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Biochar (BC) application to soil suppresses emission of nitrous- (N2O) and nitric oxide (NO), but the mechanisms are unclear. One of the most prominent features of BC is its alkalizing effect in soils, which may affect denitrification and its product stoichiometry directly or indirectly. We conducted laboratory experiments with anoxic slurries of acid Acrisols from Indonesia and Zambia and two contrasting BCs produced locally from rice husk and cacao shell. Dose-dependent responses of denitrification and gaseous products (NO, N2O and N2) were assessed by high-resolution gas kinetics and related to the alkalizing effect of the BCs. To delineate the pH effect from other BC effects, we removed part of the alkalinity by leaching the BCs with water and acid prior to incubation. Uncharred cacao shell and sodium hydroxide (NaOH) were also included in the study. The untreated BCs suppressed N2O and NO and increased N2 production during denitrification, irrespective of the effect on denitrification rate. The extent of N2O and NO suppression was dose-dependent and increased with the alkalizing effect of the two BC types, which was strongest for cacao shell BC. Acid leaching of BC, which decreased its alkalizing effect, reduced or eliminated the ability of BC to suppress N2O and NO net production. Just like untreated BCs, NaOH reduced net production of N2O and NO while increasing that of N2. This confirms the importance of altered soil pH for denitrification product stoichiometry. Addition of uncharred cacao shell stimulated denitrification strongly due to availability of labile carbon but only minor effects on the product stoichiometry of denitrification were found, in accordance with its modest effect on soil pH. Our study indicates that stimulation of denitrification was mainly due to increases in labile carbon whereas change in product stoichiometry was mainly due to a change in soil pH.

The diverse physiology of the brain is reflected in its complex organization at regional, cellular, and subcellular levels. Sjöstedt et al. combined data—both newly acquired and from other large-scale brain mapping projects—from transcriptomics, single-cell genomics, in situ hybridization, and antibody-based protein profiling to map the molecular profiles in human, pig, and mouse brain. The analysis is consistent with a conserved basic brain architecture during mammalian evolution, but it does show differences in regional gene expression profiles. Science , this issue p. eaay5947 The Brain Atlas compares the expression of protein-coding genes in the mammalian brain. The brain, with its diverse physiology and intricate cellular organization, is the most complex organ of the mammalian body. To expand our basic understanding of the neurobiology of the brain and its diseases, we performed a comprehensive molecular dissection of 10 major brain regions and multiple subregions using a variety of transcriptomics methods and antibody-based mapping. This analysis was carried out in the human, pig, and mouse brain to allow the identification of regional expression profiles, as well as to study similarities and differences in expression levels between the three species. The resulting data have been made available in an open-access Brain Atlas resource, part of the Human Protein Atlas, to allow exploration and comparison of the expression of individual protein-coding genes in various parts of the mammalian brain.

Genome-wide analyses are increasingly providing resources for advances in basic and applied biomedical science. Uhlen et al. performed a global expression analysis of human blood cell types and integrated this data with data across all major human tissues and organs in the human protein atlas. This comprehensive compendium allows for classification of all human protein-coding genes with regard to their tissue- and cell-type distribution. Science , this issue p. eaax9198 Genome-wide expression profiles are analyzed across human immune cell populations and all major human tissues and organs. Blood is the predominant source for molecular analyses in humans, both in clinical and research settings. It is the target for many therapeutic strategies, emphasizing the need for comprehensive molecular maps of the cells constituting human blood. In this study, we performed a genome-wide transcriptomic analysis of protein-coding genes in sorted blood immune cell populations to characterize the expression levels of each individual gene across the blood cell types. All data are presented in an interactive, open-access Blood Atlas as part of the Human Protein Atlas and are integrated with expression profiles across all major tissues to provide spatial classification of all protein-coding genes. This allows for a genome-wide exploration of the expression profiles across human immune cell populations and all major human tissues and organs.

Analysis of the pattern of proteins or messenger RNAs (mRNAs) in histological tissue sections is a cornerstone in biomedical research and diagnostics. This typically involves the visualization of a few proteins or expressed genes at a time. We have devised a strategy, which we call \"spatial transcriptomics,\" that allows visualization and quantitative analysis of the transcriptome with spatial resolution in individual tissue sections. By positioning histological sections on arrayed reverse transcription primers with unique positional barcodes, we demonstrate high-quality RNA-sequencing data with maintained two-dimensional positional information from the mouse brain and human breast cancer. Spatial transcriptomics provides quantitative gene expression data and visualization of the distribution of mRNAs within tissue sections and enables novel types of bioinformatics analyses, valuable in research and diagnostics.

