, and exposures to hazardous chemicals. The premise of the essential-use approach is that chemicals of concern should be used only in cases in which their function in specific products is necessary for health, safety, or the functioning of society and when feasible alternatives are unavailable. To optimize the essential-use approach for broader implementation in the United States and Canada, we recommend that governments and businesses (1) identify chemicals of concern for essentiality assessments based on a broad range of hazard traits, going beyond toxicity; (2) expedite decision-making by avoiding unnecessary assessments and strategically asking up to three questions to determine whether the use of the chemical in the product is essential; (3) apply the essential-use approach as early as possible in the process of developing and assessing chemicals; and (4) engage diverse experts in identifying chemical uses and functions, assessing alternatives, and making essentiality determinations and share such information broadly. If optimized and expanded into regulatory systems in the United States and Canada, other policymaking bodies, and businesses, the essential-use approach can improve chemicals management and shift the market toward safer chemistries that benefit human and ecological health.

Fuzzy clustering for the within-season estimation of cotton phenology

Crop phenology is crucial information for crop yield estimation and agricultural management. Traditionally, phenology has been observed from the ground; however Earth observation, weather and soil data have been used to capture the physiological growth of crops. In this work, we propose a new approach for the within-season phenology estimation for cotton at the field level. For this, we exploit a variety of Earth observation vegetation indices (derived from Sentinel-2) and numerical simulations of atmospheric and soil parameters. Our method is unsupervised to address the ever-present problem of sparse and scarce ground truth data that makes most supervised alternatives impractical in real-world scenarios. We applied fuzzy c-means clustering to identify the principal phenological stages of cotton and then used the cluster membership weights to further predict the transitional phases between adjacent stages. In order to evaluate our models, we collected 1,285 crop growth ground observations in Orchomenos, Greece. We introduced a new collection protocol, assigning up to two phenology labels that represent the primary and secondary growth stage in the field and thus indicate when stages are transitioning. Our model was tested against a baseline model that allowed to isolate the random agreement and evaluate its true competence. The results showed that our model considerably outperforms the baseline one, which is promising considering the unsupervised nature of the approach. The limitations and the relevant future work are thoroughly discussed. The ground observations are formatted in an ready-to-use dataset and will be available at https://github.com/Agri-Hub/cotton-phenology-dataset upon publication.

Integrating a Chemicals Perspective into the Global Plastic Treaty

Driven by the growing concern about plastic pollution, countries have agreed to establish a global plastic treaty addressing the full life cycle of plastics. However, while plastics are complex materials consisting of mixtures of chemicals such as additives, processing aids, and nonintentionally added substances, it is at risk that the chemical aspects of plastics may be overlooked in the forthcoming treaty. This is highly concerning because a large variety of over 10,000 chemical substances may have been used in plastic production, and many of them are known to be hazardous to human health and the environment. In this Global Perspective, we further highlight an additional, generally overlooked, but critical aspect that many chemicals in plastics hamper the technological solutions envisioned to solve some of the major plastic issues: mechanical recycling, waste-to-energy, chemical recycling, biobased plastics, biodegradable plastics, and durable plastics. Building on existing success stories, we outline three concrete recommendations on how the chemical aspects can be integrated into the global plastic treaty to ensure its effectiveness: (1) reducing the complexity of chemicals in plastics, (2) ensuring the transparency of chemicals in plastics, and (3) aligning the right incentives for a systematic transition.

Assessing the Persistence and Mobility of Organic Substances to Protect Freshwater Resources

