Products Of Microbial Metabolism Research Articles

Commensal-derived tryptophan metabolites fortify the skin barrier: Insights from a 50-species gnotobiotic model of human skin microbiome.

The epidermal barrier defends the body against dehydration and harmful substances. The commensal microbiota is essential for proper differentiation and repair of the epidermal barrier, an effect mediated by the aryl hydrocarbon receptor (AHR). However, the microbial mechanisms of AHR activation in skin are less understood. Tryptophan metabolites are AHR ligands that can be products of microbial metabolism. To identify microbially regulated tryptophan metabolites invivo, we established a gnotobiotic model colonized with fifty human skin commensals and performed targeted mass spectrometry on murine skin. Indole-related metabolites were enriched in colonized skin compared to germ-free skin. In reconstructed human epidermis and in murine models of atopic-like barrier damage, these metabolites improved barrier repair and function individually and as a cocktail. These results provide a framework for the identification of microbial metabolites that mediate specific host functions, which can guide the development of microbe-based therapies for skin disorders.

Ethnicity-matched case-control study reveals significant gut microbiota differences in Malaysian adults with type 2 diabetes.

Introduction. Type 2 diabetes mellitus (T2DM) is a major global health issue projected to exceed 700 million cases by 2045. In Malaysia, T2DM prevalence has risen, with notable ethnic disparities.Gap statement. The gut microbiota's role in T2DM pathogenesis is well recognized, yet its composition in Malaysia's ethnically diverse population remains underexplored.Aim. This study aimed to characterize gut microbiota composition among T2DM and ethnicity-matched adults without diabetes (nonDM) in Malaysia.Methodology. A case-control study was conducted with 45 T2DM and 45 nonDM participants matched by ethnicity from a primary care clinic in Klang Valley, Malaysia. Faecal DNA was subjected to 16S rRNA sequencing to identify microbiota diversity and composition differences and compare predicted functional capabilities. Correlations between bacterial taxa, clinical characteristics and dietary intake were analysed.Results. T2DM participants showed decreased alpha diversity (observed, P-value=0.002, r=0.69; Shannon, P-value<0.001, r=0.73) and significant differences in beta diversity (permutational multivariate ANOVA, R²=0.036, P-value=0.001). Linear discriminant analysis effect size and multiple regression analysis, adjusted for covariates age, gender, BMI and intakes of protein, fat, carbohydrate and fibre, identified the phylum Proteobacteria and genera Escherichia-Shigella to be increased, while the genera Anaerostipes and Romboutsia decreased in T2DM. These bacteria were associated with various clinical characteristics and dietary intake. However, these 'potential biomarkers' were not uniformly present across all participants, suggesting that individual bacterial taxa may not serve as universal biomarkers.Conclusion. Significant gut microbiota differences exist between T2DM and nonDM individuals in Malaysia, indicating a dysbiosis characterized by increased pro-inflammatory bacteria and reduced short-chain fatty acid-producing bacteria in T2DM. While these findings highlight the potential functional relevance of gut microbiota in T2DM pathogenesis, addressing limitations such as participant matching for confounding factors in future studies could uncover additional significant differences in microbiota composition. Furthermore, the variability in taxa prevalence across individuals suggests that targeting microbial metabolic products may offer more promising strategies to inform microbiota-targeted interventions than relying solely on specific bacterial taxa as biomarkers.

Molecular Simulation Study on the Adsorption Mechanisms of Microbial Components and Metabolic Products on Activated Carbon in HVAC Systems

Molecular Simulation Study on the Adsorption Mechanisms of Microbial Components and Metabolic Products on Activated Carbon in HVAC Systems

Performance of co-composting Pholiota nameko spent mushroom substrate and pig manure at different proportions: Chemical properties and humification process

