Estimates of animal methane emissions

Use of methane production data for genetic prediction in beef cattle: A review

Methane (CH4) is a greenhouse gas that is produced and emitted from ruminant animals through enteric fermentation. Methane production from cattle has an environmental impact and is an energetic inefficiency. In the beef industry, CH4 production from enteric fermentation impacts all three pillars of sustainability: environmental, social, and economic. A variety of factors influence the quantity of CH4 produced during enteric fermentation, including characteristics of the rumen and feed composition. There are several methodologies available to either quantify or estimate CH4 production from cattle, all with distinct advantages and disadvantages. Methodologies include respiration calorimetry, the sulfur-hexafluoride tracer technique, infrared spectroscopy, prediction models, and the GreenFeed system. Published studies assess the accuracy of the various methodologies and compare estimates from different methods. There are advantages and disadvantages of each technology as they relate to the use of these phenotypes in genetic evaluation systems. Heritability and variance components of CH4 production have been estimated using the different CH4 quantification methods. Agreement in both the amounts of CH4 emitted and heritability estimates of CH4 emissions between various measurement methodologies varies in the literature. Using greenhouse gas traits in selection indices along with relevant output traits could provide producers with a tool to make selection decisions on environmental sustainability while also considering productivity. The objective of this review was to discuss factors that influence CH4 production, methods to quantify CH4 production for genetic evaluation, and genetic parameters of CH4 production in beef cattle.

Modulation of feed digestibility, nitrogen metabolism, energy utilisation and serum biochemical indices by dietary Ligularia virgaurea supplementation in Tibetan sheep

Ligularia virgaurea is the most widely functional native herbage in the alpine meadow pastures of the Qinghai-Tibet Plateau (QTP) and has multiple pharmacological and biological activities. The effect of L. virgaurea as a dietary component on the digestion and metabolism of sheep was evaluated by conducting feeding trials in metabolic cages. Thirty-two Tibetan yearling rams (29 ± 1.56 kg BW) were randomly allotted to four groups included in a completely randomised design with eight animals per treatment. Sheep were fed a basal diet (freshly native pasture) without the addition of L. virgaurea (control) or with the addition of L. virgaurea (100, 200, or 300 mg/kg BW per day) for 45 days. Addition of L. virgaurea to the diet of Tibetan sheep was found to influence the average daily gain (quadratic [Q], P < 0.001), feed conversion ratio (Q, P = 0.002), CH4 emissions (linear [L], P = 0.029), DM (Q, P = 0.012), neutral detergent fibre (Q, P = 0.017), acid detergent fibre (ADF) (Q, P = 0.027), and ether extract (EE) intake (Q, P = 0.026). Apparently, different levels of L. virgaurea affected the digestibility coefficients of DM, ADF, and EE (L, P > 0.05; Q, P < 0.05). The nitrogen (N) intake (Q, P = 0.001), retained nitrogen (Q, P < 0.001), and N utilisation efficiency (L, P > 0.05; Q, P ≤ 0.001) were also affected by the dietary inclusion of L. virgaurea. Effects of L. virgaurea feeding were also witnessed on methane energy (CH4-E) (L, P = 0.029), gross energy (GE) (Q, P = 0.013), digestible energy (DE) (Q, P = 0.015), and metabolisable energy (ME) intake (Q, P = 0.015). Energy utilisation efficiency expressed as a proportion of GE intake (DE/GE intake, ME/GE intake, ME/DE intake, FE/GE intake, and CH4-E/GE intake) manifested quadratic changes (P < 0.05) with the increase in the L. virgaurea supplementation level. The addition of L. virgaurea increased the activity of superoxide dismutase (Q, P = 0.026) and glutathione peroxidase activity (Q, P = 0.039) in the serum. Overall, the greatest improvement of feed digestibility, N retention, energy utilisation, and antioxidant capacity of Tibetan sheep was yielded by the inclusion of 200 mg/kg BW per day of L. virgaurea. Therefore, the addition of an appropriate amount of L. virgaurea to the diet of Tibetan sheep is safe and natural, and may enhance the sustainability of small ruminant production systems in QTP areas.

