Anoxia decreases the magnitude of the carbon, nitrogen, and phosphorus sink in freshwaters

Oxygen availability is decreasing in many lakes and reservoirs worldwide, raising the urgency for understanding how anoxia (low oxygen) affects coupled biogeochemical cycling, which has major implications for water quality, food webs, and ecosystem functioning. Although the increasing magnitude and prevalence of anoxia has been documented in freshwaters globally, the challenges of disentangling oxygen and temperature responses have hindered assessment of the effects of anoxia on carbon, nitrogen, and phosphorus concentrations, stoichiometry (chemical ratios), and retention in freshwaters. The consequences of anoxia are likely severe and may be irreversible, necessitating ecosystem-scale experimental investigation of decreasing freshwater oxygen availability. To address this gap, we devised and conducted REDOX (the Reservoir Ecosystem Dynamic Oxygenation eXperiment), an unprecedented, 7-year experiment in which we manipulated and modeled bottom-water (hypolimnetic) oxygen availability at the whole-ecosystem scale in a eutrophic reservoir. Seven years of data reveal that anoxia significantly increased hypolimnetic carbon, nitrogen, and phosphorus concentrations and altered elemental stoichiometry by factors of 2-5× relative to oxic periods. Importantly, prolonged summer anoxia increased nitrogen export from the reservoir by six-fold and changed the reservoir from a net sink to a net source of phosphorus and organic carbon downstream. While low oxygen in freshwaters is thought of as a response to land use and climate change, results from REDOX demonstrate that low oxygen can also be a driver of major changes to freshwater biogeochemical cycling, which may serve as an intensifying feedback that increases anoxia in downstream waterbodies. Consequently, as climate and land use change continue to increase the prevalence of anoxia in lakes and reservoirs globally, it is likely that anoxia will have major effects on freshwater carbon, nitrogen, and phosphorus budgets as well as water quality and ecosystem functioning.

Implications of Foliar Particulate Matter Deposition on the Physiology and Nutrient Allocation of Dominant Perennial Species of the Indo-Gangetic Plains

The ramifications of different concentrations of foliar particulate matter on the physiology, nutrient stoichiometry, allocation pattern, and their corresponding re-translocation rates were investigated for evergreen (Mangifera indica and Psidium guajava), semi-evergreen (Ficus religiosa and Azadirachta indica), and deciduous (Dalbergia sissoo) tree species in a simulation experiment over an exposure period of 2 years. Physiological parameters (P_n, g_s, Ci, E, and WUE), nutrient stoichiometry (C: N) in different plant parts, and their allocation pattern for five macro- (C, N, K, Mg, Ca) and five (Zn, Ni, Mn, Cu, Fe) micro-elements at two different concentrations of particulate matter (ambient and elevated) with respect to control (no particulate load) were assessed. Significant differences in nutrient concentrations and their re-translocation rates were observed between the treatments in evergreen species compared to deciduous species. The photosynthetic rate significantly declined with an increase in foliar deposition of particulate matter. Higher variations in C, N, K, Mg, and Zn levels were found compared to other elements under particulate matter stress and the ratio of C/N showed a slight decline in mature leaves except in deciduous tree species. The nutrient stoichiometry revealed that the deciduous species were more tolerant whereas the re-translocation efficiency was maximum for the semi-evergreen tree species. The nutrient allocation was found greater in foliage compared to branch in evergreen and was opposite in semi-evergreen and deciduous tree species. The element re-translocation rate indicated an inconsistent behavior in nutrient recycling under the particulate matter load depending upon the tree species. The study entrenched a critical change in nutrient re-translocation and allocation pattern under the particulate stress in different parts of the tree, suggesting a novel approach for screening the tree species for sustainable plantation and planning of urban areas.

