Crop byproducts supplemented in livestock feeds reduced greenhouse gas emissions.

Crop byproducts can be supplemented in livestock feeds to improve the utilization of resources and reduce greenhouse gas (GHG) emissions. We explored the mitigation potential of GHG emissions by supplementing crop byproducts in feeds based on a typical intensive dairy farm in China. Results showed that GHG emissions associated with production of forage were significantly decreased by 25.60 % when no GHG emissions were allocated to crop byproducts, and enteric methane emission was significantly decreased by 13.46 % on the basis of CO2 eq, g/kg fat and protein corrected milk. The supplementation did not affect lactation performance, rumen microbiota and microbial enzymes at the gene level. Metabolomics analysis revealed changes in amino acid catabolism of rumen fluid, which were probably responsible for more propionate production. In conclusion, supplementing crop byproducts in feeds can be a potential strategy to reduce GHG emissions of livestock.

Ridge with no-tillage facilitates microbial N2 fixation associated with methane oxidation in rice soil.

Aerobic methane-oxidizing bacteria (MOB) play a crucial role in mitigating the greenhouse gas methane emission, particularly prevalent in flooded wetlands. The implementation of ridge with no-tillage practices within a rice-rape rotation system proves effective in overcoming the restrictive redox conditions associated with waterlogging. This approach enhances capillary water availability from furrows, especially during periods of low rainfall, thereby supporting plant growth on the ridges. However, the microbe-mediated accumulation of soil organic carbon and nitrogen remains insufficiently understood under this agricultural practice, particularly concerning methane oxidation, which holds ecological and agricultural significance in the rice fields. In this study, the ridge and ditch soils from a 28-year-old ridge with no-tillage rice field experiment were utilized for incubation with 13C-CH4 and 15NN2 to estimate the methane-oxidizing and N2-fixing potentials. Our findings reveal a significantly higher net production of fresh soil organic carbon in the ridge compared to the ditch soil during methane oxidation, with values of 626 and 543 µg 13C g-1 dry weight soil, respectively. Additionally, the fixed 15N exhibited a twofold increase in the ridge soil (14.1 µg 15N g-1 dry weight soil) compared to the ditch soil. Interestingly, the result of DNA-based stable isotope probing indicated no significant differences in active MOB and N2 fixers between ridge and ditch soils. Both Methylocystis-like type II and Methylosarcina/Methylomonas-like type I MOB catalyzed methane into organic biomass carbon pools. Soil N2-fixing activity was associated with the 15N-labeling of methane oxidizers and non-MOB, such as methanol oxidizers (Hyphomicrobium) and conventional N2 fixers (Burkholderia). Methane oxidation also fostered microbial interactions, as evidenced by co-occurrence patterns. These results underscore the dual role of microbial methane oxidation - not only as a recognized sink for the potent greenhouse gas methane but also as a source of soil organic carbon and bioavailable nitrogen. This emphasizes the pivotal role of microbial methane metabolism in contributing to soil carbon and nitrogen accumulation in ridge with no-tillage systems.

Microbial pathways of nitrous oxide emissions and mitigation approaches in drylands.

Drylands refer to water scarcity and low nutrient levels, and their plant and biocrust distribution is highly diverse, making the microbial processes that shape dryland functionality particularly unique compared to other ecosystems. Drylands are constraint for sustainable agriculture and risk for food security, and expected to increase over time. Nitrous oxide (N2O), a potent greenhouse gas with ozone reduction potential, is significantly influenced by microbial communities in drylands. However, our understanding of the biological mechanisms and processes behind N2O emissions in these areas is limited, despite the fact that they highly account for total gaseous nitrogen (N) emissions on Earth. This review aims to illustrate the important biological pathways and microbial players that regulate N2O emissions in drylands, and explores how these pathways might be influenced by global changes for example N deposition, extreme weather events, and climate warming. Additionally, we propose a theoretical framework for manipulating the dryland microbial community to effectively reduce N2O emissions using evolving techniques that offer inordinate specificity and efficacy. By combining expertise from different disciplines, these exertions will facilitate the advancement of innovative and environmentally friendly microbiome-based solutions for future climate change vindication approaches.

