Belowground community responses to fire: meta‐analysis reveals contrasting responses of soil microorganisms and mesofauna

Global fire regimes are shifting due to climate and land use changes. Understanding the responses of belowground communities to fire is key to predicting changes in the ecosystem processes they regulate. We conducted a comprehensive meta‐analysis of 1634 observations from 131 empirical studies to investigate the effect of fire on soil microorganisms and mesofauna. Fire had a strong negative effect on soil biota biomass, abundance, richness, evenness, and diversity. Fire reduced microorganism biomass and abundance by up to 96%. Bacteria were more resistant to fire than fungi. Fire reduced nematode abundance by 88% but had no significant effect on soil arthropods. Fire reduced richness, evenness and diversity of soil microorganisms and mesofauna by up to 99%. We found little evidence of temporal trends towards recovery within 10 years post‐disturbance suggesting little resilience of the soil community to fire. Interactions between biome, fire type, and depth explained few of these negative trends. Future research at the intersection of fire ecology and soil biology should aim to integrate soil community structure with the ecosystem processes they mediate under changing global fire regimes.     

A green and effective method for the determination of metalaxyl enantiomers in tobacco and soil by supercritical fluid chromatography–tandem mass spectrometry

We reported a new methodology for the stereoselective determination of metalaxyl enantiomers in tobacco and soil. The QuEChERS (quick, easy, cheap, effective, rugged, and safe) method was used for the extraction and clean-up of the tobacco and soil samples. Separation of the metalaxyl enantiomers was performed on an ACQUITY UPC2 Trefoil CEL1 chiral column coupled with supercritical fluid chromatography with tandem mass spectrometry (SFC-MS/MS), and the run time was only 5 minutes. Under the optimized conditions, the recoveries for the enantiomers were between 78.2% and 93.3% with intraday relative standard deviations (RSDs) ranging from 1.1% to 5.4%. The limit of detection (LOD) for the enantiomers in tobacco and soil varied from 0.005 to 0.007 mg/kg, and the limit of quantitation (LOQ) ranged from 0.017 to 0.020 mg/kg. In this method, only a small amount of methanol was consumed to obtain a rapid stereoselective separation. This proposed method showed good accuracy and precision and might be suitable for fast enantioselective determination of metalaxyl in food and environmental samples. The developed method was further validated by application to the analysis of authentic samples.     

施入不同土层的秸秆腐殖化特征及对玉米产量的影响

耕作和秸秆还田是打破犁底层、改善黑土肥力的重要措施.本研究利用田间试验,分析了耕作和秸秆还田对秸秆腐殖化系数、总有机质含量(SOC)和玉米产量的影响.结果表明:深耕+秸秆施入20～35 cm(ST+S)能够打破犁底层,与浅耕(TT)、深耕(ST)和浅耕+秸秆还田(TT+S)相比,试验6年间土壤容重平均降低了5.7%、3.3%和5.7%,其中ST和ST+S试验第一年效果最好;试验6年后秸秆腐解率表现为0～20 cm土层(72.0%)>20～35 cm土层(59.2%);0～20和20～35 cm土层秸秆腐殖化系数在试验的第一年达到了最大值,分别为15.9%和12.7%;与初始土壤相比,TT、ST和ST+S处理0～20 cm土层SOC和轻组有机碳(LFOC)含量呈下降趋势,而TT+S处理分别增加了2.9%和12.4%,ST+S处理20～35 cm土层分别增加了9.2%和9.9%;对玉米产量的影响表现为ST+S>TT+S>ST>TT,耕作和秸秆还田的时间效应明显,其中ST处理玉米产量的影响可以持续3年,而ST+S处理可以持续6年.因此,通过耕作的方式将秸秆施入20～35 cm土层是一种有效的、可持续改善黑土质量的农业措施.     

Quantitative Metaproteomics and Activity-based Protein Profiling of Patient Fecal Microbiome Identifies Host and Microbial Serine-type Endopeptidase Activity Associated With Ulcerative Colitis

The gut microbiota plays an important yet incompletely understood role in the induction and propagation of ulcerative colitis (UC). Organism-level efforts to identify UC-associated microbes have revealed the importance of community structure, but less is known about the molecular effectors of disease. We performed 16S rRNA gene sequencing in parallel with label-free data-dependent LC-MS/MS proteomics to characterize the stool microbiomes of healthy (n = 8) and UC (n = 10) patients. Comparisons of taxonomic composition between techniques revealed major differences in community structure partially attributable to the additional detection of host, fungal, viral, and food peptides by metaproteomics. Differential expression analysis of metaproteomic data identified 176 significantly enriched protein groups between healthy and UC patients. Gene ontology analysis revealed several enriched functions with serine-type endopeptidase activity overrepresented in UC patients. Using a biotinylated fluorophosphonate probe and streptavidin-based enrichment, we show that serine endopeptidases are active in patient fecal samples and that additional putative serine hydrolases are detectable by this approach compared with unenriched profiling. Finally, as metaproteomic databases expand, they are expected to asymptotically approach completeness. Using ComPIL and de novo peptide sequencing, we estimate the size of the probable peptide space unidentified (“dark peptidome”) by our large database approach to establish a rough benchmark for database sufficiency. Despite high variability inherent in patient samples, our analysis yielded a catalog of differentially enriched proteins between healthy and UC fecal proteomes. This catalog provides a clinically relevant jumping-off point for further molecular-level studies aimed at identifying the microbial underpinnings of UC.     