Carbon, Nitrogen, and Phosphorus Stoichiometry and Plant Growth Strategy as Related to Land-Use in Hangzhou Bay Coastal Wetland, China

Ecological stoichiometry can not only instruct soil nutrient stocks and availability, but also indicated plant growth strategy and adaptability to environmental changes or stress. This study was carried out to examine the plant-soil Carbon (C), Nitrogen (N), and Phosphorus (P) stoichiometry distributions and patterns in three tidal wetlands [mudflat (MF), native Phragmites australis-dominated community wetland (NW), invasive Spartina alterniflora-dominated community wetland (IW)], and one reclaimed P. australis-dominated community wetland (RW) in Hangzhou Bay coastal wetland. The results showed that land-uses have more effect on C and N contents, and C:N and N:P ratios in plant than in soil, P content and C:P ratios more affected by plant organ and soil depth. Compared to land-use, both plant organ and soil depth have stronger effects on C, N, and P stoichiometry. Among tidal wetlands, plant N content and C:P, N:P ratios were significantly higher in NW than in IW. In contrast, plant C, N, and P contents and C:P and N:P ratios were significantly lower in RW, and plant C:N was higher. Soil C, N, and P stocks were similar between tidal wetlands, and were significant higher than those of RW, indicating that reclamation were not beneficial to soil nutrient storage. In the NW, soil N availability was relatively high, and P availability was relatively low; and leaf N:P was 15.33, which means vegetation was co-limited by N and P nutrients. In addition, plants in the NW mainly adopted a conservative growth strategy, with a significantly low aboveground biomass of 1469.35 g·m². In the RW, soil N availability was relatively low, P availability was relatively high, and leaf N:P was 3, which means vegetation was limited by N nutrient. In addition, plants in the RW mainly adopted a rapid growth strategy, with a significantly high aboveground biomass of 3261.70 g·m². In the IW, soil N availability was relatively low, soil P availability was relatively high, and leaf N:P was 5.13, which means vegetation was limited by N nutrient. The growth strategy and aboveground biomass (2293.67 g·m²) of the IW were between those of the NW and RW. Our results provide a reference for nutrient management and evaluating the impacts of land-use types on coastal wetland ecosystems.

Stoichiometric constraints modulate temperature and nutrient effects on biomass distribution and community stability

Temperature and nutrients are two of the most important drivers of global change. Both can modify the elemental composition (i.e. stoichiometry) of primary producers and consumers. Yet their combined effect on the stoichiometry, dynamics and stability of ecological communities remains largely unexplored. To fill this gap, we extended the Rosenzweig-MacArthur consumer-resource model by including thermal dependencies, nutrient dynamics and stoichiometric constraints on both the primary producer and the consumer. We found that stoichiometric and nutrient conservation constraints dampen the paradox of enrichment and increased persistence at high nutrient levels. Nevertheless, stoichiometric constraints also reduced consumer persistence at extreme temperatures. Finally, we also found that stoichiometric constraints and nutrient dynamics can strongly influence biomass distribution across trophic levels by modulating consumer assimilation efficiency and resource growth rates along the environmental gradients. In the Rosenzweig-MacArthur model, consumer biomass exceeded resource biomass for most parameter values whereas, in the stoichiometric model, consumer biomass was strongly reduced and sometimes lower than resource biomass. Our findings highlight the importance of accounting for stoichiometric constraints as they can mediate the temperature and nutrient impact on the dynamics and functioning of ecological communities.

Critical Role of Perovskite Film Stoichiometry in Determining Solar Cell Operational Stability: a Study on the Effects of Volatile A-Cation Additives

Volatile A-cation halide (AX) additives such as formamidinium chloride and methylammonium chloride have been widely employed for high-efficiency perovskite solar cells (PSCs). However, it remains unstudied how they influence the perovskite film stoichiometry and the solar cell performance and operational stability. Hereby, our work shows that over annealing of formamidinium chloride-containing perovskite films leads to a Pb-rich surface, resulting in a high initial efficiency, which however decays during maximum power point tracking (MPPT). On the contrary, perovskite films obtained by a shorter annealing time at the same temperature provide good stability during MPPT but a lower initial efficiency. Thus, we deduce that an optimal annealing is vital for both high efficiency and operational stability, which is then confirmed in the case where methylammonium chloride additive is used. With optimized perovskite annealing conditions, we demonstrate efficient and stable p-i-n PSCs that show a best power conversion efficiency of 20.7% and remain 90% of the initial performance after a 200 h MPPT at 60 °C under simulated 1 sun illumination with high UV content. Our work presents a comprehensive understanding on how volatile AX impacts perovskite film stoichiometry and its correlation to the device performance and operational stability, providing a new guideline for fabricating high-efficiency and operationally stable PSCs.