Application of fenugreek in ruminant feed: implications for methane emissions and productivity.

Background: Human demand for meat and dairy products will increase as a result of economic development and population growth, and the farming of ruminants, such as cattle and sheep, will also increase. Methane (CH4) emission from the enteric fermentation of ruminant livestock is a major source of greenhouse gas emissions and a significant contributor to global warming. Meanwhile, growth performance is often limited and animals are more vulnerable to diseases in high-density, intensive farming, greatly reducing livestock productivity, so developing ways to reduce CH4 emissions and improve ruminant productivity has become a research hotspot. Studies have reported that fenugreek (Trigonella foenum-graecum L.) as feed additives have the potential to reduce ruminant methane and improve the productivity. However, systematic reviews of such studies are lacking. Methodology: In this review, databases of Google Scholar, Web of Science, PubMed, Scopus and Science Direct were used for the literature search. The initial keywords search was fenugreek or Trigonella foenum-graecum L. For more focused search, we added terms such as methane, rumen fermentation, growth, milk production and antioxidants. All were done for ruminants. The literature that conforms to the theme of this article is selected, summarized, and finally completed this article. Results: By regulating the rumen microbiome (suppressing protozoans, methanogenic bacteria, and fungi), fenugreek can lower CH4 emissions according to many in vitro anaerobic fermentation experiments. Fenugreek secondary metabolites (saponins and tannins) are responsible for this impact, but it is still unclear exactly how they work. Therefore, more long-term in vivo experiments are needed to verify its efficacy. Fenugreek is also rich in alkaloids, amino acids, flavonoids, saponins and phenolic acids. These compounds have been shown to have beneficial effects on ruminant growth, lactation, and total antioxidant capacity. Therefore, fenugreek has a great opportunity to develop into a new green feed additive. Conclusions: This review provides a summary of the effect of fenugreek and its bioactive compounds on rumen fermentation, CH4 emissions and production performance by ruminants. In addition, based on the available data, the possible biochemical pathway of fenugreek to reduce CH4 emissions in ruminants was described. Overall, the livestock feed industry has the opportunity to develop natural, environmentally-friendly feed additives based on fenugreek.

Nitrous oxide reduction by two partial denitrifying bacteria requires denitrification intermediates that cannot be respired.

Denitrification is a form of anaerobic respiration wherein nitrate (NO3-) is sequentially reduced via nitrite (NO2-), nitric oxide, and nitrous oxide (N2O) to dinitrogen gas (N2) by four reductase enzymes. Partial denitrifying bacteria possess only one or some of these four reductases and use them as independent respiratory modules. However, it is unclear if partial denitrifiers sense and respond to denitrification intermediates outside of their reductase repertoire. Here, we tested the denitrifying capabilities of two purple nonsulfur bacteria, Rhodopseudomonas palustris CGA0092 and Rhodobacter capsulatus SB1003. Each had denitrifying capabilities that matched their genome annotation; CGA0092 reduced NO2- to N2, and SB1003 reduced N2O to N2. For each bacterium, N2O reduction could be used both for electron balance during growth on electron-rich organic compounds in light and for energy transformation via respiration in darkness. However, N2O reduction required supplementation with a denitrification intermediate, including those for which there was no associated denitrification enzyme. For CGA0092, NO3- served as a stable, non-catalyzable molecule that was sufficient to activate N2O reduction. Using a ß-galactosidase reporter, we found that NO3- acted, at least in part, by stimulating N2O reductase gene expression. In SB1003, NO2- but not NO3- activated N2O reduction, but NO2- was slowly removed, likely by a promiscuous enzyme activity. Our findings reveal that partial denitrifiers can still be subject to regulation by denitrification intermediates that they cannot use.IMPORTANCEDenitrification is a form of microbial respiration wherein nitrate is converted via several nitrogen oxide intermediates into harmless dinitrogen gas. Partial denitrifying bacteria, which individually have some but not all denitrifying enzymes, can achieve complete denitrification as a community by cross-feeding nitrogen oxide intermediates. However, the last intermediate, nitrous oxide (N2O), is a potent greenhouse gas that often escapes, motivating efforts to understand and improve the efficiency of denitrification. Here, we found that at least some partial denitrifying N2O reducers can sense and respond to nitrogen oxide intermediates that they cannot otherwise use. The regulatory effects of nitrogen oxides on partial denitrifiers are thus an important consideration in understanding and applying denitrifying bacterial communities to combat greenhouse gas emissions.