Co-composting is the controlled aerobic degradation of organics, using more than one feedstock. By combining the spent mushroom substrate of Pholiota nameko (SMS) and pig manure (PM), the benefits of each could be used to optimize the composting process and the final product. This study introduced a comprehensive evaluation strategy aimed at identifying the optimal co-composting ratio for these two substrates. A 120-day composting trial was conducted, blending SMS and PM in various ratios to evaluate the benefits of co-composting SMS-PM. The results indicated that dissolved organic matter (DOM) in SMS-derived compost primarily originated from plants, whereas PM-derived compost predominantly consisted of microbial metabolic products, and co-composting combined both sources. An increase in aromaticity and humification degree of DOM occurred during the composting process itself rather than being derived from autochthonous origin. Carbohydrates like phenols and alcohols broke down during composting, and microbes utilized polysaccharides as an energy source for humus formation. As co-composting progressed, the treatments with varying mass ratios of SMS to PM, including 8:2, 7:3, 6:4, 5:5, 4:6, and 3:7 were observed to result in a decline in aliphatic hydroxylated chains alongside an enhancement in aromaticity within the compost. Additionally, there was a conversion from organic carbon (C) to carboxyl C within humic acid (HA) due to oxidation and dehydrogenation processes that facilitated the formation of stable nitrogen-containing compounds characterized by condensed aromatic structures. Following thorough evaluation, it was determined that optimal composting efficacy occurred at a mass ratio of SMS to PM equal to 6:4. Post-compost analysis revealed increases in nutrient content; specifically, germination index (GI) value reached 132.7%, while organic matter content attained 45.3%. Conversely, electrical conductivity (EC), C contents of water-soluble substances and humin (Cwss and CHu) decreased by approximately 11.8%, 73.4%, and 29.8% respectively; meanwhile, C contents of humic-extracted acid and HA (CHE and CHA), along with degree of polymerization (DP), increased by 17.3%, 20.3% and 9.9% respectively. The proposed co-compost formula not only facilitated simultaneous recycling of both SMS and PM waste but also transformed them into high-quality organic fertilizers suitable for soil enrichment-effectively addressing challenges faced by both edible fungi cultivation and livestock industries while augmenting organic fertilizer sources for Black land protection.

The gut-airway microbiome axis in health and respiratory diseases.

Communication between the gut and remote organs, such as the brain or the cardiovascular system, has been well established and recent studies provide evidence for a potential bidirectional gut-airway axis. Observations from animal and human studies indicate that respiratory insults influence the activity of the gut microbiome and that microbial ligands and metabolic products generated by the gut microbiome shape respiratory immunity. Information exchange between these two large mucosal surface areas regulates microorganism-immune interactions, with significant implications for the clinical and treatment outcomes of a range of respiratory conditions, including asthma, chronic obstructive pulmonary disease and lung cancer. In this Review, we summarize the most recent data in this field, offering insights into mechanisms of gut-airway crosstalk across spatial and temporal gradients and their relevance for respiratory health.

Plants, Microorganisms and Their Metabolites in Supporting Asbestos Detoxification-A Biological Perspective in Asbestos Treatment.

Many countries banned asbestos due to its toxicity, but considering its colossal use, especially in the 1960s and 1970s, disposing of waste containing asbestos is the current problem. Today, many asbestos disposal technologies are known, but they usually involve colossal investment and operating expenses, and the end- and by-products of these methods negatively impact the environment. This paper identifies a unique modern direction in detoxifying asbestos minerals, which involves using microorganisms and plants and their metabolites. The work comprehensively focuses on the interactions between asbestos and plants, bacteria and fungi, including lichens and, for the first time, yeast. Biological treatment is a prospect for in situ land reclamation and under industrial conditions, which can be a viable alternative to landfilling and an environmentally friendly substitute or supplement to thermal, mechanical, and chemical methods, often characterized by high cost intensity. Plant and microbial metabolism products are part of the green chemistry trend, a central strategic pillar of global industrial and environmental development.

Characterization of a secreted aminopeptidase of M28 family from B. fragilis and its possible role in protein metabolism in the gut

Products of microbial protein metabolism in the gut can influence the health of the host in many ways. Members of the Bacteriodales, major commensals of the human colon have been associated with long-term intake of high-protein diets. Undigested proteins or peptides that reach the colon can be hydrolyzed by extra-cellular proteases found in some Bacteroides species into amino acids and peptides which can be further catabolized. In this communication, we have characterized one such secreted aminopeptidase (BfAP) from Bacteroides fragilis belonging to the M28 family which is capable of degrading peptides released from soybean protein after predigestion in the small intestine. The BfAP enzyme was cloned, expressed in E. coli, and purified to homogeneity. It is a metallopeptidase requiring Co2+ ion for optimum activity at 55°C and pH8 and preferentially cleaves neutral aliphatic (Met/Leu) and positively charged (Arg/Lys) amino acids from the N-terminus of peptides. It showed high specificity for long peptides as well as proteins like β-casein. Structural analysis of BfAP and its orthologues using AlphaFold2 reveal a shared highly conserved M28 domain, but vary with respect to their N-terminal region with some of them possessing an additional cap domain which may be important for regulation of substrate binding. Although BfAP lacks the typical cap domain, it shows small extensions that can form a loop adjacent to the proposed active site and may affect substrate binding. We suggest that this secreted enzyme may play an important role in protein metabolism in the colon where Bacteroides species are abundant.