Leaf N:P ratio does not predict productivity trends across natural terrestrial ecosystems

Nitrogen (N) and phosphorus (P) are crucial nutrients for regulating plant growth. The classic growth rate hypothesis (GRH) proposes that fast-growing organisms have lower N:P ratios, and it is promising to predict net primary productivity (NPP) using the leaf N:P ratio at the community level (N:P_Com ). However, whether leaf N:P ratio can predict NPP in natural ecosystems on a large scale remains nebulous. Here, we systematically calculated leaf N:P_Com (community biomass-weighted mean and species-arithmetic mean) using the consistently measured data of 2,192 plant species-site combinations and productivity (biomass-based aboveground NPP and flux-based NPP) in 66 natural ecosystems in China. Unexpectedly, leaf N:P_Com hardly predicted productivity in natural ecosystems due to their weak correlation, although significantly negative or positive relationships across different ecosystems were observed. The ambiguous relationship between leaf N:P and species dominance reflected a luxury consumption of N and P in turnover and structure in natural communities, unlike what GRH suggests. Climate, soil, and leaf nutrients (rather than N:P) influenced productivity, which highlighted the importance of external environment and nutrient constrains. Our findings pose a major challenge for leaf N:P_Com as a direct parameter in productivity models and further question the direct application of classic hypotheses in short-term experiments or model species to long-term and complex natural ecosystems.

Interacting Bioenergetic and Stoichiometric Controls on Microbial Growth

Microorganisms function as open systems that exchange matter and energy with their surrounding environment. Even though mass (carbon and nutrients) and energy exchanges are tightly linked, there is a lack of integrated approaches that combine these fluxes and explore how they jointly impact microbial growth. Such links are essential to predicting how the growth rate of microorganisms varies, especially when the stoichiometry of carbon- (C) and nitrogen (N)-uptake is not balanced. Here, we present a theoretical framework to quantify the microbial growth rate for conditions of C-, N-, and energy-(co-) limitations. We use this framework to show how the C:N ratio and the degree of reduction of the organic matter (OM), which is also the electron donor, availability of electron acceptors (EAs), and the different sources of N together control the microbial growth rate under C, nutrient, and energy-limited conditions. We show that the growth rate peaks at intermediate values of the degree of reduction of OM under oxic and C-limited conditions, but not under N-limited conditions. Under oxic conditions and with N-poor OM, the growth rate is higher when the inorganic N (N_Inorg)-source is ammonium compared to nitrate due to the additional energetic cost involved in nitrate reduction. Under anoxic conditions, when nitrate is both EA and N_Inorg-source, the growth rates of denitrifiers and microbes performing the dissimilatory nitrate reduction to ammonia (DNRA) are determined by both OM degree of reduction and nitrate-availability. Consistent with the data, DNRA is predicted to foster growth under extreme nitrate-limitation and with a reduced OM, whereas denitrifiers are favored as nitrate becomes more available and in the presence of oxidized OM. Furthermore, the growth rate is reduced when catabolism is coupled to low energy yielding EAs (e.g., sulfate) because of the low carbon use efficiency (CUE). However, the low CUE also decreases the nutrient demand for growth, thereby reducing N-limitation. We conclude that bioenergetics provides a useful conceptual framework for explaining growth rates under different metabolisms and multiple resource-limitations.

Spn1 and its dynamic interactions with Spt6, histones and nucleosomes

Histone chaperones facilitate the assembly and disassembly of nucleosomes and regulate DNA accessibility for critical cellular processes. Spn1 is an essential, highly conserved histone chaperone that functions in transcription initiation and elongation in a chromatin context. Here we demonstrate that Spn1 binds H3-H4 with low nanomolar affinity, residues 85-99 within the acidic N-terminal region of Spn1 are required for H3-H4 binding, and Spn1 binding to H3-H4 dimers does not impede (H3-H4)₂ tetramer formation. Previous work has shown the central region of Spn1 (residues 141-305) is important for interaction with Spt6, another conserved and essential histone chaperone. We show that the C-terminal region of Spn1 also contributes to Spt6 binding and is critical for Spn1 binding to nucleosomes. We also show Spt6 preferentially binds H3-H4 tetramers and Spt6 competes with nucleosomes for Spn1 binding. Combined with previous results, this indicates the Spn1-Spt6 complex does not bind nucleosomes. In contrast to nucleosome binding, we found that the Spn1-Spt6 complex can bind H3-H4 dimers and tetramers and H2A-H2B to form ternary complexes. These important results provide new information about the functions of Spn1, Spt6, and the Spn1-Spt6 complex, two essential and highly conserved histone chaperones.

