Formation of soil organic carbon pool is regulated by the structure of dissolved organic matter and microbial carbon pump efficacy: A decadal study comparing different carbon management strategies

To achieve long-term increases in soil organic carbon (SOC) storage, it is essential to understand the effects of carbon management strategies on SOC formation pathways, particularly through changes in microbial necromass carbon (MNC) and dissolved organic carbon (DOC). Using a 14-year field study, we demonstrate that both biochar and maize straw lifted the SOC ceiling, but through different pathways. Biochar, while raising SOC and DOC content, decreased substrate degradability by increasing carbon aromaticity. This resulted in suppressed microbial abundance and enzyme activity, which lowered soil respiration, weakened in vivo turnover and ex vivo modification for MNC production (i.e., low microbial carbon pump “efficacy”), and led to lower efficiency in decomposing MNC, ultimately resulting in the net accumulation of SOC and MNC. In contrast, straw incorporation increased the content and decreased the aromaticity of SOC and DOC. The enhanced SOC degradability and soil nutrient content, such as total nitrogen and total phosphorous, stimulated the microbial population and activity, thereby boosting soil respiration and enhancing microbial carbon pump “efficacy” for MNC production. The total C added to biochar and straw plots were estimated as 27.3–54.5 and 41.4 Mg C ha⁻¹, respectively. Our results demonstrated that biochar was more efficient in lifting the SOC stock via exogenous stable carbon input and MNC stabilization, although the latter showed low “efficacy”. Meanwhile, straw incorporation significantly promoted net MNC accumulation but also stimulated SOC mineralization, resulting in a smaller increase in SOC content (by 50%) compared to biochar (by 53%–102%). The results address the decadal-scale effects of biochar and straw application on the formation of the stable organic carbon pool in soil, and understanding the causal mechanisms can allow field practices to maximize SOC content.     

Quantitative Detection of 15 Serum Bile Acid Metabolic Products by LC/MS/MS in the Diagnosis of Primary Biliary Cholangitis

To determine 15 bile acid metabolic products in human serum by liquid chromatography-tandem mass spectrometry (LC/MS/MS) and value their diagnostic outcome in primary biliary cholangitis (PBC). Serum from 20 healthy controls and 26 patients with PBC were collected and went LC/MS/MS analysis of 15 bile acid metabolic products. The test results were analyzed by bile acid metabolomics, and the potential biomarkers were screened and their diagnostic performance was judged by statistical methods such as principal component and partial least squares discriminant analysis and area under curve (AUC). 8 differential metabolites can be screened out: Deoxycholic acid (DCA), Glycine deoxycholic acid (GDCA), Lithocholic acid (LCA), Glycine ursodeoxycholic acid (GUDCA), Taurolithocholic acid (TLCA), Tauroursodeoxycholic acid (TUDCA), Taurodeoxycholic acid (TDCA), Glycine chenodeoxycholic acid (GCDCA). The performance of the biomarkers was evaluated by the AUC, specificity and sensitivity. In conclusion, DCA, GDCA, LCA, GUDCA, TLCA, TUDCA, TDCA and GCDCA were identified as eight potential biomarkers to distinguish between healthy people and PBC patients by multivariate statistical analysis, which provided reliable experimental basis for clinical practice.     

North and South: Exploring isotopic analysis of bone carbonates and collagen to understand post-medieval diets in London and northern England

Objectives

We evaluate the potential of paired isotopic analysis of bone carbonate and collagen to examine the diet of post-medieval human and animal populations from England (17th–19th c.), including, for the first time, manufacturing towns in northern England. The potential for identifying C₄ crop consumption is explored alongside regional and local patterning in diet by sex and socioeconomic status.

Materials and Methods

Humans (n = 216) and animals (n = 168) were analyzed from sites in London and northern England for both carbon and nitrogen isotopes of bone collagen (𝛿¹³C_coll, 𝛿¹⁵N_coll). Isotopic analysis of bone carbonates (𝛿¹³C_carb, 𝛿¹⁸O_carb) was carried out on all humans and 27 animals, using Fourier transform infrared spectroscopy–attenuated total reflectance to assess diagenesis.

Results

Variations in diet were observed between and within different populations by geographical location and socioeconomic status. Three pigs and one cow consumed C₄ resources, indicating the availability of C₄-fed animal protein. Londoners consumed more animal and marine protein and C₄ resources. Middle- and upper-class populations from both London and northern populations also had greater access to these foods compared to those of lower status in the same regions.

Discussion

This substantial multi-isotope dataset deriving from bone carbonate and collagen combined from diverse post-medieval urban communities enabled, for the first time, the biomolecular identification of the dynamics of C₄ consumption (cane sugar/maize) in England, providing insight into the dynamics of food globalization during this period. We also add substantially to the animal dataset for post-medieval England, providing further insight into animal management during a key moment of agricultural change.