Primary and Secondary Metabolites as Products of Microbial Metabolism: Uses and Application in Foods, Pharmaceutical and Allied Industries. A Review

The description, sources, kinds, uses, and/or functions of primary and secondary metabolites as byproducts of microbial metabolisms from diverse sources, such as plants, microorganisms, including bacteria, actinobacteria, and fungi, as well as their production and classification in a variety of fields, were all examined in this study. However, as climatic changes create conditions that favour recurrent outbreaks of these events, these metabolites serve as a critical requirement for a new pharmaceutical and chemical agents to combat cancers, heart diseases, pest, cytotoxic, mosquito, infectious disease, autoimmune disorder, etc. of both animal and plant. They are also used in the manufacturing of a variety of goods, including alcohols, antioxidants, phytochemicals, bioactive compounds, and food-grade acids (acetic, lactic, fumaric, etc.), as well as several value added goods used in both industrial and human applications. This review has described the useful applications of microbial metabolites in foods, chemical and pharmaceutical industries as well as other allied industries which are used for solving the nutritional and health needs of man.

Martian microbes research and lessons learnt for forensic science

A new method for looking for life outside the Earth is used as an example to demonstrate how ways of presenting complex scientific concepts to the general public, used in planetary science, could be used in forensic science. The work led to a pared down, practical definition of detectable Life for planetary exploration, An organised system capable of processing energy sources to its advantage. For nearly three quarters of Earth's history the only lifeforms were microbes, which are the target for looking for extraterrestrial life. Microbes are microscopic and may be sparsely distributed, but their metabolic products can form large, durable rocks, much easier to find and which may contain the organisms or their remains. There are similar challenges in presenting astrobiological and forensic science. Both may have to deal with very large or very small numbers which are not immediately comprehensible but can be understood by analogy. To increase the impact on the listener or reader, dramatic analogues are valuable, for example, referring to the mineralised microbial metabolic products as, "fossilised breath of bacteria" demands the audience's attention and engages them before more detailed explanations are given. The power of practical experiments or demonstrations is most important to reinforce what might otherwise be a fairly abstract concept. Surprisingly, most of these approaches can be made to work equally well in both spoken and written forms as well as in both sciences.

Effects of Different Heat Treatments on Yak Milk Proteins on Intestinal Microbiota and Metabolism.

Dairy products are susceptible to modifications in protein oxidation during heat processing, which can lead to changes in protein function, subsequently affecting intestinal health. Despite being a unique nutritional source, yak milk has not been thoroughly examined for the effects of its oxidized proteins on intestinal microbiota and metabolism. Hence, this study employed different heat treatment methods (low-temperature pasteurization, high-temperature pasteurization, and high-temperature sterilization) to induce oxidation in yak milk proteins. The study then assessed the degree of oxidation in these proteins and utilized mice as research subjects. Using metagenomics and metabolomics methods, this study examined the structure of intestinal microbial communities and metabolic products in mice consuming oxidized yak milk. The results showed a decrease in carbonyl and total thiol contents of yak milk proteins after different heat treatments, indicating that heat treatment causes oxidation in yak milk proteins. Metagenomic analysis of mouse intestinal microbiota revealed significant changes in 66 genera. In the high-temperature sterilization group (H), key differential genera included Verrucomicrobiales, Verrucomicrobiae, Akkermansiaceae, and 28 others. The high-temperature pasteurization group (M) mainly consisted of Latilactobacillus, Bacillus, and Romboutsia. The low-temperature pasteurization group (L) primarily comprised of Faecalibacterium, Chaetomium, Paenibacillaceae, Eggerthella, Sordariales, and 33 others. Functionally, compared to the control group (C), the H group upregulated translation and energy metabolism functions, the L group the M group significantly upregulated metabolism of other amino acids, translation, and cell replication and repair functions. Based on metabolomic analysis, differential changes in mouse metabolites could affect multiple metabolic pathways in the body. The most significantly affected metabolic pathways were phenylalanine metabolism, vitamin B6 metabolism, steroid hormone biosynthesis, and pantothenate and CoA biosynthesis. The changes were similar to the functional pathway analysis of mouse metagenomics, affecting amino acid and energy metabolism in mice. In summary, moderate oxidation of yak milk proteins exhibits a positive effect on mouse intestinal microbiota and metabolism. In conclusion, yak milk has a positive effect on mouse intestinal microflora and metabolism, and this study provides a scientific basis for optimizing dairy processing technology and further developing and applying yak milk.