High dimensionality of stoichiometric niches in soil fauna

The ecological niche is a fundamental concept to understand species coexistence in natural communities. The recently developed framework of the multidimensional stoichiometric niche (MSN) characterizes species niches using chemical elements in living organisms. Despite the fact that living organisms are composed by multiple elements, stoichiometric studies have so far mostly focused on carbon (C), nitrogen (N), and phosphorus (P), and therefore a quantitative analysis of the dimensionality of the MSN in living organisms is still lacking, particularly for animals. Here we quantified ten elements composing the biomass of nine soil animal taxa (958 individuals) from three trophic groups. We found that all ten elements exhibited large variation among taxa, which was partially explained by their phylogeny. Overlaps of MSNs among the nine soil animal taxa were relatively smaller based on ten elements, compared with those based on only C, N, and P. Discriminant analysis using all ten elements successfully differentiated among the nine taxa (accuracy: 90%), whereas that using only C, N, and P resulted in a lower accuracy (60%). Our findings provide new evidence for MSN differentiation in soil fauna and demonstrate the high dimensionality of organismal stoichiometric niches beyond C, N, and P.

Multiple 2D Phase Transformations in Monolayer Transition Metal Chalcogenides

Phase transformation lies at the heart of materials science because it allows for the control of structural phases of solids with desired properties. It has long been a challenge to manipulate phase transformations in crystals at the nanoscale with designed interfaces and compositions. Here in situ electron microscopy is employed to fabricate novel 2D phases with different stoichiometries in monolayer MoS₂ and MoSe₂ . The multiphase transformations: MoS₂  → Mo₄ S₆ and MoSe₂  → Mo₆ Se₆ which are highly localized with atomically sharp boundaries are observed. Their atomic mechanisms are determined as chalcogen 2H ↔ 1T sliding, cation shift, and commensurate lattice reconstructions, resulting in decreasing direct bandgaps and even a semiconductor-metal transition. These results will be a paradigm for the manipulation of multiphase heterostructures with controlled compositions and sharp interfaces, which will guide the future phase engineered electronics and optoelectronics of metal chalcogenides.

Estimating phytoplankton stoichiometry from routinely collected monitoring data

Accurately estimating the elemental stoichiometry of phytoplankton is critical for understanding biogeochemical cycles. In laboratory experiments, stoichiometric ratios vary among species and with changes in environmental conditions. Field observations of total phosphorus (P) and total nitrogen (N) collected at regional and national scales can supplement and expand insights into factors influencing phytoplankton stoichiometry, but analyses applied to these data can introduce biases that affect interpretations of the observed patterns. We introduce an analytical approach for estimating the ratio between phytoplankton N and P from the particulate fraction of nutrient pools in lake samples. We use Bayesian models to represent observations of particulate P and N as the sum of contributions from nutrients bound within phytoplankton and nutrients associated with non-phytoplankton suspended sediment. Application of this approach to particulate nutrient data collected in Missouri impoundments yields estimates of the mass ratio of N:P in phytoplankton ranging from 8-10 across a variety of lakes and seasons. N:P in particulate matter ranged from 6 to 70, a variability driven by differences in nutrients bound to non-phytoplankton suspended sediment. We adapted the Bayesian models to estimate N:P using more commonly available measurements of total P and total N and applied this model to a continental-scale monitoring data set. We compared phytoplankton nutrient content estimated from the two analyses and found that when datasets lack direct measurements of particulate nutrient concentrations, the model estimate of phytoplankton nutrient content includes contributions from nutrients within phytoplankton and dissolved nutrients that are associated with changes in phytoplankton biomass.

From atoms to ecosystems: elementome diversity meets ecosystem functioning

The elemental composition of plants (the elementome) is a reliable indicator of their functional traits and the ecological strategies that they follow, and thus represents a good predictor of how ecosystems work. Biodiversity and, especially, functional diversity are also widely recognized as important drivers of ecosystem functioning, mainly because of niche partitioning amongst different species. Here, I review evidence indicating that plant elementomes relate to their ecological niches and how plant elemental concentrations may shift in response to abiotic and biotic drivers. I propose the use of ecosystem elementome diversity as a universal metric to compare ecosystems and investigate diversity-ecosystem functioning relationships. Future research using this promising novel approach will bring together elementomes, diversity, and ecosystem functioning.