     

Microbial nitrogen and phosphorus co-limitation across permafrost region

The status of plant and microbial nutrient limitation have profound impacts on ecosystem carbon cycle in permafrost areas, which store large amounts of carbon and experience pronounced climatic warming. Despite the long-term standing paradigm assumes that cold ecosystems primarily have nitrogen deficiency, large-scale empirical tests of microbial nutrient limitation are lacking. Here we assessed the potential microbial nutrient limitation across the Tibetan alpine permafrost region, using the combination of enzymatic and elemental stoichiometry, genes abundance and fertilization method. In contrast with the traditional view, the four independent approaches congruently detected widespread microbial nitrogen and phosphorus co-limitation in both the surface soil and deep permafrost deposits, with stronger limitation in the topsoil. Further analysis revealed that soil resources stoichiometry and microbial community composition were the two best predictors of the magnitude of microbial nutrient limitation. High ratio of available soil carbon to nutrient and low fungal/bacterial ratio corresponded to strong microbial nutrient limitation. These findings suggest that warming-induced enhancement in soil nutrient availability could stimulate microbial activity, and probably amplify soil carbon losses from permafrost areas.     

As above,not so below: Long-term dynamics of net primary production across a dryland transition zone

Drylands are key contributors to interannual variation in the terrestrial carbon sink, which has been attributed primarily to broad-scale climatic anomalies that disproportionately affect net primary production (NPP) in these ecosystems. Current knowledge around the patterns and controls of NPP is based largely on measurements of aboveground net primary production (ANPP), particularly in the context of altered precipitation regimes. Limited evidence suggests belowground net primary production (BNPP), a major input to the terrestrial carbon pool, may respond differently than ANPP to precipitation, as well as other drivers of environmental change, such as nitrogen deposition and fire. Yet long-term measurements of BNPP are rare, contributing to uncertainty in carbon cycle assessments. Here, we used 16 years of annual NPP measurements to investigate responses of ANPP and BNPP to several environmental change drivers across a grassland–shrubland transition zone in the northern Chihuahuan Desert. ANPP was positively correlated with annual precipitation across this landscape; however, this relationship was weaker within sites. BNPP, on the other hand, was weakly correlated with precipitation only in Chihuahuan Desert shrubland. Although NPP generally exhibited similar trends among sites, temporal correlations between ANPP and BNPP within sites were weak. We found chronic nitrogen enrichment stimulated ANPP, whereas a one-time prescribed burn reduced ANPP for nearly a decade. Surprisingly, BNPP was largely unaffected by these factors. Together, our results suggest that BNPP is driven by a different set of controls than ANPP. Furthermore, our findings imply belowground production cannot be inferred from aboveground measurements in dryland ecosystems. Improving understanding around the patterns and controls of dryland NPP at interannual to decadal scales is fundamentally important because of their measurable impact on the global carbon cycle. This study underscores the need for more long-term measurements of BNPP to improve assessments of the terrestrial carbon sink, particularly in the context of ongoing environmental change.     

The effect of charcoal production on carbon cycling in African biomes

Using biomass for charcoal production in sub-Saharan Africa (SSA) may change carbon stock dynamics and lead to irreversible changes in the carbon balance, yet we have little understanding of whether these dynamics vary by biome in this region. Currently, charcoal production contributes up to 7% of yearly deforestation in tropical regions, with carbon emissions corresponding to 71.2 million tonnes of CO₂ and 1.3 million tonnes of CH₄. With a projected increased demand for charcoal in the coming decades, even low harvest rates may throw the carbon budget off-balance due to legacy effects. Here, we parameterized the dynamic global vegetation model LPJ-GUESS for six SSA biomes and examined the effect of charcoal production on net ecosystem exchange (NEE), carbon stock sizes and recovery time for tropical rain forest, montane forest, moist savanna, dry savanna, temperate grassland and semi-desert. Under historical charcoal regimes, tropical rain forests and montane forests transitioned from net carbon sinks to net sources, that is, mean cumulative NEE from −3.56 ± 2.59 kg C/m² to 2.46 ± 3.43 kg C/m² and −2.73 ± 2.80 kg C/m² to 1.87 ± 4.94 kg C/m² respectively. Varying charcoal production intensities resulted in tropical rain forests showing at least two times higher carbon losses than the other biomes. Biome recovery time varied by carbon stock, with tropical and montane forests taking about 10 times longer than the fast recovery observed for semi-desert and temperate grasslands. Our findings show that high biomass biomes are disproportionately affected by biomass harvesting for charcoal, and even low harvesting rates strongly affect vegetation and litter carbon and their contribution to the carbon budget. Therefore, the prolonged biome recoveries imply that current charcoal production practices in SSA are not sustainable, especially in tropical rain forests and montane forests, where we observe longer recovery for vegetation and litter carbon stocks.     