Prevalence and phylogenetic traits of nitrite-producing bacteria in raw ingredients and processed baby foods: Potential sources of foodborne infant methemoglobinemia

Nitrite, which has been mainly regarded as a chemical hazard, can induce infant methemoglobinemia. As for nitrite as a product of microbial metabolism, the contribution of the oral or gut microbiome has mostly received attention, whereas the role of nitrite-producing bacteria (NPBs) in food has been less elucidated. In this study, mesophilic NPBs were isolated from food samples (n=320) composed of raw ingredients for weaning foods (n=160; beetroot, broccoli, carrot, lettuce, rice powder, spinach, sweet potato, and honey) and processed baby foods (n=160; cereal snack, cheese, yogurt, powdered infant formula, sorghum syrup, vegetable fruit juice, and weaning food). The phylogenetic diversity of the NPB strains was analyzed via 16S rRNA sequencing. All 15 food items harbored NPBs, with a prevalence of 71.9% and 34.4% for the raw ingredients and processed foods, respectively. The NPBs isolated from the foods were identified as Actinomycetota (Actinomycetes), Bacteroidota (Flavobacteriia, Sphingobacteriia), Bacillota (Bacilli), or Pseudomonadota (Alpha-, Beta-, and Gammaproteobacteria). Among the raw and processed foods, beetroot (85.0%) and powdered infant formula (70.0%) showed had the highest NPB prevalence (P>0.05). Bacillota predominated in both types of food. The contamination source of Pseudomonadota, which was another major phylum present in the raw ingredients, was presumed to be the soil and endophytes in the seeds, whereas that of Bacillota was the manufacturing equipment used with the raw ingredients. Common species for probiotics, such as Lacticaseibacillus, Leuconostoc, Enterococcus, and Bacillus, were isolated and identified as NPBs. To our knowledge, this is the first study to reveal the taxonomical diversity and omnipresence of NPBs in food for babies. The results of this study highlight the importance of food-mediated microbiological risks of infant methemoglobinemia which are yet underrecognized.

Sepsis-Associated Metabolites and Their Biotransformation by Intestinal Microbiota

High concentration of sepsis-associated aromatic microbial metabolites (AMM) stands as a prognostically unfavorable factor, indicating the progression of multiple organ dysfunction and an increased risk of death in patients with sepsis and septic shock. This study is based on a hypothesis that excess of sepsis-associated AMM in patients with sepsis is caused by metabolic alterations (dysfunction) in the intestinal microbiota.The aim of this study was to compare the potential of normobiota and pathobiota to bio-transform sepsis-associated metabolites of aromatic amino acids tyrosine and phenylalanine, such as phenyllactic acid(PhLA) and 4-hydroxyphenyllactic acid (4-HPhLA).Materials and methods. Samples of intestinal contents of patients with septic shock (N=10, pathobiota) and healthy volunteers (N=9, normobiota) were placed in test tubes with the omnipurpose thioglycol medium. The clinical model of excessive inflow of sepsis-associated AMM into the intestine (for example, from blood or sites of inflammation) was reproduced in the in vitro experiment by adding PhLA or 4-HPhLA in clinically significant concentrations (25 mkM) into each test tube with pathobiota and normobiota. After incubation in a thermostat (37°, 24 hours), AMМ concentrations were measured in the samples with pathobiota and normobiota using GC-MS analysis.Results. Concentration of AMM decreased within 24 hours in the tubes with normobiota after PhLA or 4-HPhLA were added. In the tubes with pathobiota, no decrease in AMM concentrations was documented after loading with PhLA or 4-HPhLA. Concentrations of PhLA (P=0.002) and 4-HPhLA (P0.001) were statistically significantly higher in pathobiota samples compared to normobiota.Conclusion. The in vitro experiment demonstrates that after excessive load with sepsis-associated metabolites (PhLA, 4-HPhLA), the microbiota of healthy people is capable to bio-transform such metabolites to the end products of microbial metabolism, while pathobiota of septic patients exhibits altered biotransformational potential. This data demonstrate that microbiota dysfunction may contribute to the pathogenesis of sepsis.