The hypothalamus is a brain region rich in functionally segregated neurons. Here Romanov and colleagues use single-cell RNA sequencing to distinguish 62 neuronal subtypes and define their neuropeptide and neurotransmitter makeup. They then show that onecut-3-containing dopamine neurons populate the periventricular area and are wired into the circadian circuitry. The hypothalamus contains the highest diversity of neurons in the brain. Many of these neurons can co-release neurotransmitters and neuropeptides in a use-dependent manner. Investigators have hitherto relied on candidate protein-based tools to correlate behavioral, endocrine and gender traits with hypothalamic neuron identity. Here we map neuronal identities in the hypothalamus by single-cell RNA sequencing. We distinguished 62 neuronal subtypes producing glutamatergic, dopaminergic or GABAergic markers for synaptic neurotransmission and harboring the ability to engage in task-dependent neurotransmitter switching. We identified dopamine neurons that uniquely coexpress the Onecut3 and Nmur2 genes, and placed these in the periventricular nucleus with many synaptic afferents arising from neuromedin S + neurons of the suprachiasmatic nucleus. These neuroendocrine dopamine cells may contribute to the dopaminergic inhibition of prolactin secretion diurnally, as their neuromedin S + inputs originate from neurons expressing Per2 and Per3 and their tyrosine hydroxylase phosphorylation is regulated in a circadian fashion. Overall, our catalog of neuronal subclasses provides new understanding of hypothalamic organization and function.

Heavy clay soils are globally widespread but their poor drainage and poor aeration limit their use for agriculture. This study was designed to test the effect of the amendment of biochar (BC) from woody shrubs on drainage/saturated hydraulic conductivity (Ksat), soil aeration/air capacity, available water capacity and biomass and grain yields of maize. In a field experiment, BC from Gliricidia sepium was applied in planting basins or rip lines at 2.5% and 5% w/w in addition to a control without BC. The maize biomass and grain yields were higher in BC treated plots compared to control (p<0.05) during the 2012 and 2013 seasons. There was no significant difference in the yields between 2.5% and 5% BC treatments (e.g. grain yield were 6.6 and 8.1 t ha-1 in 2012 and 9.3 and 10.3 t ha-1 in 2013 compared to control with 4.2 and 6.7 t ha-1 in 2012 and 2013, respectively). Soil from the same field site was also mixed with a similar woody shrub BC from Eupatorium adenophorum in the laboratory at rates of 2.5%, 5% and 10% BC w/w and a control without BC. The mixtures were then incubated and subjected to two wet-dry cycles for two weeks. Core samples were taken from the incubated soil and tested for bulk density, Ksat and pF measurements. Total porosity and moisture at field capacity and wilting point were 72.3%, 43.7% and 23.7%, respectively, and not affected by BC amendment (p>0.05). In contrast, bulk density decreased linearly by 0.011±0.002 g cm-3 per percent BC added (p<0.001). Ksat and air capacity of the soil were 288 cm day-1 and 30.9%, respectively falling within the generally accepted optimal range. Both Ksat and air capacity followed a significant quadratic relation (p<0.05) upon BC addition, decreasing at low BC doses, reaching a minimum at 3-5% BC and increasing at higher doses. Results allowed a partial attribution of the yield increases to changes in soil physical properties such as changes in bulk density and not clearly to Ksat and air capacity.

Coastal dunes play an important role in coastal defense along sandy shorelines of the world. The majority of the shorelines experience erosion and this erosion is expected to accelerate under anthropogenic climate change and subsequent sea level rise. This paper investigates the impact of climate change, sea level rise and current management for coastal dunes in the Netherlands. Furthermore the paper discusses the implications of climate change projections for adaptation strategies into the future. Recent climate change scenarios for the Netherlands highlight rising temperature and accelerated sea-level rise. Their combined effects on dune-building processes are expected to be manifested through an increase in erosive forces at the expensive of accretive forces. In the Netherlands, a negative sand balance and inland migration of the beach-dune system has been successfully counteracted in the last decades through the application of sand nourishments. These have enhanced accretion on the one hand and limited erosion on the other hand. Generally, coastal protection has improved despite rising sea levels. Important preconditions that make this sand nourishment strategy possible are: a readily available sand resource that makes exploitation technically and economically feasible; a sound monitoring system supported by solid science; political consensus and a good institutional structure to implement the strategy. In the Netherlands, the necessary preconditions are already in place to successfully adapt to sea level rise. Given the expected accelerated rise in sea level and its potential effects on the dune-beach sediment balance, the annual sand nourishment will need to be intensified to ensure the preservation and integrity of the coastal zone.