The use of DOSY experiments to determine the solution structures of coinage metal pyrazolates: The case of {[3,5-(CF3 )2 Pz]Ag}3

A series of DOSY experiments have been carried out to determine the solution stoichiometry of silver(I) 3,5-bis (trifluoromethyl)pyrazolate species. This compound exists as a trimer in the solid state (n = 3) but in solutions of chlorinated solvents, the DOSY data suggest the presence of a mixture of solvent stabilized monomer (n = 1) and dimer (n = 2) in equilibrium. Different approximations have been used including the Stokes-Einstein and the Stokes-Einstein-Gierer-Wirtz equations. Some methodological problems are discussed.

[Effects of Plastic Mulch Film on Soil Nutrients and Ecological Enzyme Stoichiometry in Farmland]

Ecological enzyme stoichiometry can be used to evaluate the limit of soil microbial energy and nutrient resources. To illustrate the effects of plastic mulch film on soil ecological enzyme stoichiometry in farmland, this study collected soil with different amounts of mulching film residual and used the fluorescence analysis to determine the activities of key enzymes for the carbon, nitrogen, and phosphorus cycle processes including β-1,4-glycosidase (BG), β-1,4-N-acetyl amino glycosidase (NAG), and phosphatase (ACP) activity. This study investigated the effects of plastic mulch film on soil nutrient cycling and supply in farmland. The results showed that in the soil with chemical fertilizer, plastic film mulching decreased soil Olsen-P and NO₃^--N contents to 48%-62% and 16%-24% of those in the soil without plastic film mulching, respectively. In the soil with the combined application of organic-chemical fertilizers, plastic film mulching increased Olsen-P and NO₃^--N contents by 144%-203% and 1.9-5.1 times, respectively. In the organic-chemical fertilization soils, plastic film mulching decreased SOC:TN in soils by 6.6%-25.8%, whereas it increased SOC:TP and TN:TP significantly. MBC, MBN, and MBP contents in the soil with plastic film mulching were significantly lower than that in non-plastic film mulching farmland, and there were no significant differences in MBC:MBN and MBC:MBP between soil with and without plastic film mulching. The MBN:MBP was reduced by 36.6% and 23.8% in S1 and S2, and 5.4 and 1.3 times in S3 and S4 by plastic film mulching, respectively. The change pattern of NAG:ACP in soil was similar to that of the corresponding elements ratio in microbial biomass. In the soil from plastic film mulching, the ratio of BG:NAG was 1.3-15 times higher in organic-chemical fertilization soils than that with only chemical fertilizer. In conclusion, plastic film mulching reduced the availability of soil nutrients, and organic-chemical fertilization alleviated the limitation of soil nutrients to a certain extent. This study deepened the understanding of the response of soil microorganisms to nutrient cycling after plastic film mulching. It provides a theoretical basis for optimizing the farmland management in the use of plastic film.

Multiple resource limitation of dryland soil microbial carbon cycling on the Colorado Plateau

Understanding interactions among biogeochemical cycles is increasingly important as anthropogenic alterations of global climate and of carbon (C), nitrogen (N), and phosphorus (P) cycles interactively affect the Earth system. Ecosystem processes in the dryland biome, which makes up over 40% of Earth's terrestrial surface, are often distinctively sensitive to small changes in resource availability, likely because levels of many resources are low. However, data also suggest that simultaneous changes in the availability of multiple resources may be necessary to affect a response in these low-resource systems, offering an opportunity to test patterns and controls of co-limitation, serial limitation, and individual limitation in soil environments. While drylands may play a governing role in key aspects of Earth's C cycle, and while an improved understanding of resource limitation could substantially improve our forecasts of dryland responses to change, our understanding of interacting controls on soil C cycle processes remains notably poor in these dry systems. Here, we address multiple fundamental hypotheses of resource controls over ecosystem function to test how water, C, N, and P regulate soil C cycling individually and interactively in a dryland ecosystem on the Colorado Plateau. Using a series of laboratory incubations, we found that while water, C, and N limited C cycling through serial limitation, water alone resulted in an extremely small respiratory response from target organisms, whereas water + C resulted in a dramatic increase in soil C cycling, suggesting a degree of functional co-limitation. Nitrogen additions alone resulted in no changes to soil C cycling, but when N was added in concert with water and C, N greatly increased soil C cycling rates relative to additions of water and C without N. Phosphorus additions had no effect on the C cycle either alone or synergistically. These patterns were consistent with the stoichiometry of the system, and interactions among resources were surprising in ways that inform our understanding of critical theories in ecology, such as the Transient Maxima Hypothesis, supporting the suggestion that multiple resource limitation explains pulse-dynamic C cycling in drylands better than water limitation alone.