耕作方式对紫色水稻土轻组有机碳的影响

以位于西南大学实验农场的长期免耕试验田为研究对象,通过0—60cm分层采集土壤样品的方法,探讨了不同耕作方式———冬水田平作(DP)、水旱轮作(SH)、垄作免耕(LM)及垄作翻耕(LF)对土壤轻组有机碳的影响。结果表明,重组有机碳是土壤总有机碳的主体,约占土壤总有机碳的69.56%—95.66%,在土壤剖面上随土壤深度的增加其分配比例逐渐升高;其次是自由轻组有机碳,约占土壤总有机碳的5.03%—26.43%,从土壤表层向下,其分配比例迅速下降;闭合轻组有机碳最低,仅占土壤总有机碳的1.37%—4.93%,其分配比例随土壤深度的变化不明显。在0—60 cm土壤深度内,不同耕作方式下自由轻组有机碳的平均含量为LM(4.36 g/kg)>DP(2.11 g/kg)>LF(1.74 g/kg)>SH(1.46 g/kg),相应的有机碳分配比例分别为17.1%、14.0%、12.2%和11.3%;闭合轻组有机碳的平均含量为LM(0.82 g/kg)>DP(0.51 g/kg)>LF(0.36 g/kg)>SH(0.34g/kg),相应的有机碳分配比例分别为3.36%、3.45%、2.71%和3.00%。因此,在西南地区紫色水稻土上实行垄作免耕能提高轻组有机碳的含量及其分配比例,从而改善土壤有机碳质量。另外,与土壤总有机碳、重组有机碳及闭合轻组有机碳相比,自由轻组有机碳对耕作方式的变化最敏感,是指示土壤有机碳变化的良好指标。     

Kupffer Cell Isolation for Nanoparticle Toxicity Testing

The large majority of in vitro nanotoxicological studies have used immortalized cell lines for their practicality. However, results from nanoparticle toxicity testing in immortalized cell lines or primary cells have shown discrepancies, highlighting the need to extend the use of primary cells for in vitro assays. This protocol describes the isolation of mouse liver macrophages, named Kupffer cells, and their use to study nanoparticle toxicity. Kupffer cells are the most abundant macrophage population in the body and constitute part of the reticulo-endothelial system (RES), responsible for the capture of circulating nanoparticles. The Kupffer cell isolation method reported here is based on a 2-step perfusion method followed by purification on density gradient. The method, based on collagenase digestion and density centrifugation, is adapted from the original protocol developed by Smedsrød et al. designed for rat liver cell isolation and provides high yield (up to 14 x 10⁶ cells per mouse) and high purity (>95%) of Kupffer cells. This isolation method does not require sophisticated or expensive equipment and therefore represents an ideal compromise between complexity and cell yield. The use of heavier mice (35-45 g) improves the yield of the isolation method but also facilitates remarkably the procedure of portal vein cannulation. The toxicity of functionalized carbon nanotubes f-CNTs was measured in this model by the modified LDH assay. This method assesses cell viability by measuring the lack of structural integrity of Kupffer cell membrane after incubation with f-CNTs. Toxicity induced by f-CNTs can be measured consistently using this assay, highlighting that isolated Kupffer cells are useful for nanoparticle toxicity testing. The overall understanding of nanotoxicology could benefit from such models, making the nanoparticle selection for clinical translation more efficient.     

Biomass and carbon storage of the North American deciduous forest

Field measures of tree and shrub dimensions were used with established biomass equations in a stratified, two-stage cluster sampling design to estimate above-ground ovendry woody biomass and carbon storage of the eastern deciduous forest of North America. Biomass averaged 8.1 ± 1.4 (95% C.I.) kg/m² and totaled 18.1 ± 3.1 (95% C.I.) gigatons. Carbon storage averaged 3.6 ± 0.6 (95% C.I.) kg/m² and totaled 8.1 ± 1.4 (95% C.I.) gigatons. These values are lower than previous estimates commonly used in the analysis of the global carbon budget which range from 17.1 to 23.1 kg/m² for biomass and 7.7 to 10.4 kg/m² for carbon storage. These new estimates for the deciduous forest, together with earlier work in the boreal forest begin to reveal a pattern of overestimation of global carbon storage by vegetation in analyses of the global carbon budget. We discuss reasons for the differences between the new and earlier estimates, as well as implications for our understanding of the global carbon cycle.     

Effects of erosion on ecto- and VA-mycorrhizal inoculum potential of soil following forest fire in southwest Oregon

The Longwood Complex wildfire in the Siskiyou Mountains of southern Oregon in August 1987 created an opportunity to study erosion and its effects on mycorrhizal fungus inoculum potential of a forest soil on steep slopes. As measured by the erosion-bridge method, most erosion occurred in a single, intense storm in December after the fire and amounted to an estimated 2 to 4 cm of surface soil. Captured eroded soil had a higher pH and P and Mg levels than residual soil. Seedlings ofLibocedrus decurrens andPseudotsuga menziesii were planted on eroded plots with additions of captured eroded soil (ET) or pasteurized eroded soil (PET) transferred to the planting holes. After one growing season,Libocedrus seedlings formed nearly 4 times the vesicular-arbuscular mycorrhizae in ET treatments and more than twice as much in PET treatments than in controls. Survival and basal area growth were significantly better in ET than in the other treatments, and both ET and PET produced more seedling shoot growth than did controls.Pseudotsuga seedlings did not differ in measured characteristics between treatments; ectomycorrhiza formation was slight, evidently the result of reduced inoculum potential resulting from the fire.