Replacing traditional pretreatment in one-step UF with natural short-distance riverbank filtration: Continuous contaminants removal and TMP increase relief

Scientists have been focusing on applying more natural processes instead of industrial chemicals in drinking water treatment to achieve the purpose of carbon emissions reduction. In this study, we shortened the infiltration range of riverbank filtration, a natural water purification process, to form the short-distance riverbank filtration (sRBF) which retained its ability in water quality improvement and barely influenced the groundwater environment, and integrated it with ultrafiltration (UF) to form a one-step sRBF-UF system. This naturalness-artificiality combination could realize stable contaminants removal and trans-membrane pressure (TMP) increase relief for over 30 days without dosing chemicals. Generally, both sRBF and UF played the important role in river water purification, and the interaction between them made the one-step sRBF-UF superior in long-term operation. The sRBF could efficiently remove contaminants (90% turbidity, 60% total nitrogen, 30% ammonia nitrogen, and 25% total organic carbon) and reduce the membrane fouling potential of river water under its optimum operation conditions, i.e., a hydraulic retention time of 48h, an operation temperature of 20°C, and a synergistic filter material of aquifer and riverbank soil. Synergistic adsorption, interception, and microbial biodegradation were proved to be the mechanisms of contaminants and foulants removal for sRBF. The sequential UF also participated in the reduction of impurities and especially played a role in intercepting microbial metabolism products and possibly leaked microorganisms from sRBF, assuring the safety of product water. To date, the one-step sRBF-UF was a new attempt to combine a natural process with an artificial one, and realized a good and stable product quality in long-term operation without doing industrial chemicals, which made it a promised alternative for water purification for cities alongside the river.

The re-emerging role of linoleic acid in paediatric asthma.

Asthma is the most common chronic disease within the paediatric population. Although it is multifactorial, its onset may be linked to early-life exposures with subsequent impact on immune system development. Microbial and dietary metabolic products have been implicated in the development and exacerbation of paediatric asthma. Linoleic acid is the most common omega-6 polyunsaturated fatty acid in the Western diet. In this review, we summarise the literature regarding the involvement of linoleic acid in the development of and its impact on existing paediatric asthma. First, we summarise the existing knowledge surrounding the relationship between human microbial metabolism and allergic diseases in children. Next, we examine cellular or animal model-based mechanistic studies that investigated the impact of dietary- and microbial-derived linoleic acid metabolites on asthma. Finally, we review the literature investigating the impact of linoleic acid metabolites on the development and exacerbation of childhood asthma. While there is conflicting evidence, there is growing support for a role of linoleic acid in the onset and pathophysiology of asthma. We recommend that additional cellular, animal, and longitudinal studies are performed that target linoleic acid and its metabolites.

Simple and Complex Substrates (Sugar, Acetate and Milk Whey) for In Situ Bioremediation of Groundwater with Nitrate and Actinide Contamination

The complex contamination of groundwater near radioactive waste repositories by nitrates and actinides is a common problem for many nuclear fuel cycle facilities. One of the effective methods to remove nitrates and reduce actinide migration activity is bioremediation through the activation of native microbial communities by soluble electron donors and carbon sources. This work evaluated the effectiveness of using simple and complex electron donors to remove nitrate in the microbial community in an aquifer near the B2 storage of the Siberian Chemical Combine (Seversk, Siberia). The addition of sugar and milk whey led to the maximum efficiency of nitrate-ion removal and a decrease in the redox potential of the system, creating optimal conditions for the immobilization of actinide. Special attention was paid to the behavior of uranium, plutonium, neptunium, and americium under conditions simulating groundwater when sugar, acetate, and milk whey were added and when microbial metabolic products were formed. Neither microbial metabolites nor organic solutions were found to have a significant effect on the leaching of neptunium. At the same time, for plutonium, a decrease in yield was observed when rocks were treated with organic solutions were compared to groundwater treatment without them. Plutonium leaching is significantly affected by rock composition. In rocks with a low clay fraction content, its yield can reach 40%. At the same time, microbial metabolites can increase americium (Am) desorption from rocks with a low clay fraction content. Additionally, particle size analysis was performed using a step-by-step filtration approach, aiming to evaluate the risks that are associated with colloidal phase formation. It was shown that microbiological stimulation resulted in particle enlargement, substantially diminishing the presence of actinides in the form of dissolved or sub-50 nm nanoparticles. This outcome significantly reduced the potential for colloidal and pseudocolloidal transfer, thereby lowering associated risks.