Conceptual Exchanges for Understanding Free-Living and Host-Associated Microbiomes

Whether a microbe is free-living or associated with a host from across the tree of life, its existence depends on a limited number of elements and electron donors and acceptors. Yet divergent approaches have been used by investigators from different fields. The "environment first" research tradition emphasizes thermodynamics and biogeochemical principles, including the quantification of redox environments and elemental stoichiometry to identify transformations and thus an underlying microbe. The increasingly common "microbe first" research approach benefits from culturing and/or DNA sequencing methods to first identify a microbe and encoded metabolic functions. Here, the microbe itself serves as an indicator for environmental conditions and transformations. We illustrate the application of both approaches to the study of microbiomes and emphasize how both can reveal the selection of microbial metabolisms across diverse environments, anticipate alterations to microbiomes in host health, and understand the implications of a changing climate for microbial function.

[Functional traits of leaves with different ages of Taxus wallichiana var. chinensis saplings]

Variations of functional traits with leaf age reflect plant life history strategy and indicate allocation pattern and trade-off characteristics in the limiting resource. In this study, leaves with different ages of Taxus wallichiana var. chinensis saplings were taken as experimental materials. Fourteen leaf functional traits of leaves at three differebt ages were measured in order to reveal changes of the saplings' ecological strategies with leaf aging. The results showed that one-year-old leaves had significantly higher specific leaf area than two- and three-year-old lea-ves, while three-year-old leaves had significantly greater leaf thickness, leaf area, volume, fresh weight and dry weight than leaves at other ages. In addition, one-year-old leaves had significantly greater nitrogen content (N), phosphorus content (P) and N:P than two- and three-year-old leaves, but lower C:N than three-old-year leaves. The slope of allometric relationship between leaf water content and dry weight, leaf thickness and leaf area of one-year-old leaves, leaf thickness and leaf area of three-year-old leaves were all significantly lower than 1.0. Two-year-old leaves showed significantly allometric relationships between many leaf traits, with slope being not equal to 1.0. In conclusion, one-year-old leaves of T. wallichiana var. chinensis saplings tended to have higher photosynthetic capacity, two-year-old leaves had stronger dry matter accumulation, and three-year-old leaves would construct defense system. The coordination and complementation of functional traits among leaves with different ages might have great significance for maintaining individual homeostasis and survival.

[C:N:P stoichiometry in plants and soils of Phragmites australis wetland under different water-salt habitats]

We examined the effects of channel diversion of Yellow River on the content and stoichiometry of carbon (C), nitrogen (N) and phosphorus (P) in the organs of reeds (stem, leaf, rhizome and fibrous root) and soils in three typical Phragmites australis communities in the Yellow River Delta, including P. australis community in the former Yellow River course abandoned in 1996, P. australis community on the new Yellow River course and the P. australis communities on the intertidal area (far from the abandoned and current channel but affected by the tides). The results showed that foliar C, N and P contents of P. australis were highest in the communities of abandoned Yellow River course. Leaf N, stem C and rhizome P contents were highest in the communities of new Yellow River course. Leaf N and stem C and P contents were highest in the communities of intertidal area. The average leaf C (409.48 g·kg^-1) and P (1.09 g·kg^-1) contents in the three habitats were lower than national and global average levels, while leaf N content (21.71 g·kg^-1) was higher than that of national and global average levels. The mean leaf N:P (20.22) was higher than 16 and the mean soil N:P (0.87) was lower than 14, indicating that the P. australis growth in the three habitats was limited by P. Correlation analysis showed that EC was one of the main factors affecting C:N:P stoichiometry in P. australis. In general, the C and P reserves in P. australis in the study area were low, and N reserve was high. The soil organic carbon content was low, the soil C reserves were large, while the N and P were relatively scarce.

