Identification of catalytic residues of a very large NAD-glutamate dehydrogenase from Janthinobacterium lividum by site-directed mutagenesis

We previously found a very large NAD-dependent glutamate dehydrogenase with approximately 170?kDa subunit from Janthinobacterium lividum (Jl-GDH) and predicted that GDH reaction occurred in the central domain of the subunit. To gain further insights into the role of the central domain, several single point mutations were introduced. The enzyme activity was completely lost in all single mutants of R784A, K810A, K820A, D885A, and S1142A. Because, in sequence alignment analysis, these residues corresponded to the residues responsible for glutamate binding in well-known small GDH with approximately 50?kDa subunit, very large GDH and well-known small GDH may share the same catalytic mechanism. In addition, we demonstrated that C1141, one of the three cysteine residues in the central domain, was responsible for the inhibition of enzyme activity by HgCl₂, and HgCl₂ functioned as an activating compound for a C1141T mutant. At low concentrations, moreover, HgCl₂ was found to function as an activating compound for a wild-type Jl-GDH. This suggests that the mechanism for the activation is entirely different from that for the inhibition.     

Effect of glyphosate contaminated feed on rumen fermentation parameters and in sacco degradation of grass hay and corn grain

Four rumen fistulated wethers were used to investigate the effect of glyphosate contaminated feed on rumen fermentation. The rations were based on corn silage, urea and a vitamin-mineral premix, either in the absence or presence of 0.77?g glyphosate per kg DM. Furthermore, rations were fed either with or without aromatic amino acid supplementation. During four periods of 28 days, sheep received each of the four dietary treatments according to a Latin square. After 14 days of adaptation rumen fermentation parameters (pH, ammonia, volatile fatty acids) were measured on day 15 over a five-hour period after the morning feeding. The remaining 13 days served for in sacco degradation studies with grass hay and corn grain. Ammonia (NH₃) and pH of rumen fluid were within the normal range for all dietary treatments (NH₃: 9.1 – 32.3?mmol·l^???1, pH: 6.2 – 6.7). Neither rumen fermentation parameters nor in sacco DM and NDF degradation of incubated feedstuffs were significantly affected by glyphosate, with or without aromatic amino acid supplementation. Kinetic profiles of the in sacco dry matter and NDF degradation of grass hay were almost identical for the dietary treatments.     

Effects of landscape and management on ground‐dwelling insect assemblages of farmland in Jeju Island,Korea

Granite‐derived soils are widespread in the farmland of Korea in general. In contrast, Jeju Island has mainly volcanic ash soils. Soils and weather condition in Jeju Island created a unique agricultural system. We identified the features of ground‐dwelling insects in farmlands of Jeju Island. This study was conducted in four areas (Samdal‐ri and Susan‐ri in Seogwipo city, and Dongmyeong‐ri and Suwon‐ri in Jeju city) in Jeju Island, Korea. Field surveys were carried out twice in summer (June) and autumn (September) in 2013. Ground‐dwelling insects were sampled quantitatively by using pitfall traps. As a result, in total 3322 individuals, 137 species, 48 families and 8 orders were investigated in farmlands of Jeju Island. Especially, members of Coleoptera and Hymenoptera accounted for a large proportion of ground‐dwelling insect communities. The numbers of species and individuals for major taxonomic groups showed significant regional and seasonal differences. This study implied that the seasonal and regional differences of ground‐dwelling insect communities were affected by surrounding land use patterns, life history patterns of each taxonomic group and farmland management.     

Agricultural intensification alters bat assemblage composition and abundance in a dynamic Neotropical landscape

The recent trend of agricultural intensification in tropical landscapes poses a new threat to biodiversity conservation. Conversion of previously heterogeneous agricultural landscapes to intensive plantation agriculture simplifies and homogenizes the landscape, reducing availability, and connectivity of natural habitat for native species. To assess the impact of agricultural intensification on bats, we characterized the bat assemblage in the Sarapiquí region of Costa Rica, where heterogeneous land uses are being converted to intensive, large‐scale pineapple plantations. In 2012 and 2013, we sampled bats in 20 remnant forest patches surrounded by varying proportions of pasture, mature forest, and pineapple and captured 1821 individual bats representing 39 species. We used ordination analyses to evaluate changes in species composition, where pineapple is the main component of the agricultural matrix. We identified landscape metrics specifically correlated with pineapple and used multiple linear regression to test their effects on bat species richness, diversity, and guild‐specific relative abundance. Results suggest pineapple expansion is driving changes in assemblage composition in remnant forest patches, resulting in new assemblages with higher proportions of frugivorous bats and lower proportions of insectivorous bats than in continuous mature forests. In addition, while pineapple does not diminish total bat species richness and diversity, the reduced forest cover and increased distance between forest patches in pineapple plantations has a significant negative impact on the relative abundance of insectivores. We also identify a potential threshold effect whereby patches surrounded by more than 50 percent forest can retain assemblage composition similar to that found in continuous mature forest.     