Persistent and mobile organic substances are those with the highest propensity to be widely distributed in groundwater and thereby, when emitted at low-levels, to contaminate drinking water extraction points and freshwater environments. To prevent such contamination, the European Commission is in the process of introducing new hazard classes for persistent, mobile, and toxic (PMT) and very persistent and very mobile (vPvM) substances within its key chemical regulations CLP and REACH. The assessment of persistence in these regulations will likely be based on simulated half-life, t _1/2, thresholds; the assessment of mobility will likely be based on organic carbon-water distribution coefficient, K _OC, thresholds. This study reviews the use of t _1/2 and K _OC to describe persistence and mobility, considering the theory, history, suitability, data limitations, estimation methods, and alternative parameters. For this purpose, t _1/2, K _OC, and alternative parameters were compiled for substances registered under REACH, known transformation products, and substances detected in wastewater treatment plant effluent, surface water, bank filtrate, groundwater, raw water, and drinking water. Experimental t _1/2 values were rare and only available for 2.2% of the 14 203 unique chemicals identified. K _OC data were only available for a fifth of the substances. Therefore, the usage of alternative screening parameters was investigated to predict t _1/2 and K _OC values, to assist weight-of-evidence based PMT/vPvM hazard assessments. Even when considering screening parameters, for 41% of substances, PMT/vPvM assessments could not be made due to data gaps; for 23% of substances, PMT/vPvM assessments were ambiguous. Further effort is needed to close these substantial data gaps. However, when data is available, the use of t _1/2 and K _OC is considered fit-for-purpose for defining PMT/vPvM thresholds. Using currently discussed threshold values, between 1.9 and 2.6% of REACH registered substances were identified as PMT/vPvM. Among the REACH registered substances detected in drinking water sources, 24-30% were PMT/vPvM substances.

Real-Time Source Apportionment of Organic Aerosols in Three European Cities

97% of the urban population in the EU in 2019 were exposed to an annual fine particulate matter level higher than the World Health Organization (WHO) guidelines (5 μg/m³). Organic aerosol (OA) is one of the major air pollutants, and the knowledge of its sources is crucial for designing cost-effective mitigation strategies. Positive matrix factorization (PMF) on aerosol mass spectrometer (AMS) or aerosol chemical speciation monitor (ACSM) data is the most common method for source apportionment (SA) analysis on ambient OA. However, conventional PMF requires extensive human labor, preventing the implementation of SA for routine monitoring applications. This study proposes the source finder real-time (SoFi RT, Datalystica Ltd.) approach for efficient retrieval of OA sources. The results generated by SoFi RT agree remarkably well with the conventional rolling PMF results regarding factor profiles, time series, diurnal patterns, and yearly relative contributions of OA factor on three year-long ACSM data sets collected in Athens, Paris, and Zurich. Although the initialization of SoFi RT requires a priori knowledge of OA sources (i.e., the approximate number of factors and relevant factor profiles) for the sampling site, this technique minimizes user interactions. Eventually, it could provide up-to-date trustable information on timescales useful to policymakers and air quality modelers.

Women's preference to apply shared decision-making in breast cancer screening: a discrete choice experiment

OBJECTIVE

To analyse women's stated preferences for establishing the relative importance of each attribute of shared decision-making (SDM) and their willingness to pay (WTP) for more participatory care in breast cancer screening programmes (BCSP).

DESIGN

A discrete choice experiment was designed with 12 questions (choice tasks). It included three attributes: 'How the information is obtained', regarding benefits and harms; whether there is a 'Dialogue for scheduled mammography' between the healthcare professional and the woman; and, 'Who makes the decision', regarding participation in BCSP. Data were obtained using a survey that included 12 choice tasks, 1 question on WTP and 7 socioeconomic-related questions. The analysis was performed using conditional mixed-effect logit regression and stratification according to WTP.

SETTING

Data collection related to BCSP was conducted between June and November 2021 in Catalonia, Spain.

PARTICIPANTS

Sixty-five women aged between 50 and 60.

MAIN OUTCOME MEASURES

Women's perceived utility of each attribute, trade-off on these attributes and WTP for SDM in BCSP.

RESULT

The only significant attribute was 'Who makes the decision'. The decision made alone (coefficient=2.879; 95% CI=2.297 to 3.461) and the decision made together with a healthcare professional (2.375; 95% CI=1.573 to 3.177) were the options preferred by women. The former contributes 21% more utility than the latter. Moreover, 52.3% of the women stated a WTP of €10 or more for SDM. Women's preferences regarding attributes did not influence their WTP.

CONCLUSIONS

The participant women refused a current paternalistic model and preferred either SDM or informed decision-making in BCSP.