Prokaryotic Diversity of Ruminal Content and Its Relationship with Methane Emissions in Cattle from Kazakhstan

In this study, we analyzed the microbial composition of the rumen contents of cattle from Kazakhstan. Specifically, samples of the liquid and solid fractions of the rumen were collected to determine the quantitative and qualitative composition of methanogenic archaea. Cattle were six steers receiving hay-concentrate feeding. Methane emission was determined by repeated measurements for each animal. Rumen samples were then taken from fistulas and analyzed using 16S metabarcoding via Next-Generation Sequencing (NGS). The difference between the rumen fractions was investigated, resulting in differential distribution of the families Streptococccaceae, Lactobacillaceae, Desulfobulbaceae, and Succinivibrionaceae, which were more abundant in the liquid fraction, while Thalassospiraceae showed a higher presence in the solid fraction. These differences can be explained by the fact that fibrolytic bacteria are associated with the solid fraction compared to the liquid. A relationship between methane emission and methanogenic microbiota was also observed. Steers producing more methane showed microbiota richer in methanogens; specifically, most Mathanobacteriaceae resided in the liquid fraction and solid fraction of animals 1 and 6, respectively. The same animals carried most of the Methanobrevibacter and Methanosphaera genera. On the contrary, animals 2, 3, and 5 hosted a lower amount of methanogens, which also agreed with the data on methane emissions. In conclusion, this study demonstrated a relationship between methane emission and the content of methanogenic archaea in different rumen fractions collected from cattle in Kazakhstan. As a result of the studies, it was found that the solid fraction of the rumen contained more genera of methanogens than the liquid fraction of the rumen. These results prove that taking rumen contents through a fistula is more useful than taking it through a probe. The presented data may be of interest to scientists from all over the world engaged in similar research in a comparative aspect.

Supplemental dietary Selenohomolanthionine affects growth and rumen bacterial population of Shaanbei white cashmere wether goats

Selenium (Se) is an important trace element for all livestock growth. However, little is known about the dietary supplementation of Selenohomolanthionine (SeHLan) effect on growth and rumen microbiota of cashmere goats. In this study, thirty-two growing Shaanbei white cashmere wether goats with mean body weight (26.18 ± 2.71) kg were randomly assigned into 4 treatments, each with 8 replicates. The goats in 4 experimental groups were fed the basal diet (0.016 mg/kg Se) added with organic Se in the form of SeHLan, namely, control group (CG, added 0 mg/kg Se), low Se group (LSE, added 0.3 mg/kg Se), medium Se group (MSE, added 0.6 mg/kg Se), and high Se group (HSE, added 1.2 mg/kg Se). The feed experiment lasted for 70 days including 10-day adaptation, followed by 11 days digestibility trial including 7-day adaptation and 4-day collection period. On the last day of feeding experiment, rumen fluid was collected for microbial community analysis. The feed, orts, and fecal samples were collected for chemical analysis during digestibility trial. The results showed that average daily feed intake (ADFI) and the apparent digestibility of crude protein (CP) were both quadratic ally increased with increased SeHLan supply (P_quadratic < 0.05), while average daily gain (ADG) and feed conversion ratio (FCR) showed a linear response (P_linear < 0.05). The ADFI and ADG were all highest in the MSE group, which also had the lowest FCR (P < 0.05). Alpha diversity indices of the microbial community did not differ among four treatments. While principal coordinates analysis (PCoA) showed that rumen bacterial population differed among four groups. Taxonomic analysis revealed that Bacteroidetes, Firmicutes, and Euryarchaeota were the dominant phyla. The dominant families were Prevotellaceae, Selenomonadaceae, Methanobacteriaceae, and Bifidobacteriaceae. The significantly different rumen bacterial genera were found to be Methanobrevibacter, Quinella, Christensenellaceae_R-7_group, Veillonellaceae_UCG-001, and Succinivibrionaceae_UCG-002 (P < 0.05). In addition, Tax4fun analysis revealed that SeHLan supplemented groups enhanced the enrichment of genes related to energy metabolism, amino acid metabolism, carbohydrate metabolism, and enzymes. Twenty-eight pathways showed significant differences among four treatment groups (P < 0.05). In conclusion, dietary supplementation of medium SeHLan significantly affects rumen bacterial composition and ultimately promotes Shaanbei white cashmere wether goats nutrient digestibility and growth.