A unified explanation for the morphology of raised peatlands.

Raised peatlands, or bogs, are gently mounded landforms that are composed entirely of organic matter1-4 and store the most carbon per area of any terrestrial ecosystem5. The shapes of bogs are critically important because their domed morphology4,6,7 accounts for much of the carbon that bogs store and determines how they will respond to interventions8,9 to stop greenhouse gas emissions and fires after anthropogenic drainage10-13. However, a general theory to infer the morphology of bogs is still lacking4,6,7. Here we show that an equation based on the processes universal to bogs explains their morphology across biomes, from Alaska, through the tropics, to New Zealand. In contrast to earlier models of bog morphology that attempted to describe only long-term equilibrium shapes4,6,7 and were, therefore, inapplicable to most bogs14-16, our approach makes no such assumption and makes it possible to infer full shapes of bogs from a sample of elevations, such as a single elevation transect. Our findings provide a foundation for quantitative inference about the morphology, hydrology and carbon storage of bogs through Earth's history, as well as a basis for planning natural climate solutions by rewetting damaged bogs around the world.

Carbon emissions from Australian Sphagnum peatlands increase with feral horse (Equus caballus) presence.

Peatlands are globally significant carbon sinks, but when disturbed, have the potential to release carbon back to the atmosphere as greenhouse gases. Feral horse populations in the Australian Alps degrade Sphagnum peatlands, which are highly sensitive to disturbance. However, the link between this degradation and peatland carbon cycling is not understood. Here, we compared the autumn daytime carbon dioxide (CO2) and methane (CH4) fluxes of 12 alpine and subalpine Sphagnum peatlands in Kosciuszko National Park, Australia. The presence of feral horses at these sites was correlated with higher carbon loss: sites with horses were losing carbon to the atmosphere (4.83 and 8.18 g CO2-e m-2 d-1 in areas of Sphagnum moss and bare soil, respectively), whereas sites without horses were removing carbon from the atmosphere (-6.39 g CO2-e m-2 d-1). Sites with feral horses also had higher soil bulk density, temperature, and electrical conductivity (EC), and higher water pH, EC, and turbidity, than sites without horses. Our findings suggest that excluding feral horses from peatland areas could reduce rates of carbon loss to the atmosphere, in addition to improving overall site condition, peat soil condition, and water quality. We discuss potential management applications, further research, and restoration opportunities arising from these results.

Nitrification and urease inhibitors mitigate global warming potential and ammonia volatilization from urea in rice-wheat system in India: A field to lab experiment.

The efficacy of alternative nitrogenous fertilizers for mitigating greenhouse gas and ammonia emissions from a rice-wheat cropping system in northern India was addressed in a laboratory incubation experiment using soil from a 10-year residue management field experiment (crop residue removal, CRR, vs. incorporation, CRI). Neem coated urea (NCU), standard urea (U), urea ammonium sulfate (UAS), and two alternative fertilizers, urea + urease inhibitor NBPT (UUI) and urea + urease inhibitor NBPT + nitrification inhibitor DMPSA (UUINI) were compared to non-fertilized controls for four weeks in incubation under anaerobic condition. Effects of fertilizers on global warming potential (GWP) and ammonia volatilization were dependent on residue treatment. Relative to standard urea, NCU reduced GWP by 11 % in CRI but not significantly in CRR; conversely, UAS reduced GWP by 12 % in CRR but not significantly in CRI. UUI and UUINI reduced GWP in both residue treatments and were more effective in CRI (21 % and 26 %) than CRR (15 % and 14 %). Relative to standard urea, NCU increased ammonia volatilization by 8 % in CRI but not significantly in CRR. Ammonia volatilization was reduced most strongly by UUI (40 % in CRI and 37 % in CRR); it was reduced 28-29 % by UUINI and 12-15 % by UAS. Overall, the urease inhibitor, alone and in combination with the nitrification inhibitor, was more effective in mitigating greenhouse gas and ammonia emissions than NCU. However, these products need to be tested in field settings to validate findings from the controlled laboratory experiment.