Insights into first-principles characterization of the monoclinic VO2(B) polymorph via DFT + U calculation: electronic, magnetic and optical properties

We have studied the structural, electronic, magnetic, and optical properties of the VO₂(B) polymorph using first-principles calculations based on density functional theory (DFT). This polymorph was found to display four optimized structures namely VO₂(B)_PP, VO₂(B)_LP, VO₂(B)_PPD, and VO₂(B)_LPD using the generalized gradient approximation (GGA) PBE exchange-correlation functional by including/excluding van der Waals interaction. Our derivation provides a theoretical justification for adding an on-site Coulomb U value in the conventional DFT calculations to allow a direct comparison of the two methods. We predicted a zero bandgap of the VO₂(B) structure based on GGA/PBE. However, by GGA/PBE + U, we found accurate bandgap values of 0.76, 0.66, and 0.70 eV for VO₂(B)_PP, VO₂(B)_LP, and VO₂(B)_PPD, respectively. The results obtained from DFT + U were accompanied by a structural transition from the metallic to semiconductor property. Here, we verified the non-magnetic characteristic of the monoclinic VO₂(B) phase with some available experimental and theoretical data. However, the debate on the magnetic property of this polymorph remains unresolved. Imaginary and real parts of the dielectric function, as computed with the GGA/PBE functional and the GGA/PBE + U functional, were also reported. The first absorption peaks of all considered geometries in the imaginary part of the dielectric constants indicated that the VO₂(B) structure could perfectly absorb infrared light. The computed static dielectric constants with positive values, as derived from the optical properties, confirmed the conductivity of this material. Among the four proposed geometries of VO₂(B) in this study, the outcomes obtained by VO₂(B)_PPD reveal good results owing to the excellent consistency of its bandgap, magnetic and optical properties with other experimental and theoretical observations. The theoretical framework in our study will provide useful insight for future practical applications of the VO₂(B) polymorph in electronics and optoelectronics.

Exploring the Limits of Polyhydroxyalkanoate Production by Municipal Activated Sludge

Municipal activated sludge can be used for polyhydroxyalkanoate (PHA) production, when supplied with volatile fatty acids. In this work, standardized PHA accumulation assays were performed with different activated sludge to determine (1) the maximum biomass PHA content, (2) the degree of enrichment (or volume-to-volume ratio of PHA-accumulating bacteria with respect to the total biomass), and (3) the average PHA content in the PHA-storing biomass fraction. The maximum attained biomass PHA content with different activated sludge ranged from 0.18 to 0.42 gPHA/gVSS, and the degree of enrichment ranged from 0.16 to 0.51 volume/volume. The average PHA content within the PHA-accumulating biomass fraction was relatively constant and independent of activated sludge source, with an average value of 0.58 ± 0.07 gPHA/gVSS. The degree of enrichment for PHA-accumulating bacteria was identified as the key factor to maximize PHA content when municipal activated sludge is directly used for PHA accumulation. Future optimization should focus on obtaining a higher degree of enrichment of PHA-accumulating biomass, either through selection during wastewater treatment or by selective growth during PHA accumulation. A PHA content in the order of 0.6 g PHA/g VSS is a realistic target to be achieved when using municipal activated sludge for PHA production.

Enhanced Light Absorption and Radiative Forcing by Black Carbon Agglomerates

The climate models of the Intergovernmental Panel on Climate Change list black carbon (BC) as an important contributor to global warming based on its radiative forcing (RF) impact. Examining closely these models, it becomes apparent that they might underpredict significantly the direct RF for BC, largely due to their assumed spherical BC morphology. Specifically, the light absorption and direct RF of BC agglomerates are enhanced by light scattering between their constituent primary particles as determined by the Rayleigh-Debye-Gans theory interfaced with discrete dipole approximation and recent relations for the refractive index and lensing effect. The light absorption of BC is enhanced by about 20% by the multiple light scattering between BC primary particles regardless of the compactness of their agglomerates. The resulting light absorption agrees very well with the observed absorption aerosol optical depth of BC. ECHAM-HAM simulations accounting for the realistic BC morphology and its coatings reveal high direct RF = 3-5 W/m² in East, South Asia, sub-Sahara, western Africa, and the Arabian peninsula. These results are in agreement with satellite and AERONET observations of RF and indicate a regional climate warming contribution by 0.75-1.25 °C, solely due to BC emissions.