Dose–Response Effects of Bamboo Leaves on Rumen Methane Production, Fermentation Characteristics, and Microbial Abundance In Vitro

Simple Summary

Due to economic, environmental, and nutritional considerations, mitigating enteric methane production from ruminants is an important issue. Nutritionists have recently shown that feeding livestock natural feed additives could ameliorate this problem, due to the antimicrobial activities of the biologically active components in the additives. Bamboo is widely distributed in Asia and is currently being used in construction and paper pulp production, which results in a significant amount of bamboo leaves as by-products. The present study investigated whether bamboo leaves feeding can decrease methane production in ruminants. Here we found that bamboo leaves supplementation in vitro caused a 12.7–34.2% reduction in methane production after 12 and 48 h. Further studies are needed to demonstrate the effect of bamboo leaves supplementation in vivo, to determine its potential for mitigating methane production from ruminants.

Abstract

Ruminants produce large amounts of methane as part of their normal digestive processes. Recently, feed additives were shown to inhibit the microorganisms that produce methane in the rumen, consequently reducing methane emissions. The objective of this study was to evaluate the dose–response effect of Phyllostachys nigra var. henonis (PHN) and Sasa borealis supplementation on in vitro rumen fermentation, methane, and carbon dioxide production, and the microbial population. An in vitro batch culture system was used, incubated without bamboo leaves (control) or with bamboo leaves (0.3, 0.6, and 0.9 g/L). After 48 h, total gas, methane, and carbon dioxide production decreased linearly with an increasing dose of bamboo leaves supplementation. The total volatile fatty acid, acetate, and acetate-to-propionate ratio were affected quadratically with increasing doses of bamboo leaves supplementation. In addition, propionate decreased linearly. Butyrate was increased linearly with increasing doses of PHN supplementation. The absolute values of total bacteria and methanogenic archaea decreased linearly and quadratically with an increasing dose of PHN treatment after 48 h. These results show that bamboo leaves supplementation can reduce methane production by directly affecting methanogenic archaea, depressing the metabolism of methanogenic microbes, or transforming the composition of the methanogenic community. These results need to be validated using in vivo feeding trials before implementation.

Enteric Methane Emissions and Animal Performance in Dairy and Beef Cattle Production: Strategies, Opportunities, and Impact of Reducing Emissions

Enteric methane (CH4) emissions produced by microbial fermentation in the rumen resulting in the emission of greenhouse gases (GHG) into the atmosphere. The GHG emissions reduction from the livestock industry can be attained by increasing production efficiency and improving feed efficiency, by lowering the emission intensity of production, or by combining the two. In this work, information was compiled from peer-reviewed studies to analyze CH4 emissions calculated per unit of milk production, energy-corrected milk (ECM), average daily gain (ADG), dry matter intake (DMI), and gross energy intake (GEI), and related emissions to rumen fermentation profiles (volatile fatty acids [VFA], hydrogen [H2]) and microflora activities in the rumen of beef and dairy cattle. For dairy cattle, there was a positive correlation (p < 0.001) between CH4 emissions and DMI (R2 = 0.44), milk production (R2 = 0.37; p < 0.001), ECM (R2 = 0.46), GEI (R2 = 0.50), and acetate/propionate (A/P) ratio (R2 = 0.45). For beef cattle, CH4 emissions were positively correlated (p < 0.05−0.001) with DMI (R2 = 0.37) and GEI (R2 = 0.74). Additionally, the ADG (R2 = 0.19; p < 0.01) and A/P ratio (R2 = 0.15; p < 0.05) were significantly associated with CH4 emission in beef steers. This information may lead to cost-effective methods to reduce enteric CH4 production from cattle. We conclude that enteric CH4 emissions per unit of ECM, GEI, and ADG, as well as rumen fermentation profiles, show great potential for estimating enteric CH4 emissions.

Climate Change and Livestock Production: A Literature Review

Globally, the climate is changing, and this has implications for livestock. Climate affects livestock growth rates, milk and egg production, reproductive performance, morbidity, and mortality, along with feed supply. Simultaneously, livestock is a climate change driver, generating 14.5% of total anthropogenic Greenhouse Gas (GHG) emissions. Herein, we review the literature addressing climate change and livestock, covering impacts, emissions, adaptation possibilities, and mitigation strategies. While the existing literature principally focuses on ruminants, we extended the scope to include non-ruminants. We found that livestock are affected by climate change and do enhance climate change through emissions but that there are adaptation and mitigation actions that can limit the effects of climate change. We also suggest some research directions and especially find the need for work in developing country settings. In the context of climate change, adaptation measures are pivotal to sustaining the growing demand for livestock products, but often their relevance depends on local conditions. Furthermore, mitigation is key to limiting the future extent of climate change and there are a number of possible strategies.