Illumination of thin liquid-crystal polymer films that contain azobenzene derivatives with short thermal relaxation times induces a continuous wave motion throughout the films, owing to a feedback loop driven by material self-shadowing. Liquid-crystal film makes waves Liquid-crystal networks are cross-linked polymers made from macromolecules that self-organize into liquid-crystal phases. They can be programmed to respond to stimuli such as heat, electric fields and light, converting these stimuli into mechanical work or macroscopic deformation. Here Dirk Broer and colleagues develop azobenzenes with rapid cis -to- trans thermal relaxation times and incorporate them into liquid-crystal networks to generate photoactive polymer films. The films deform upon irradiation, and this deformation results in part of the film being shaded from further irradiation. The rapid relaxation then sets up a feedback loop, yielding continuous oscillating wave motion throughout the film. The authors take advantage of this oscillatory motion to demonstrate rudimentary self-propelled locomotion and a self-cleaning surface. Oscillating materials 1 , 2 , 3 , 4 that adapt their shapes in response to external stimuli are of interest for emerging applications in medicine and robotics. For example, liquid-crystal networks can be programmed to undergo stimulus-induced deformations in various geometries, including in response to light 5 , 6 . Azobenzene molecules are often incorporated into liquid-crystal polymer films to make them photoresponsive 7 , 8 , 9 , 10 , 11 ; however, in most cases only the bending responses of these films have been studied, and relaxation after photo-isomerization is rather slow. Modifying the core or adding substituents to the azobenzene moiety can lead to marked changes in photophysical and photochemical properties 12 , 13 , 14 , 15 , providing an opportunity to circumvent the use of a complex set-up that involves multiple light sources, lenses or mirrors. Here, by incorporating azobenzene derivatives with fast cis -to- trans thermal relaxation into liquid-crystal networks, we generate photoactive polymer films that exhibit continuous, directional, macroscopic mechanical waves under constant light illumination, with a feedback loop that is driven by self-shadowing. We explain the mechanism of wave generation using a theoretical model and numerical simulations, which show good qualitative agreement with our experiments. We also demonstrate the potential application of our photoactive films in light-driven locomotion and self-cleaning surfaces, and anticipate further applications in fields such as photomechanical energy harvesting and miniaturized transport.

Although biochar application to soils has been found to increase soil quality and crop yield, the biochar dispersion extent and its impacts on native soil organic carbon (SOC) has received relatively little attention. Here, the vertical and lateral migration of fine, intermediate and coarse-sized biochar (<0.5, 0.5–1 and 1–5 mm, respectively), applied at low and high doses (1.5–2 and 3–4% w/w, respectively), was tracked using stable isotope methods, along with its impact on native SOC stocks. Biochar was homogeneously mixed into the surface layer (0–7 cm depth) of a loamy sandy Acrisol in Zambia. After 4.5 y, 38–75% of the biochar carbon (BC) was lost from the applied layer and 4–25% was detected in lower soil layers (7–30 cm). Estimating BC mineralization to be no more than 8%, 25–60% was likely transported laterally out of the experimental plots. This conclusion was supported by observations of BC in the control plot and in soils up to 2 m outside of the experimental plots. These processes were likely progressive as recovery of BC in similar plots 1 year after application was greater in both surface and lower soil layers than after 4.5 y. Fine and intermediate-sized BC displayed the greatest downward migration (25.3 and 17.9%, respectively), particularly when applied at lower doses, suggesting its movement through soil inter-particle spaces. At higher dosages, fine and intermediate-sized particles may have clogged pore, so coarse biochar displayed the greatest downward migration when biochar was applied at higher doses. In the BC treatment plot soil profiles, native SOC stocks were reduced by 2.8 to 24.5% (18.4% on average), i.e. positive priming. However, some evidence suggested that the soils may switch to negative priming over time. The dispersion of biochar in soil should be considered when evaluating biochar’s agronomic benefits and environmental effects.

Conservation farming (CF), involving basin tillage, residue retention and crop rotation, combined with biochar may help to mitigate negative impacts of conventional agriculture. In this study, the effects of CF on the amount and quality of soil organic matter (SOM) and potential nitrogen (N) mineralization were investigated in a maize-soya-maize rotation in an Acrisol in Zambia. A large field was run under CF for 7 years and in the subsequent three growing seasons (2015-2018), four management practices were introduced to study effects on soil characteristics and crop yield. We tested i) a continuation of regular CF (CF-NORM) ii) CF without residue retention (CF-NO-RES); iii) Conventional (CONV), with full tillage and removal of residues; and iv) CF with 4 ton ha-1 pigeon pea biochar inside basins and residue retention (CF-BC). The experiment involved the addition of fertilizer only to maize, while soya received none. Soya yield was significantly higher in CF systems than in CONV. Maize yields were not affected by the different management practices probably due to the ample fertilizer addition. CF-NORM had a higher stock of soil organic carbon (SOC), higher N mineralization rates, more hot-water extractable carbon (HWEC; labile SOC) and particulate organic matter (POM) inside basins compared to the surrounding soil (outside basins). Our results suggest that the input of roots inside basins are more effective increasing SOM and N mineralization, than the crop residues that are placed outside basins. CONV reduced both quality and quantity of SOM and N mineralization as compared to CF inside basins. CF-BC increased the amount of SOC as compared with CF-NORM, whereas N mineralization rate and HWEC remained unaffected. The results suggest benefits on yield of CF and none of biochar; larger impact of root biomass on the build-up of SOM than crop residues; and high stability of biochar in soil.