Effect of diets with different crude protein levels on ammonia and greenhouse gas emissions from a naturally ventilated dairy housing.

Less crude protein (CP) in the diet can reduce nitrogen excretion of dairy cattle and lower their ammonia (NH3) and nitrous oxide (N2O) formation potential. The diet composition might also affect emissions of methane (CH4) and carbon dioxide (CO2). However, previous studies did not investigate the effect of diets with different CP levels that are customary practice in Switzerland on NH3 and greenhouse gas emissions on a practical scale. In a case-control approach, we quantified the emissions (NH3, N2O, CH4, CO2) in two separate but identical compartments of a naturally ventilated cubicle housing for lactating dairy cows over six days by using a tracer ratio method. Cows in one compartment received a diet with 116 g CP per kilogram dry matter (DM), in the other compartment with 166 g CP kg-1 DM. Subsequently, diets were switched for a second 6-day measurement phase. The results showed that the diet, aside from outside temperature and wind speed in the housing, was driving NH3 and N2O emissions. NH3 and N2O emission reduction per livestock unit (LU) was on average 46 % and almost 20 %, respectively, for the diet with low CP level compared to the higher CP level. In addition, strong relationships were observed between the CP content of the diet, N excretion in the urine and the milk urea content. An increased temperature or wind speed led to a clear increase in NH3 emissions. Differences in CH4 and CO2 emissions per LU indicated a significant influence of the diet, which cannot be attributed to the CP content. Our herd-level study demonstrated that a significant reduction in NH3 and N2O emissions related to LU, energy-corrected milk as well as DM intake can be achieved by lowering the CP content in the diet.

Global contributions of milk to nutrient supplies and greenhouse gas emissions.

Globally, ruminant production systems used to synthesize meat and milk differ tremendously in terms of their efficiency, productivity, and environmental impacts. Regardless of this variability, milk has been repeatedly identified as an essential source of nutrients for humans. The objective of this work was to characterize global contributions of fluid milk to human food and nutrient supplies, greenhouse gas emissions, and water withdrawal. Data were leveraged from the United Nations Food and Agriculture Organization to estimate global supplies of agricultural products. Trade of agricultural products and waste of those products, along with use of human food for livestock feed were accounted for before estimating human nutrient supplies. The contributions of milk to human-edible nutrient supplies were then enumerated in terms of their proportion of total nutrients supplied by the agricultural system and in terms of the human population's requirement for that nutrient. We identified that fluid milk provides over 10% of consumable supplies of vitamin B12, vitamin A, riboflavin, and calcium available for humans globally. In terms of human nutrient requirements, milk provides sufficient vitamin B12 to meet the needs of over 60% of the global population, riboflavin to satisfy 50% of the population, and calcium and phosphorus for over 35% of the population. Compared with other foods, milk ranked among the highest in terms of nutrient-to-calorie ratio for numerous amino acids, phosphorus, calcium, and riboflavin. Conditional dependencies were identified between greenhouse gas emissions and ruminant milk and meat, but not between water withdrawal and milk production. When evaluating the trade-offs in nutrient use versus nutrient provision for producing milk or producing all ruminant products, the production of ruminants worldwide was associated with both net increases and net decreases of several key nutrients. Continued work focusing on strategies to reduce the environmental impact of milk production will improve the utility of milk for feeding the growing global population.

Degradation reduces greenhouse gas emissions while weakening ecosystem carbon sequestration of Moso bamboo forests.