Circulating metabolites modulated by diet are associated with depression

Metabolome reflects the interplay of genome and exposome at molecular level and thus can provide deep insights into the pathogenesis of a complex disease like major depression. To identify metabolites associated with depression we performed a metabolome-wide association analysis in 13,596 participants from five European population-based cohorts characterized for depression, and circulating metabolites using ultra high-performance liquid chromatography/tandem accurate mass spectrometry (UHPLC/MS/MS) based Metabolon platform. We tested 806 metabolites covering a wide range of biochemical processes including those involved in lipid, amino-acid, energy, carbohydrate, xenobiotic and vitamin metabolism for their association with depression. In a conservative model adjusting for life style factors and cardiovascular and antidepressant medication use we identified 8 metabolites, including 6 novel, significantly associated with depression. In individuals with depression, increased levels of retinol (vitamin A), 1-palmitoyl-2-palmitoleoyl-GPC (16:0/16:1) (lecithin) and mannitol/sorbitol and lower levels of hippurate, 4-hydroxycoumarin, 2-aminooctanoate (alpha-aminocaprylic acid), 10-undecenoate (11:1n1) (undecylenic acid), 1-linoleoyl-GPA (18:2) (lysophosphatidic acid; LPA 18:2) are observed. These metabolites are either directly food derived or are products of host and gut microbial metabolism of food-derived products. Our Mendelian randomization analysis suggests that low hippurate levels may be in the causal pathway leading towards depression. Our findings highlight putative actionable targets for depression prevention that are easily modifiable through diet interventions.

The Role of Microorganisms in the Nucleation of Carbonates, Environmental Implications and Applications

Microbially induced carbonate precipitation (MICP) is an important process in the synthesis of carbonate minerals, and thus, it is widely explored as a novel approach with potential for many technological applications. However, the processes and mechanisms involved in carbonate mineral formation in the presence of microbes are not yet fully understood. This review covers the current knowledge regarding the role of microbial cells and metabolic products (e.g., extracellular polymeric substances, proteins and amino acids) on the adsorption of divalent metals, adsorption of ionic species and as templates for crystal nucleation. Moreover, they can play a role in the mineral precipitation, size, morphology and lattice. By understanding how microbes and their metabolic products promote suitable physicochemical conditions (pH, Mg/Ca ratio and free CO32− ions) to induce carbonate nucleation and precipitation, the manipulation of the final mineral precipitates could be a reality for (geo)biotechnological approaches. The applications and implications of biogenic carbonates in areas such as geology and engineering are presented and discussed in this review, with a major focus on biotechnology.

Mini-review: Current and Future Perspectives on Microbially Focused Restoration Strategies in Tallgrass Prairies.

Ecosystem restoration is a critical conservation strategy, especially for increasing resilience and resistance to climate change. Current restoration efforts that convert reclaimed agricultural land to native tallgrass prairies typically focus on aboveground communities, but it can take decades to restore soil microbial biodiversity and function using these strategies, if they recover at all. This incomplete restoration can have detrimental impacts on longer-term restoration goals, such as supporting late-successional plant species and facilitating soil carbon sequestration. Soil microorganisms are key components in determining the fate of organic material that enters the soil. They mediate decomposition rates and contribute to plant-microbe-soil interactions, produce microbial biomass, necromass, and metabolic products, and physically protect soil carbon through aggregation. Interactions with plants and controls over soil carbon vary widely depending on the specific microbial taxa present, their physiology, their functional capabilities, and their responses to environmental stressors. Thus, the ability for new restorations, prairie conservation corridors, and prairies planted in marginal lands to act as carbon sinks and help balance greenhouse gas emissions can depend on the success of microbial restoration. Next-generation sequencing approaches can support novel methods for evaluating existing restoration practices and developing microbially focused management strategies. This review summarizes the growing body of literature describing microbially focused tallgrass prairie restoration and considers when and how integrating next-generation sequencing approaches into management efforts can be beneficial. We provide a roadmap for future restoration efforts where microbial ecologists, restoration ecologists, and land managers can work together to meet their goals to promote climate-ready restored ecosystems.