Spectrophotometric Measurement of Carbonate Ion in Seawater over a Decade: Dealing with Inconsistencies

The spectrophotometric methodology for carbonate ion determination in seawater was first published in 2008 and has been continuously evolving in terms of reagents and formulations. Although being fast, relatively simple, affordable, and potentially easy to implement in different platforms and facilities for discrete and autonomous observations, its use is not widespread in the ocean acidification community. This study uses a merged overdetermined CO₂ system data set (carbonate ion, pH, and alkalinity) obtained from 2009 to 2020 to assess the differences among the five current approaches of the methodology through an internal consistency analysis and discussing the sources of uncertainty. Overall, the results show that none of the approaches meet the climate goal (± 1 % standard uncertainty) for ocean acidification studies for the whole carbonate ion content range in this study but usually fulfill the weather goal (± 10 % standard uncertainty). The inconsistencies observed among approaches compromise the consistency of data sets among regions and through time, highlighting the need for a validated standard operating procedure for spectrophotometric carbonate ion measurements as already available for the other measurable CO₂ variables.

Dissolution Rate of Nanomaterials Determined by Ions and Particle Size under Lysosomal Conditions: Contributions to Standardization of Simulant Fluids and Analytical Methods

Dissolution of inhaled engineered nanomaterials (ENM) under physiological conditions is essential to predict the clearance of the ENM from the lungs and to assess their biodurability and the potential effects of released ions. Alveolar macrophage (AM) lysosomes contain a pH 4.5 saline brine with enzymes and other components. Different types of artificial phagolysosomal simulant fluids (PSFs) have been developed for dissolution testing, but the consequence of using different media is not known. In this study, we tested to which extent six fundamentally different PSFs affected the ENM dissolution kinetics and particle size as determined by a validated transmission electron microscopy (TEM) image analysis. Three lysosomal simulant media were consistent with each other and with in vivo clearance. These media predict the quick dissolution of ZnO, the partial dissolution of SiO2, and the very slow dissolution of TiO2. The valid media use either a mix of organic acids (with the total concentration below 0.5 g/L, thereof citric acid below 0.15 g/L) or another organic acid (KH phthalate). For several ENM, including ZnO, BaSO4, and CeO2, all these differences induce only minor modulation of the dissolution rates. Only for TiO2 and SiO2, the interaction with specific organic acids is highly sensitive, probably due to sequestration of the ions, and can lead to wrong predictions when compared to the in vivo behavior. The media that fail on TiO2 and SiO2 dissolution use citric acid at concentrations above 5 g/L (up to 28 g/L). In the present selection of ENM, fluids, and methods, the different lysosomal simulant fluids did not induce changes of particle morphology, except for small changes in SiO2 and BaSO4 particles most likely due to ion dissolution, reprecipitation, and coalescence between neighboring particles. Based on the current evidence, the particle size by TEM analysis is not a sufficiently sensitive analytical method to deduce the rate of ENM dissolution in physiological media. In summary, we recommend the standardization of ENM dissolution testing by one of the three valid lysosomal simulant fluids with determination of the dissolution rate and halftime by the quantification of ions. This recommendation was established for a continuous flow system but may be relevant as well for static (batch) solubility testing.