Moso bamboo (Phyllostachys heterocycla cv. Pubescens) is well known for its high capacity to sequester atmospheric carbon, which has a unique role to play in combating global warming. Many Moso bamboo forests are gradually degrading due to rising labor costs and falling prices for bamboo timber. However, the mechanisms of carbon sequestration of Moso bamboo forest ecosystems in response to degradation are unclear. In this study, a space-for-time substitution approach was used to select Moso bamboo forest plots with the same origin and similar stand types, but different years of degradation, and four degradation sequences, continuous management (CK), 2 years of degradation (D-I), 6 years of degradation (D-II) and 10 years of degradation (D-III). A total of 16 survey sample plots were established based on the local management history files. After a 12-month monitoring, the response characteristics of soil greenhouse gases (GHG) emissions, vegetation, and soil organic carbon sequestration in different degradation sequences were evaluated to reveal the differences in the ecosystem carbon sequestration. The results indicated that under D-I, D-II, and D-III, the global warming potential (GWP) of soil GHG emissions decreased by 10.84 %, 17.75 %, and 31.02 %, while soil organic carbon (SOC) sequestration increased by 2.82 %, 18.11 %, and 4.68 %, and vegetation carbon sequestration decreased by 17.30 %, 33.49 %, and 44.76 %, respectively. In conclusion, compared to CK, the ecosystem carbon sequestration was reduced by 13.79 %, 22.42 %, and 30.31 %, respectively. This suggests that degradation reduces soil GHG emissions but weakens the ecosystem carbon sequestration capability. Therefore, in the background of global warming and the strategic goal of carbon neutrality, restorative management of degraded Moso bamboo forests is critically needed to improve the carbon sequestration potential of the ecosystem.

Associative effects between Chlorella vulgaris microalgae and Moringa oleifera leaf silage used at different levels decreased in vitro ruminal greenhouse gas production and altered ruminal fermentation.

Moringa oleifera leaf silage and Chlorella vulgaris microalgae mixture used at different levels replacing concentrate feed mixture in the diets of ruminant were evaluated using an in vitro gas production technique. C. vulgaris was included in rations at 1, 2, and 3% concentrations. The concentrate feed mixture was replaced by M. oleifera silage up to 100%. Productions of total gas, methane (CH4), and carbon dioxide (CO2) and ruminal fermentation were measured. Interactions between M. oleifera and C. vulgaris levels were observed for the rate of total gas production, lag time of CH4 production, pH, and concentrations of ammonia-N (NH3-N), total volatile fatty acid (VFA), and propionate. The lower level of C. vulgaris increased total gas production and decreased CH4 and CO2 production as well as improved nutrient degradability compared to the other levels of C. vulgaris which showed less improvement in these parameters. The replacement levels of concentrate at 10 to 40% with M. oleifera linearly increased the asymptotic total gas production and degradabilities of dry matter and acid detergent fiber (P<0.05), while the replacement levels of 80 to 100% lowered the asymptotic (P<0.01) for the ration containing 1% C. vulgaris. Rations containing M. oleifera linearly increased the lag time of total gas production (P<0.05), neutral detergent fiber degradability, and ruminal bacteria count and decreased the asymptotic CH4 and CO2 production and ruminal protozoal count (P<0.05). For the rations containing 2 and 3% C. vulgaris, M. oleifera linearly (P<0.01) decreased the asymptotic total gas, CH4 and CO2 production, and ruminal protozoal count. The lag time of CH4 production was not affected at 1% C. vulgaris, but reduced linearly at 2% and 3% C. vulgaris. Ruminal pH was not affected by M. oleifera, but was increased by C. vulgaris at 3% level. Overall, M. oleifera in the ration containing C. vulgaris at all levels increased ruminal NH3-N concentration; however, C. vulgaris at 2% level and M. oleifera at levels up to 40% lowered NH3-N concentration. M. oleifera rations with 1% and 2% C. vulgaris increased the concentrations of total VFA and propionate, whereas these variables were not affected at 3% C. vulgaris level. In conclusion, replacement of concentrate mixture with M. oleifera at 30% level and C. vulgaris at 1% in the diet due to associative effects may improve ruminal fermentation and feed degradability while decreasing CH4 production.