The Ability of Hop Extracts to Reduce the Methane Production of Methanobrevibacter ruminantium

Background

Methane emissions from agriculture are responsible for over 40% of the world's greenhouse gas emissions. In the past, antibiotics were used to control methane production by animals, but concerns over the emergence and spread of antibiotic-resistant bacteria to humans have prompted a search for alternative approaches. Hops are the flowers of the hop plant Humulus lupulus. They have been used to feed cattle for many years and are known to contain antibacterial compounds, and their extracts have been shown to kill members of the Mycobacterium spp including Mycobacterium bovis, the causative agent of bovine tuberculosis as well as a number of human pathogens. In this study, hop extracts were studied for their ability to inhibit methane production from Methanobrevibacter ruminantium, a major methane-producing archaeon found in the rumen of cattle.

Methods

Methanobrevibacter ruminantium M1^T (DSM 1093) was grown at 37°C for 30 days, and the amount of methane produced at different time points during this period was measured using gas chromatography. The archaeon was exposed to commercial hop extracts (tetra-hydro-iso-alpha acid and beta acid) and to aqueous hop extracts of a range of hop variants, and their effect on methane production was determined.

Results

All of the extracts reduced the level of methane production of M. ruminantium over the 30-day period compared to the negative control (sterile distilled water). The commercial hop extracts were the most effective at inhibiting methane production over the course of the experiment in contrast to the aqueous extracts, which showed a gradual reduction of inhibition with time.

Conclusions

Hops contain compounds which inhibit methane production. Given that hops can be safely fed to cattle, this raises the possibility of rationally designing a feed strategy which could reduce greenhouse gas emissions and protect against bovine tuberculosis. This study recommends that further research be undertaken to further identifying bioactive components from hops and their efficacy against a range of archaea.

Characterizing Effects of Ingredients Differing in Ruminally Degradable Protein and Fiber Supplies on the Ovine Rumen Microbiome Using Next-Generation Sequencing

The ratio of concentrate to forage within diets is known to alter rumen microbial profiles, but comparatively less information is available on the effect of differing sources of individual nutrients on the microbiome. The objective of this study was to investigate rumen microbial responses to diets composed of protein and fiber sources expected to vary in nutrient degradability. The responses of interest included relative abundances of bacterial taxa as well as estimations of community richness and diversity. Ten ruminally cannulated wethers (Suffolk, Dorset, or Suffolk × Dorset) received four diet treatments consisting of either beet pulp or timothy hay and soybean meal (SBM) or heat-treated soybean meal (HSBM) in a partially replicated 4 × 4 Latin square experiment for 21 days. Timothy hay and beet pulp were expected to provide differing rumen degradabilities of neutral detergent fiber (NDF) while the soybean meals were expected to provide differing rumen degradabilities of crude protein (CP). Solid and liquid samples of rumen contents were collected for microbial DNA isolation and Next-Generation sequencing. Numerous rumen bacterial population shifts were observed due to change in fiber source, with increased abundances (P &lt; 0.05) of fibrolytic populations associated with timothy hay diets compared with beet pulp diets. Conversely, populations of the pectin-degrading genera, Treponema and Lachnospira, increased on the beet pulp treatment (P = 0.015 and P = 0.0049, respectively). Limited impact on bacterial taxa was observed between diets differing in protein source. The Paraprevotellaceae genus YRC22 was observed to increase in abundance on HSBM diets (P = 0.023) and the phylum Spirochaetes tended to be more abundant on SBM than HSBM diets (P = 0.071). Beet pulp decreased rumen bacterial diversity (P = 0.0027) and tended to decrease bacterial species richness (P = 0.051) compared to timothy hay. Our results serve to further underscore the sensitivity of rumen microbes to changes in their preferred substrates, particularly of those associated with fiber degradation.