Methane and the Paris Agreement temperature goals

Meeting the Paris Agreement temperature goal necessitates limiting methane (CH4)-induced warming, in addition to achieving net-zero or (net-negative) carbon dioxide (CO2) emissions. In our model, for the median 1.5°C scenario between 2020 and 2050, CH4 mitigation lowers temperatures by 0.1°C; CO2 increases it by 0.2°C. CO2 emissions continue increasing global mean temperature until net-zero emissions are reached, with potential for lowering temperatures with net-negative emissions. By contrast, reducing CH4 emissions starts to reverse CH4-induced warming within a few decades. These differences are hidden when framing climate mitigation using annual 'CO2-equivalent' emissions, including targets based on aggregated annual emission rates. We show how the different warming responses to CO2 and CH4 emissions can be accurately aggregated to estimate warming by using 'warming-equivalent emissions', which provide a transparent and convenient method to inform policies and measures for mitigation, or demonstrate progress towards a temperature goal. The method presented (GWP*) uses well-established climate science concepts to relate GWP100 to temperature, as a simple proxy for a climate model. The use of warming-equivalent emissions for nationally determined contributions and long-term strategies would enhance the transparency of stocktakes of progress towards a long-term temperature goal, compared to the use of standard equivalence methods. This article is part of a discussion meeting issue 'Rising methane: is warming feeding warming? (part 2)'.

Environmental Performance in the Production and Use of Recovered Fertilizers from Organic Wastes Treated by Anaerobic Digestion vs Synthetic Mineral Fertilizers

Recovered fertilizers (RFs), in the form of digestate and digestate-derived ammonium sulfate, were produced from organic wastes by thermophilic anaerobic digestion (AD) at full scale. RFs were then used for crop production (maize), substituting synthetic mineral fertilizers (SFs). Environmental impacts due to both RF and SF production and use were studied by a life cycle assessment (LCA) approach using, as much as possible, data directly measured at full scale. The functional unit chosen was referred to as the fertilization of 1 ha of maize, as this paper intends to investigate the impacts of the use of RF (Scenario RF) for crop fertilization compared to that of SF (Scenario SF). Scenario RF showed better environmental performances than the system encompassing the production and use of urea and synthetic fertilizers (Scenario SF). In particular, for the Scenario RF, 11 of the 18 categories showed a lower impact than the Scenario SF, and 3 of the categories (ionizing radiation, fossil resource scarcity, and water consumption) showed net negative impacts in Scenario RF, getting the benefits from the credit for renewable energy production by AD. The LCA approach also allowed proposing precautions able to reduce further fertilizer impacts, resulting in total negative impacts in using RF for crop production. Anaerobic digestion represents the key to propose a sustainable approach in producing renewable fertilizers, thanks to both energy production and the modification that occurs to waste during a biological process, leaving a substrate (digestate) with high amending and fertilizing properties.

Holistic Valorization of Hemp through Reductive Catalytic Fractionation

Despite the increased use of hemp fiber, negligible attention has been given to upgrade the hemp hurd, which constitutes up to 70 wt % of the hemp stalk and is currently considered a low-value byproduct. In this work, valorization of hemp hurd was performed by reductive catalytic fractionation (RCF) in the presence of a metal catalyst. We found an unexpectedly high yield of monophenolic compounds (38.3 wt %) corresponding to above 95% of the theoretical maximum yield. The high yield is explained by both a thin cell wall and high S-lignin content. In addition, organosolv pulping was performed to generate a pulp that was bleached to produce dissolving-grade pulp suitable for textile fiber production (viscosity, 898 mL/g; ISO-brightness, 90.2%) and nanocellulose. Thus, we have demonstrated a novel value chain from a low-value side stream of hemp fiber manufacture that has the potential to increase textile fiber production with 100% yield and also give bio-oil for green chemicals.

The role of soils on pollination and seed dispersal

Ongoing environmental changes are affecting physical, chemical and biological soil components. Evidence of impacts of soil changes on pollinators' and seed dispersers' behaviour, fitness and density is scarce, but growing. Here, we reviewed information on such impacts and on a number of mechanisms that may explain its propagation, taking into account the full range of resources required by the large and diverse number of species of these two important functional groups. We show that while there is substantial evidence on the effects of soil nitrogen enrichment and changes in soil water content on the quality and quantity of floral and fruit resources, little is known on the effects of changes of other soil properties (e.g. soil pH, soil structure, other nutrients). Also, the few studies showing correlations between soil changes and pollinator and seed disperser foraging behaviour or fitness do not clearly identify the mechanisms that explain such correlation. Finally, most studies (including those with nitrogen and water) are local and limited to a small number of species, and it remains unclear how variable such effects are across time and geographical regions, and the strength of interactive effects between soil properties. Increasing research on this topic, taking into consideration how impacts propagate through species interaction networks, will provide essential information to predict impacts of ongoing environmental changes and help guide conservation plans that aim to minimize impacts on ecosystem functioning. This article is part of the theme issue 'The role of soils in delivering Nature's Contributions to People'.