The long overlooked microalgal nitrous oxide emission: Characteristics, mechanisms, and influencing factors in microalgae-based wastewater treatment scenarios.

Microalgae-based wastewater treatment is particularly advantageous in simultaneous CO2 sequestration and nutrients recovery, and has received increasing recognition and attention in the global context of synergistic pollutants and carbon reduction. However, the fact that microalgae themselves can generate the potent greenhouse gas nitrous oxide (N2O) has been long overlooked, most previous research mainly regarded microalgae as labile organic carbon source or oxygenic approach that interfere bacterial nitrification-denitrification and the concomitant N2O production. This study, therefore, summarized the amount and rate of N2O emission in microalgae-based systems, interpreted in-depth the multiple pathways that lead to NO formation as the key precursor of N2O, and the pathways that transform NO into N2O. Reduction of nitrite could take place in either the cytoplasm or the mitochondria to form NO by a series of enzymes, while the NO could be enzymatically reduced to N2O at the chloroplasts or the mitochondria respectively under light and dark conditions. The influences of abiotic factors on microalgal N2O emission were analyzed, including nitrogen types and concentrations that directly affect the nitrogen transformation routes, illumination and oxygen conditions that regulate the enzymatic activities related to N2O generation, and other factors that indirectly interfere N2O emission via NO regulation. The uncertainty of microalgae-based N2O emission in wastewater treatment scenarios were emphasized, which would be particularly impacted by the complex competition between microalgae and ammonia oxidizing bacteria or nitrite oxidizing bacteria over ammonium or inorganic carbon source. Future studies should put more efforts in improving the compatibility of N2O emission results expressions, and adopting consistent NO detection methods for N2O emission prediction. This review will provide much valuable information on the characteristics and mechanisms of microalgal N2O emission, and arouse more attention to the non-negligible N2O emission that may impair overall greenhouse gas reduction efficiency in microalgae-based wastewater treatment systems.

Could propionate formation be used to reduce enteric methane emission in ruminants?

To meet the increasing demand for meat and milk, the livestock industry has to increase its production. Without improving its efficiency, increased livestock, especially ruminant animals, will worsen the environmental damage, mainly from enteric CH4 emission. Enteric CH4 emission from ruminants not only exacerbates the global greenhouse effect but also reduces feed energy efficiency for the animals. The rumen disposes of metabolic hydrogen ([H]) primarily through methanogenesis and propionate formation. Theoretically, redirecting [H] from methanogenesis to propionate formation to reduce CH4 production could be a promising method for reducing greenhouse gas emission from ruminants, and may also increase animal productivity. However, the feasibility of such a shifting has never been synthetically discussed. Thus, the objectives of this review are to provide a brief overview of the biochemical pathways for disposal of H2 in the rumen, to analyze current feeding strategies that potentially promote propionate formation and their effects on methanogenesis, and to deliberate the challenge and opportunity associated with propionate formation as a sink to store the [H] shifting from enteric CH4 inhibition.

Functional Diversity and CO2 Emission Characteristics of Soil Bacteria during the Succession of Halophyte Vegetation in the Yellow River Delta.

Carbon dioxide (CO2) is the most important greenhouse gas in the atmosphere, which is mainly derived from microbial respiration in soil. Soil bacteria are an important part of the soil ecosystem and play an important role in the process of plant growth, mineralization, and decomposition of organic matter. In this paper, we discuss a laboratory incubation experiment that we conducted to investigate the CO2 emissions and the underlying bacterial communities under the natural succession of halophyte vegetation in the Yellow River Delta by using high-throughput sequencing technology and PICRUSt functional prediction. The results showed that the bacterial abundance and diversity increased significantly along with the succession of halophyte vegetation. Metabolic function is the dominant function of soil bacteria in the study area. With the succession of halophyte vegetation, the rate of CO2 emissions gradually increased, and were significantly higher in soil covered with vegetation than that of the bare land without vegetation coverage. These results helped to better understand the relationships of soil bacterial communities under the background of halophyte vegetation succession, which can help to make efficient strategies to mitigate CO2 emissions and enhance carbon sequestration.