Attachment of Extracellular Metabolic Products of Lysinibacillus sp . DRG3 on Sand Surface under Variable Flow Velocities and Bioprocesses

The efficacy of microbially mediated stabilization of soil mass depends on soil aggregation and further depends on the complex interplay of environmental parameters, microbial extracellular metabolic products, and surface characteristics of soil particles. Failures of flood control dikes or similar structures often culminate from minor erosion of soil particles initiated by groundwater seepage. Although the introduction of microbial metabolic products in controlling soil erosion has been studied by researchers, the influence of slow fluvial activities on the composition, characteristics, and their impacts on attachment mechanisms of extracellular polymeric substances (EPS) on soil surfaces have remained unexplored. Impacts of slow fluvial activities on the amount and chemical composition of EPS produced by Lysinibacillus sp. DRG3, a nonpathogenic soil bacterium, and the attachment mechanisms of the EPS produced under noncalcifying, nonureolytic, and ureolytic calcifying bioprocesses on the sand surfaces were investigated. DRG3-inoculated specimens were incubated in the presence of steady circulation of aqueous media containing minimal concentrations of minerals and carbon and nitrogen sources to simulate groundwater movements through soil. Quantity, compactness, continuity, and viscosity of EPS and the amounts of carbohydrate, protein, lipid, DNA, and RNA found in EPS increased with circulation velocity and incubation duration. EPS were found to attach to sand through electrostatic interaction and hydrogen bonding. Internally, EPS components interacted with each other through electrostatic interaction, hydrogen bonding, and hydrophobic interaction. Electrostatic interaction appeared to weaken with increasing media circulation intensity and alkalinity. In contrast, EPS production and hydrogen bonding intensified under increased media circulation. Results of this investigation suggest microbe-mediated soil aggregation becomes stronger and more efficient under slow media circulation and are expected to have implications on microbially mediated soil stabilization, particularly in addressing soil erosion. This study provides useful insights for successful field implementation of biomediated soil stabilization. Work presented herein also demonstrates a role for microbial activities found in subterranean environments in strengthening an existing sand deposit.

Faster accumulation and greater contribution of glomalin to the soil organic carbon pool than amino sugars do under tropical coastal forest restoration.

Microbial metabolic products play a vital role in maintaining ecosystem multifunctionality, such as soil physical structure and soil organic carbon (SOC) preservation. Afforestation is an effective strategy to restore degraded land. Glomalin-related soil proteins (GRSP) and amino sugars are regarded as stable microbial-derived C, and their distribution within soil aggregates affects soil structure stability and SOC sequestration. However, the information about how afforestation affects the microbial contribution to SOC pools within aggregates is poorly understood. We assessed the accumulation and contribution of GRSP and amino sugars within soil aggregates along a restoration chronosequence (Bare land, Eucalyptus exserta plantation, native species mixed forest, and native forest) in tropical coastal terraces. Amino sugars and GRSP concentrations increased, whereas their contributions to the SOC pool decreased along the restoration chronosequence. Although microaggregates harbored greater microbial abundances, amino sugars and GRSP concentrations were not significantly affected by aggregate sizes. Interestingly, the contributions of amino sugars and GRSP to SOC pools decreased with decreasing aggregate size which might be associated with increased accumulation of plant-derived C. However, the relative change rate of GRSP was consistently greater in all restoration chronosequences than that of amino sugars. The accumulation of GRSP and amino sugars in SOC pools was closely associated with the dynamics of soil fertility and the microbial community. Our findings suggest that GRSP accumulates faster and contributes more to SOC pools during restoration than amino sugars did which was greatly affected by aggregate sizes. Afforestation substantially enhanced soil quality with native forest comprising species sequestering more SOC than the monoculture plantation did. Such information is invaluable for improving our mechanistic understanding of microbial control over SOC preservation during degraded ecosystem restoration. Our findings also show that plantations using arbuscular mycorrhizal plants can be an effective practice to sequester more soil carbon during restoration.