Development and Characterization of Electrospun Biopapers of Poly(3-hydroxybutyrate-co-3-hydroxyvalerate) Derived from Cheese Whey with Varying 3-Hydroxyvalerate Contents

In the present study, three different newly developed copolymers of poly(3-hydroxybutyrate-co-3-hydroxyvalerate) (PHBV) with 20, 40, and 60 mol % contents in 3-hydroxyvalerate (3HV) were produced by the biotechnological process of mixed microbial cultures (MMCs) using cheese whey (CW), a by-product from the dairy industry, as feedstock. The CW-derived PHBV copolyesters were first purified and then processed by solution electrospinning, yielding fibers of approximately 2 μm in cross-section in all cases. The resultant electrospun PHBV mats were, thereafter, post-processed by annealing at different temperatures, below their maximum of melting, selected according to their 3HV content in order to obtain continuous films based on coalesced fibers, so-called biopapers. The resultant PHBV films were characterized in terms of their morphology, crystallinity, and mechanical and barrier properties to assess their potential application in food packaging. The CW-derived PHBV biopapers showed high contact transparency but a slightly yellow color. The fibers of the 20 mol % 3HV copolymer were seen to contain mostly poly(3-hydroxybutyrate) (PHB) crystals, the fibers of the 40 mol % 3HV copolymer a mixture of PHB and poly(3-hydroxyvalerate) (PHV) crystals and lowest crystallinity, and the fibers of the 60 mol % 3HV sample were mostly made of PHV crystals. To understand the interfiber coalesce process undergone by the materials during annealing, the crystalline morphology was also assessed by variable-temperature both combined small-angle and wide-angle X-ray scattering synchrotron and Fourier transform infrared experiments. From these experiments and, different from previously reported biopapers with lower 3HV contents, all samples were inferred to have a surface energy reduction mechanism for interfiber coalescence during annealing, which is thought to be activated by a temperature-induced decrease in molecular order. Due to their reduced crystallinity and molecular order, the CW-derived PHBV biopapers, especially the 40 mol % 3HV sample, were found to be more ductile and tougher. In terms of barrier properties, the three copolymers performed similarly to water and limonene, but to oxygen, the 40 mol % sample showed the highest relative permeability. Overall, the materials developed, which are compatible with the Circular Bioeconomy organic recycling strategy, can have an excellent potential as barrier interlayers or coatings of application interest in food packaging.

Ensuring that offsets and other internationally transferred mitigation outcomes contribute effectively to limiting global warming

Ensuring the environmental integrity of internationally transferred mitigation outcomes, whether through offset arrangements, a market mechanism or non-market approaches, is a priority for the implementation of Article 6 of the Paris Agreement. Any conventional transferred mitigation outcome, such as an offset agreement, that involves exchanging greenhouse gases with different lifetimes can increase global warming on some timescales. We show that a simple 'do no harm' principle regarding the choice of metrics to use in such transactions can be used to guard against this, noting that it may also be applicable in other contexts such as voluntary and compliance carbon markets. We also show that both approximate and exact 'warming equivalent' exchanges are possible, but present challenges of implementation in any conventional market. Warming-equivalent emissions may, however, be useful in formulating warming budgets in a two-basket approach to mitigation and in reporting contributions to warming in the context of the global stocktake.