Denitrification and N2O Emission in Estuarine Sediments in Response to Ocean Acidification: From Process to Mechanism.

Global estuarine ecosystems are experiencing severe nitrogen pollution and ocean acidification (OA) simultaneously. Sedimentary denitrification is an important way of reactive nitrogen removal but at the same time leads to the emission of large amounts of nitrous oxide (N2O), a potent greenhouse gas. It is known that OA in estuarine regions could impact denitrification and N2O production; however, the underlying mechanism is still underexplored. Here, sediment incubation and pure culture experiments were conducted to explore the OA impacts on microbial denitrification and the associated N2O emissions in estuarine sediments. Under neutral (in situ) conditions, fungal N2O emission dominated in the sediment, while the bacterial and fungal sources had a similar role under acidification. This indicated that acidification decreased the sedimentary fungal denitrification and likely inhibited the activity of fungal denitrifiers. To explore molecular mechanisms, a denitrifying fungal strain of Penicillium janthinellum was isolated from the sediments. By using deuterium-labeled single-cell Raman spectroscopy and isobaric tags for relative and absolute quantitation proteomics, we found that acidification inhibited electron transfers in P. janthinellum and downregulated expressions of the proteins related to energy production and conservation. Two collaborative pathways of energy generation in the P. janthinellum were further revealed, that is, aerobic oxidative phosphorylation and TCA cycle and anoxic pyruvate fermentation. This indicated a distinct energy supply strategy from bacterial denitrification. Our study provides insights into fungi-mediated nitrogen cycle in acidifying aquatic ecosystems.

Borgs are giant genetic elements with potential to expand metabolic capacity.

Anaerobic methane oxidation exerts a key control on greenhouse gas emissions1, yet factors that modulate the activity of microorganisms performing this function remain poorly understood. Here we discovered extraordinarily large, diverse DNA sequences that primarily encode hypothetical proteins through studying groundwater, sediments and wetland soil where methane production and oxidation occur. Four curated, complete genomes are linear, up to approximately 1 Mb in length and share genome organization, including replichore structure, long inverted terminal repeats and genome-wide unique perfect tandem direct repeats that are intergenic or generate amino acid repeats. We infer that these are highly divergent archaeal extrachromosomal elements with a distinct evolutionary origin. Gene sequence similarity, phylogeny and local divergence of sequence composition indicate that many of their genes were assimilated from methane-oxidizing Methanoperedens archaea. We refer to these elements as 'Borgs'. We identified at least 19 different Borg types coexisting with Methanoperedens spp. in four distinct ecosystems. Borgs provide methane-oxidizing Methanoperedens archaea access to genes encoding proteins involved in redox reactions and energy conservation (for example, clusters of multihaem cytochromes and methyl coenzyme M reductase). These data suggest that Borgs might have previously unrecognized roles in the metabolism of this group of archaea, which are known to modulate greenhouse gas emissions, but further studies are now needed to establish their functional relevance.

A facile process for adipic acid production in high yield by oxidation of 1,6-hexanediol using the resting cells of Gluconobacter oxydans.