Mass Spectrometry-Based Structural Proteomics for Metal Ion/Protein Binding Studies

Metal ions are critical for the biological and physiological functions of many proteins. Mass spectrometry (MS)-based structural proteomics is an ever-growing field that has been adopted to study protein and metal ion interactions. Native MS offers information on metal binding and its stoichiometry. Footprinting approaches coupled with MS, including hydrogen/deuterium exchange (HDX), "fast photochemical oxidation of proteins" (FPOP) and targeted amino-acid labeling, identify binding sites and regions undergoing conformational changes. MS-based titration methods, including "protein-ligand interactions by mass spectrometry, titration and HD exchange" (PLIMSTEX) and "ligand titration, fast photochemical oxidation of proteins and mass spectrometry" (LITPOMS), afford binding stoichiometry, binding affinity, and binding order. These MS-based structural proteomics approaches, their applications to answer questions regarding metal ion protein interactions, their limitations, and recent and potential improvements are discussed here. This review serves as a demonstration of the capabilities of these tools and as an introduction to wider applications to solve other questions.

[Effects of Long-term Fertilization on Soil Nutrient Characteristics and Microbial Resource Restrictions in a Terrace on the Loess Plateau]

Long-term fertilization has an important effect on soil fertility and soil microbial activity. In order to explore the effects of long-term fertilization on soil extracellular enzyme activities and nutrient characteristics in a terrace on the Loess Plateau, we based our investigation on the long-term nutrient localization plot of Ansai Soil and Water Conservation Experimental Station, Chinese Academy of Sciences. We measured the soil physicochemical properties, microbial biomass, and extracellular enzyme activities of six fertilization treatments, which included no fertilization (CK); manure and nitrogen fertilization (MN); manure and phosphate fertilization (MP); manure, nitrogen, and phosphate fertilization (MNP); manure (M); and nitrogen and phosphate fertilization (NP). The results showed that all fertilization treatments significantly increased soil nutrient content and soil extracellular enzyme activities compared with that in CK. Correlation analysis showed that extracellular enzyme activity and soil physicochemical properties had an extremely significant correlation. The redundancy analysis indicated that soil nutrient and soil microbial biomass could explain 79.66% and 74.87% of the variation in soil extracellular enzyme activity and its stoichiometric ratio, respectively. Thus, the effects of fertilization on soil fertility were primarily through influencing soil extracellular enzyme activities indirectly. M, MN, MP, and MNP significantly improved soil organic carbon (SOC); soil total nitrogen (STN); and carbon (C), nitrogen (N), and phosphorus (P) source enzyme content; however, MNP changed the soil pH, which had an inhibitory effect on microbial activities. Vector analysis showed that the microbial communities of all treatments were in the condition of P limitation. Although MNP could alleviate the extent of P limitation, there was no significant difference between M and MP. Our study indicated that long-term application of manure[7500 kg·(hm²·a)^-1]could meet the nutrient requirements of dryland crop growth, and long-term application of manure combined with phosphorus fertilization could alleviate the resource constraints faced by microorganisms. Consequently, our results provide a new insight into improving regional nitrogen excess.

[Effects of heterogeneous habitats on the coexistence of aquatic ecotype Alternanthera philoxeroides and Paspalum paspaloides]

Species coexistence depends on the comprehensive effects of biological properties and habitat heterogeneity. Based on a large-scale field survey (21°-35° N), we compared the differences on morphological and stoichiometric characteristics between the invasive aquatic species Alternanthera philoxeroides and the native co-occurring species Paspalum paspaloides, and examined the effects of environmental factors on such differences. The results showed that the coverage and importance value (IV) of A. philoxeroides were all significantly greater than P. paspa-loides (34.3% and 104.0%, respectively), whereas the height of P. paspaloides was significantly greater than A. philoxeroides (13.8%). Moreover, the total nitrogen concentration (TN) and N:P of A. philoxeroides were significantly greater than those of P. paspaloides (55.1% and 55.8%, respectively), whereas the total carbon concentration (TC) and C:N of P. paspaloides were significantly greater than those of A. philoxeroides (4.1% and 83.8%, respectively). A. philoxeroides coverage increased with the increases of longitude, and its abundance increased with the increases of water nitrate concentration and longitude, while its IV increased with the increases of water ammonium concentration. However, the coverage, abundance, and IV of P. paspaloides decreased with the increases of ammonium concentration. C:N of A. philoxeroides decreased with the increase of ammonium concentration. Increased mean annual temperature and mean annual precipitation increased C:N but decreased N:P of P. paspa-loides. The C:P of both species decreased with the increases of ammonium concentration and electrical conductivity. N:P of A. philoxeroides was little affected by environment. These results indicated that A. philoxeroides had greater coverage and N absorption capacity than P. paspaloides, and that enriched water nitrogen would aggravate the invasion of A. philoxeroides. Meanwhile, P. paspaloides improved its C-assimilate reserves and chose the growth competition strategy for resisting A. philoxeroides invasion under the superior hydrothermal conditions. Different responses to environmental changes contributed to their coexistence in aquatic ecosystem.