Permafrost Thaw Increases Methylmercury Formation in Subarctic Fennoscandia

Methylmercury (MeHg) forms in anoxic environments and can bioaccumulate and biomagnify in aquatic food webs to concentrations of concern for human and wildlife health. Mercury (Hg) pollution in the Arctic environment may worsen as these areas warm and Hg, currently locked in permafrost soils, is remobilized. One of the main concerns is the development of Hg methylation hotspots in the terrestrial environment due to thermokarst formation. The extent to which net methylation of Hg is enhanced upon thaw is, however, largely unknown. Here, we have studied the formation of Hg methylation hotspots using existing thaw gradients at five Fennoscandian permafrost peatland sites. Total Hg (HgT) and MeHg concentrations were analyzed in 178 soil samples from 14 peat cores. We observed 10 times higher concentrations of MeHg and 13 times higher %MeHg in the collapse fen (representing thawed conditions) as compared to the peat plateau (representing frozen conditions). This suggests significantly greater net methylation of Hg when thermokarst wetlands are formed. In addition, we report HgT to soil organic carbon ratios representative of Fennoscandian permafrost peatlands (median and interquartile range of 0.09 ± 0.07 μg HgT g^-1 C) that are of value for future estimates of circumpolar HgT stocks.

Review on the photonic techniques suitable for automatic monitoring of the composition of multi-materials wastes in view of their posterior recycling

In the increasingly pressing context of improving recycling, optical technologies present a broad potential to support the adequate sorting of plastics. Nevertheless, the commercially available solutions (for example, employing near-infrared spectroscopy) generally focus on identifying mono-materials of a few selected types which currently have a market-interest as secondary materials. Current progress in photonic sciences together with advanced data analysis, such as artificial intelligence, enable bridging practical challenges previously not feasible, for example in terms of classifying more complex materials. In the present paper, the different techniques are initially reviewed based on their main characteristics. Then, based on academic literature, their suitability for monitoring the composition of multi-materials, such as different types of multi-layered packaging and fibre-reinforced polymer composites as well as black plastics used in the motor vehicle industry, is discussed. Finally, some commercial systems with applications in those sectors are also presented. This review mainly focuses on the materials identification step (taking place after waste collection and before sorting and reprocessing) but in outlook, further insights on sorting are given as well as future prospects which can contribute to increasing the circularity of the plastic composites' value chains.

5-CQA and Mangiferin, Two Leaf Biomarkers of Adaptation to Full Sun or Shade Conditions in Coffea arabica L

Phenolic compounds are involved in plant response to environmental conditions and are highly present in leaves of Coffea arabica L., originally an understory shrub. To increase knowledge of C. arabica leaf phenolic compounds and their patterns in adaptation to light intensity, mature leaves of Ethiopian wild accessions, American pure lines and their relative F1 hybrids were sampled in full sun or under 50% shade field plots in Mexico and at two contrasting elevations in Nicaragua and Colombia. Twenty-one phenolic compounds were identified by LC-DAD-MS2 and sixteen were quantified by HPLC-DAD. Four of them appeared to be involved in C. arabica response to light intensity. They were consistently more accumulated in full sun, presenting a stable ratio of leaf content in the sun vs. shade for all the studied genotypes: 1.6 for 5-CQA, F-dihex and mangiferin and 2.8 for rutin. Moreover, 5-CQA and mangiferin contents, in full sun and shade, allowed for differentiating the two genetic groups of Ethiopian wild accessions (higher contents) vs. cultivated American pure lines. They appear, therefore, to be potential biomarkers of adaptation of C. arabica to light intensity for breeding programs. We hypothesize that low 5-CQA and mangiferin leaf contents should be searched for adaptation to full-sun cropping systems and high contents used for agroforestry systems.

Comparative genomic analysis of Flavobacteriaceae: insights into carbohydrate metabolism, gliding motility and secondary metabolite biosynthesis

BACKGROUND

Members of the bacterial family Flavobacteriaceae are widely distributed in the marine environment and often found associated with algae, fish, detritus or marine invertebrates. Yet, little is known about the characteristics that drive their ubiquity in diverse ecological niches. Here, we provide an overview of functional traits common to taxonomically diverse members of the family Flavobacteriaceae from different environmental sources, with a focus on the Marine clade. We include seven newly sequenced marine sponge-derived strains that were also tested for gliding motility and antimicrobial activity.