Detection and Quantification of Fusarium oxysporum f. sp. niveum Race 1 in Plants and Soil by Real-time PCR

Fusarium wilt caused by Fusarium oxysporum f. sp. niveum (Fon) is the most serious soil-borne disease in the world and has become the main limiting factor of watermelon production. Reliable and quick detection and quantification of Fon are essential in the early stages of infection for control of watermelon Fusarium wilt. Traditional detection and identification tests are laborious and cannot efficiently quantify Fon isolates. In this work, a real-time polymerase chain reaction (PCR) assay has been described to accurately identify and quantify Fon in watermelon plants and soil. The FONRT-18 specific primer set which was designed based on identified specific sequence amplified a specific 172 bp band from Fon and no amplification from the other formae speciales of Fusarium oxysporum tested. The detection limits with primers were 1.26 pg/μl genomic DNA of Fon, 0.2 pg/ng total plant DNA in inoculated plant, and 50 conidia/g soil. The PCR assay could also evaluate the relationships between the disease index and Fon DNA quantity in watermelon plants and soil. The assay was further used to estimate the Fon content in soil after disinfection with CaCN₂. The real-time PCR method is rapid, accurate and reliable for monitoring and quantification analysis of Fon in watermelon plants and soil. It can be applied to the study of disease diagnosis, plant-pathogen interactions, and effective management.     

Reproductive significance of feeding on saprobic and arbuscular mycorrhizal fungi by the collembolan, Folsomia candida

1. Collembolans have often been credited with negatively affecting arbuscular mycorrhizal (AM) symbioses, mainly by grazing and severing the associated external fungal network from host roots. However, most previous experiments were performed using relatively 'clean' systems where other, non-mycorrhizal, fungi were largely excluded. Yet, plant rhizospheres harbour a wide variety of highly palatable non-AM fungi, most of which have saprobic lifestyles.
2. In this study we isolated and cultured several rhizosphere fungi, and the collembolan , Folsomia candida , from the Long-Term Mycorrhiza Research Site, University of Guelph, Canada, to test the hypothesis that, given a choice, collembolans would prefer to feed on saprobic fungi and that such a choice is of adaptive significance to the animals.
3. A laboratory food preference experiment revealed that F. candida favours common saprobic fungi over a variety of AM fungi. Coincidentally, fecundity levels across two Folsomia generations were higher when animals fed exclusively on the preferred fungus, Alternaria alternata . When fed less palatable fungi, fecundity was greatly reduced; in fact animals from the F1 generation were unable to produce any eggs when placed on an exclusive diet of one of the following three AM fungi, Acaulospora spinosa, Scutellospora calospora and Gigaspora gigantea .
4. These results indicate that a strict diet of AM fungi by collembolans has reproductive consequences. Therefore, we propose that under natural conditions these animals spend more time feeding on common saprobic fungi rather than their AM counterparts. This suggests that previous 'clean' studies that investigated the interactions between collembolans and AM fungi may have reported exaggerated effects of animal grazing. The influence of collembolans on the functioning of AM symbioses, under more natural conditions, remains not well understood.     

Species Traits as Practical Tools for Ecological Restoration of Marly Eroded Lands

Plant functional traits are increasingly used in restoration ecology because they have the potential to guide restoration practices at a broad scale. This article presents a trait‐based multi‐criteria framework to evaluate and predict the performance of 17 plant seedlings to improve ecological restoration of marly eroded areas in the French Southern Alps. The suitability of these species to limit soil erosion was assessed by studying both their response to erosive forces and their effect on erosion dynamics. We assumed that species efficiency could be explained and predicted from plant traits and we looked for trait‐performance relationships. Our results showed that root slenderness ratio, the percentage of fine roots and root system topology, were the three root morphology traits best describing anchorage strength. Root system characterized by a long and thin tap root and many fine lateral ramifications would be the best to resist concentrated runoff. Species response to burial mainly depended on growth form and morphological flexibility. The abilities of species in reinforcing the soil and reducing erosion rates were negatively correlated to root diameter and positively to the percentage of fine roots. Moreover, root system density and root tensile strength also influenced root reinforcement. Finally, the ability to trap sediment was positively correlated to leaf area and canopy density. Species were then scored and classified in four clusters according to their global performance. This method allows identifying species that possess both response and effect traits related to the goal of preventing erosion during ecological restoration.