[Soil properties and microbial respiration activities of riparian forest wetland in the north of permafrost zone, the Great Hing'an Mountains, Northeast China]

Riparian wetlands in permafrost regions are critical regions for hydrological, ecological, and biochemical processes. We studied the soils of riparian and transition wetlands and analyzed physicochemical properties, stoichiometry, and microbial respiration activities (microbial biomass carbon, basal respiration, microbial entropy, and metabolic entropy) of the humus layer and diffe-rent soil layers. The results showed that the main differentiation of soil physical and chemical pro-perties in riparian forest wetlands was below 20 cm. Compared to the wetlands of transition zone, total carbon content, total nitrogen content, C/P and N/P decreased significantly with soil depth in riparian forest wetlands. These changes in soil stoichiometry were mainly caused by soil nitrogen content. Such a result meant that the transferring of nitrogen was relatively fast and that there was nitrogen limitation. The main differentiation of Na, Mg, K and Ca in soil occurred in the 30 cm layer of the transition zone and the 20 cm layer of the riparian forest wetlands. The correlations between soil Mg content and total C, total N, total P contents were significant. It meant that the soil Mg was an important element to riparian wetlands in the Great Hing'an Mountains. Microbial respiration activities of the humus layer in riparian forest wetlands and transition zone were higher than those in the other soil layers, indicating that the content of labile carbon fractions was high. The correlations between soil microbial respiration activities and soil properties, stoichiometry, nutrient elements were different in riparian wetland and transition zone. Soil total nitrogen contents were significantly correlated with soil microbial respiration activities in riparian wetland, indicating that soil microbial respiration activities were limited by nitrogen in riparian wetland of the Great Hing'an Mountains.

Collagen's primary structure determines collagen:HSP47 complex stoichiometry

Collagens play important roles in development and homeostasis in most higher organisms. In order to function, collagens require the specific chaperone HSP47 for proper folding and secretion. HSP47 is known to bind to the collagen triple helix, but the exact positions and numbers of binding sites are not clear. Here, we employed a collagen II peptide library to characterize high-affinity binding sites for HSP47. We show that many previously predicted binding sites have very low affinities due to the presence of a negatively charged amino acid in the binding motif. In contrast, large hydrophobic amino acids such as phenylalanine at certain positions in the collagen sequence increase binding strength. For further characterization, we determined two crystal structures of HSP47 bound to peptides containing phenylalanine or leucine. These structures deviate significantly from previously published ones in which different collagen sequences were used. They reveal local conformational rearrangements of HSP47 at the binding site to accommodate the large hydrophobic side chain from the middle strand of the collagen triple helix and, most surprisingly, possess an altered binding stoichiometry in the form of a 1:1 complex. This altered stoichiometry is explained by steric collisions with the second HSP47 molecule present in all structures determined thus far caused by the newly introduced large hydrophobic residue placed on the trailing strand. This exemplifies the importance of considering all three sites of homotrimeric collagen as independent interaction surfaces and may provide insight into the formation of higher oligomeric complexes at promiscuous collagen-binding sites.

Long noncoding RNA and protein abundance in lncRNPs

Although long noncoding RNAs (lncRNAs) are generally expressed at low levels, emerging evidence has revealed that many play important roles in gene regulation by a variety of mechanisms as they engage with proteins. Given that the abundance of proteins often greatly exceeds that of their interacting lncRNAs, quantification of the relative abundance, or even the exact stoichiometry in some cases, within lncRNA-protein complexes is helpful for understanding of the mechanism(s) of action of lncRNAs. We discuss methods used to examine lncRNA and protein expression at the single cell, subcellular, and suborganelle levels, the average and local lncRNA concentration in cells, as well as how lncRNAs can modulate the functions of their interacting proteins even at a low stoichiometric concentration.