RESULTS

Comparative genomics revealed that genome similarities appeared to be correlated to 16S rRNA gene- and genome-based phylogeny, while differences were mostly associated with nutrient acquisition, such as carbohydrate metabolism and gliding motility. The high frequency and diversity of genes encoding polymer-degrading enzymes, often arranged in polysaccharide utilization loci (PULs), support the capacity of marine Flavobacteriaceae to utilize diverse carbon sources. Homologs of gliding proteins were widespread among all studied Flavobacteriaceae in contrast to members of other phyla, highlighting the particular presence of this feature within the Bacteroidetes. Notably, not all bacteria predicted to glide formed spreading colonies. Genome mining uncovered a diverse secondary metabolite biosynthesis arsenal of Flavobacteriaceae with high prevalence of gene clusters encoding pathways for the production of antimicrobial, antioxidant and cytotoxic compounds. Antimicrobial activity tests showed, however, that the phenotype differed from the genome-derived predictions for the seven tested strains.

CONCLUSIONS

Our study elucidates the functional repertoire of marine Flavobacteriaceae and highlights the need to combine genomic and experimental data while using the appropriate stimuli to unlock their uncharted metabolic potential.

Cooperation between passive and active silicon transporters clarifies the ecophysiology and evolution of biosilicification in sponges

The biological utilization of dissolved silicon (DSi) influences ocean ecology and biogeochemistry. In the deep sea, hexactinellid sponges are major DSi consumers that remain poorly understood. Their DSi consumption departs from the Michaelis-Menten kinetics of shallow-water demosponges and appears particularly maladapted to incorporating DSi from the modest concentrations typical of the modern ocean. Why did sponges not adapt to the shrinking DSi availability that followed diatom expansion some 100 to 65 million years ago? We propose that sponges incorporate DSi combining passive (aquaglyceroporins) and active (ArsB) transporters, while only active transporters (SITs) operate in diatoms and choanoflagellates. Evolution of greater silicon transport efficiency appears constrained by the additional role of aquaglyceroporins in transporting essential metalloids other than silicon. We discuss the possibility that lower energy costs may have driven replacement of ancestral SITs by less efficient aquaglyceroporins, and discuss the functional implications of conservation of aquaglyceroporin-mediated DSi utilization in vertebrates.

Climate-induced changes in the suitable habitat of cold-water corals and commercially important deep-sea fishes in the North Atlantic

The deep sea plays a critical role in global climate regulation through uptake and storage of heat and carbon dioxide. However, this regulating service causes warming, acidification and deoxygenation of deep waters, leading to decreased food availability at the seafloor. These changes and their projections are likely to affect productivity, biodiversity and distributions of deep-sea fauna, thereby compromising key ecosystem services. Understanding how climate change can lead to shifts in deep-sea species distributions is critically important in developing management measures. We used environmental niche modelling along with the best available species occurrence data and environmental parameters to model habitat suitability for key cold-water coral and commercially important deep-sea fish species under present-day (1951-2000) environmental conditions and to project changes under severe, high emissions future (2081-2100) climate projections (RCP8.5 scenario) for the North Atlantic Ocean. Our models projected a decrease of 28%-100% in suitable habitat for cold-water corals and a shift in suitable habitat for deep-sea fishes of 2.0°-9.9° towards higher latitudes. The largest reductions in suitable habitat were projected for the scleractinian coral Lophelia pertusa and the octocoral Paragorgia arborea, with declines of at least 79% and 99% respectively. We projected the expansion of suitable habitat by 2100 only for the fishes Helicolenus dactylopterus and Sebastes mentella (20%-30%), mostly through northern latitudinal range expansion. Our results projected limited climate refugia locations in the North Atlantic by 2100 for scleractinian corals (30%-42% of present-day suitable habitat), even smaller refugia locations for the octocorals Acanella arbuscula and Acanthogorgia armata (6%-14%), and almost no refugia for P. arborea. Our results emphasize the need to understand how anticipated climate change will affect the distribution of deep-sea species including commercially important fishes and foundation species, and highlight the importance of identifying and preserving climate refugia for a range of area-based planning and management tools.