BACKGROUND: Adipic acid (AA) is one of the most important industrial chemicals used mainly for the production of Nylon 6,6 but also for making polyurethanes, plasticizers, and unsaturated polyester resins, and more recently as a component in the biodegradable polyester poly(butylene adipate terephthalate) (PBAT). The main route for AA production utilizes benzene as feedstock and generates copious amounts of the greenhouse gas NO2. Hence, alternative clean production routes for AA from renewable bio-based feedstock are drawing increasing attention. We have earlier reported the potential of Gluconobacter oxydans cells to oxidize 1,6-hexanediol, a potentially biobased diol to AA. RESULTS: The present report involves a study on the effect of different parameters on the microbial transformation of 1,6-hexanediol to adipic acid, and subsequently testing the process on a larger lab scale for achieving maximal conversion and yield. Comparison of three wild-type strains of G. oxydans DSM50049, DSM2003, and DSM2343 for the whole-cell biotransformation of 10 g/L 1,6-hexanediol to adipic acid in batch mode at pH 7 and 30 °C led to the selection of G. oxydans DSM50049, which showed 100% conversion of the substrate with over 99% yield of adipic acid in 30 h. An increase in the concentrations of the substrate decreased the degree of conversion, while the product up to 25 g/L in batch and 40 g/L in fed-batch showed no inhibition on the conversion. Moreover, controlling the pH of the reaction at 5-5.5 was required for the cascade oxidation reactions to work. Cell recycling for the biotransformation resulted in a significant decrease in activity during the third cycle. Meanwhile, the fed-batch mode of transformation by intermittent addition of 1,6-hexanediol (30 g in total) in 1 L scale resulted in complete conversion with over 99% yield of adipic acid (approximately 37 g/L). The product was recovered in a pure form using downstream steps without the use of any solvent. CONCLUSION: A facile, efficient microbial process for oxidation of 1,6-hexanediol to adipic acid, having potential for scale up was demonstrated. The entire process is performed in aqueous medium at ambient temperatures with minimal greenhouse gas emissions. The enzymes involved in catalyzing the oxidation steps are currently being identified.

Viruses direct carbon cycling in lake sediments under global change.

Global change is altering the vast amount of carbon cycled by microbes between land and freshwater, but how viruses mediate this process is poorly understood. Here, we show that viruses direct carbon cycling in lake sediments, and these impacts intensify with future changes in water clarity and terrestrial organic matter (tOM) inputs. Using experimental tOM gradients within sediments of a clear and a dark boreal lake, we identified 156 viral operational taxonomic units (vOTUs), of which 21% strongly increased with abundances of key bacteria and archaea, identified via metagenome-assembled genomes (MAGs). MAGs included the most abundant prokaryotes, which were themselves associated with dissolved organic matter (DOM) composition and greenhouse gas (GHG) concentrations. Increased abundances of virus-like particles were separately associated with reduced bacterial metabolism and with shifts in DOM toward amino sugars, likely released by cell lysis rather than higher molecular mass compounds accumulating from reduced tOM degradation. An additional 9.6% of vOTUs harbored auxiliary metabolic genes associated with DOM and GHGs. Taken together, these different effects on host dynamics and metabolism can explain why abundances of vOTUs rather than MAGs were better overall predictors of carbon cycling. Future increases in tOM quantity, but not quality, will change viral composition and function with consequences for DOM pools. Given their importance, viruses must now be explicitly considered in efforts to understand and predict the freshwater carbon cycle and its future under global environmental change.

Symposium review: Defining a pathway to climate neutrality for US dairy cattle production.

The US dairy industry has made substantial gains in reducing the greenhouse gas emission intensity of a gallon of milk. At the same time, consumer and investor interest for improved environmental benefits or reduced environmental impact of food production continues to grow. Following a trend of increasing greenhouse gas emission commitments for businesses across sectors of the economy, the US dairy industry has committed to a goal of net zero greenhouse gas emissions by 2050. The Paris Climate Accord's goal is to reduce warming of the atmosphere to less than 1.5 to 2°C based on preindustrial levels, which is different from emission goals of historic climate agreements that focus on emission reduction targets. Most of the emissions that account for the greenhouse gas footprint of a gallon of milk are from the short-lived climate pollutant CH4, which has a half-life of approximately 10 yr. The relatively new accounting system Global Warming Potential Star and the unit CO2 warming equivalents gives the industry the appropriate metrics to quantify their current and projected warming impact on future emissions. Incorporating this metric into potential future emissions pathways can allow the industry to understand the magnitude of emissions reductions needed to no longer contribute additional warming. Deterministic modeling was performed across the dairy industry's emission areas of enteric fermentation, manure management, feed production, and other upstream emissions necessary for dairy production. By reducing farm-level absolute emissions by 23% based on current levels, there is the opportunity for the US dairy industry to realize climate neutrality within the next few decades.