Organic farming affects the potential of a granivorous carabid beetle to control arable weeds at local and landscape scales

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农林废弃物混配基质的理化性质及其对油茶幼苗生长效应的综合评价

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Methane yield and species diversity dynamics of perennial wild plant mixtures established alone,under cover crop maize (Zea mays L.), and after spring barley (Hordeum vulgare L.)

The cultivation of perennial wild plant mixtures (WPMs) in biogas cropping systems dominated by maize (Zea mays L.) restores numerous ecosystem functions and improves both spatial and temporal agrobiodiversity. In addition, the colorful appearance of WPM can help enhance landscape beauty. However, their methane yield per hectare (MYH) varies greatly and amounts to only about 50% that of maize. This study aimed at decreasing MYH variability and increasing accumulated MYH of WPM by optimizing the establishment method. A field trial was established in southwest Germany in 2014, and is still running. It tested the effects of three WPM establishment procedures (E1: alone [without maize, in May], E2: undersown in cover crop maize [in May], E3: WPM sown after whole‐crop harvest of spring barley [Hordeum vulgare L.] in June) on both MYH and species diversity of two WPMs [S1, S2]). Mono‐cropped maize and cup plant (Silphium perfoliatum L.) were used as reference crops. Of the WPM treatments tested, S2E2 achieved the highest (19,296 , 60.5% of maize) and S1E1 the lowest accumulated MYH (8,156 , 25.6% of maize) in the years 2014–2018. Cup plant yielded slightly higher than S2E2 (19,968 , 62.6% of maize). In 2014, the WPM sown under maize did not significantly affect the cover crop performance. From 2015 onward, E1 and E2 had comparable average annual MYH and average annual number of WPM species. With a similar accumulated MYH but significantly higher number of species (3.5–10.2), WPM S2E2 outperformed cup plant. Overall, the long‐term MYH performance of WPM cultivation for biogas production can be significantly improved by undersowing with maize as cover crop. This improved establishment method could help facilitate the implementation of WPM cultivation for biogas production and thus reduce the trade‐off between bioenergy and biodiversity.     

Global ammonia emissions from synthetic nitrogen fertilizer applications in agricultural systems: Empirical and process‐based estimates and uncertainty

Excessive ammonia (NH₃) emitted from nitrogen (N) fertilizer applications in global croplands plays an important role in atmospheric aerosol production, resulting in visibility reduction and regional haze. However, large uncertainty exists in the estimates of NH₃ emissions from global and regional croplands, which utilize different data and methods. In this study, we have coupled a process‐based Dynamic Land Ecosystem Model (DLEM) with the bidirectional NH₃ exchange module in the Community Multiscale Air‐Quality (CMAQ) model (DLEM‐Bi‐NH₃) to quantify NH₃ emissions at the global and regional scale, and crop‐specific NH₃ emissions globally at a spatial resolution of 0.5° × 0.5° during 1961–2010. Results indicate that global NH₃ emissions from N fertilizer use have increased from 1.9 ± 0.03 to 16.7 ± 0.5 Tg N/year between 1961 and 2010. The annual increase of NH₃ emissions shows large spatial variations across the global land surface. Southern Asia, including China and India, has accounted for more than 50% of total global NH₃ emissions since the 1980s, followed by North America and Europe. Rice cultivation has been the largest contributor to total global NH₃ emissions since the 1990s, followed by corn and wheat. In addition, results show that empirical methods without considering environmental factors (constant emission factor in the IPCC Tier 1 guideline) could underestimate NH₃ emissions in context of climate change, with the highest difference (i.e., 6.9 Tg N/year) occurring in 2010. This study provides a robust estimate on global and regional NH₃ emissions over the past 50 years, which offers a reference for assessing air quality consequences of future nitrogen enrichment as well as nitrogen use efficiency improvement.     

Energy,Nitrogen, and Farm Surplus Transitions in Agriculture from Historical Data Modeling. France, 1882–2013.

This article addresses agricultural metabolism and transitions for energy, nitrogen, farm production, self‐sufficiency, and surplus from historical data since the nineteenth century. It builds on an empirical data set on agricultural production and production means in France covering 130 consecutive years (1882–2013). Agricultural transitions have increased the net production and surplus of farms by a factor of 4 and have zeroed self‐sufficiency. The energy consumption remained quasi‐stable since 1882, but the energy and nitrogen structure of agriculture fully changed. With an EROI (energy return to energy invested) of 2 until 1950, preindustrial agriculture consumed as much energy to function as it provided in exportable surplus to sustain the nonagricultural population. The EROI doubled to 4 over the last 60 years, driven, on the one hand, by efficiency improvements in traction through the replacement of draft animals by motors and, on the other hand, by the joint increase in crop yields and efficiency in nitrogen use. Agricultural energy and nitrogen transitions shifted France from a self‐sufficiency agri‐food‐energy regime to a fossil‐dependent food export regime. Knowledge of resource conversion mechanisms over the long duration highlights the effects of changing agricultural metabolism on the system's feeding capacity. Farm self‐sufficiency is an asset against fossil fuel constraints, price volatility, and greenhouse gas emissions, but it equates to lower farm surplus in support of urbanization.