Pasture intensification in beef cattle production can affect methane emission intensity

Increasing greenhouse gas (GHG) emissions from anthropogenic activities have contributed to global warming and consequently to climate change. Among all sources of emissions, the agricultural sector accounts for just under a quarter, mainly because of the intensification of food production systems necessary to supply the growing demand of the population. As ruminal fermentation is the largest source of methane emission in the livestock industry, emission by cattle has become the focus of studies. The aim of this study was to evaluate enteric methane emission and emission intensities of Nellore cattle at different ages submitted to levels of intensification of the grazing system. Twenty-four animals per cycle (age of 21.8 and 13.1 mo in cycles 1 and 2, respectively) were randomly distributed across different grazing systems: irrigated pasture with a high stocking rate (IHS), dryland pasture with a high stocking rate (DHS), recovering dryland pasture with a moderate stocking rate (DMS), and degraded pasture with a low stocking rate (DP). Methane emission was measured using the sulfur hexafluoride technique in each season of the cycle. Intensive systems provided higher yields of good-quality forage as well as superior animal performance when compared with DP. Methane yields were different between seasons and cycles. Methane emissions per average daily weight gain and dry matter digestible intake were different between treatments. Differences in the results were observed when they were analyzed per hectare, with the highest gain yield (P = 0.0134), stocking rate, weight gain, carcass production, and total methane emission (P < 0.0001) being found for the intensive systems. There were no differences in emissions per weight gain or carcass production between production systems, while a difference was observed between cycles (P = 0.0189 and P = 0.0255, respectively), resulting in lower emission intensities for younger animals. We conclude that more intensive systems resulted in a higher kilograms production of carcass per hectare; however, animals at 19 mo of age raised in the IHS and DMS systems had a lower emission intensity in kilogram of CO2-eq. per kilogram of carcass. Moderate intensification (DMS) using animals at about 19 mo of age might be an effective strategy to mitigate GHG emissions from Brazilian tropical pastures. Further studies are needed to understand the relationship between increasing productivity and decreasing environmental impacts, especially methane emission from ruminants.

Comparative analysis of the metabolically active microbial communities in the rumen of dromedary camels under different feeding systems using total rRNA sequencing

Breakdown of plant biomass in rumen depends on interactions between bacteria, archaea, fungi, and protozoa; however, the majority of studies of the microbiome of ruminants, including the few studies of the rumen of camels, only studied one of these microbial groups. In this study, we applied total rRNA sequencing to identify active microbial communities in 22 solid and liquid rumen samples from 11 camels. These camels were reared at three stations that use different feeding systems: clover, hay and wheat straw (G1), fresh clover (G2), and wheat straw (G3). Bacteria dominated the libraries of sequence reads generated from all rumen samples, followed by protozoa, archaea, and fungi respectively. Firmicutes, Thermoplasmatales, Diplodinium, and Neocallimastix dominated bacterial, archaeal, protozoal and fungal communities, respectively in all samples. Libraries generated from camels reared at facility G2, where they were fed fresh clover, showed the highest alpha diversity. Principal co-ordinate analysis and linear discriminate analysis showed clusters associated with facility/feed and the relative abundance of microbes varied between liquid and solid fractions. This provides preliminary evidence that bacteria dominate the microbial communities of the camel rumen and these communities differ significantly between populations of domesticated camels.

Rumen metaproteomics: Closer to linking rumen microbial function to animal productivity traits

The rumen microbiome constitutes a dense and complex mixture of anaerobic bacteria, archaea, protozoa, virus and fungi. Collectively, rumen microbial populations interact closely in order to degrade and ferment complex plant material into nutrients for host metabolism, a process which also produces other by-products, such as methane gas. Our understanding of the rumen microbiome and its functions are of both scientific and industrial interest, as the metabolic functions are connected to animal health and nutrition, but at the same time contribute significantly to global greenhouse gas emissions. While many of the major microbial members of the rumen microbiome are acknowledged, advances in modern culture-independent meta-omic techniques, such as metaproteomics, enable deep exploration into active microbial populations involved in essential rumen metabolic functions. Meaningful and accurate metaproteomic analyses are highly dependent on representative samples, precise protein extraction and fractionation, as well as a comprehensive and high-quality protein sequence database that enables precise protein identification and quantification. This review focuses on the application of rumen metaproteomics, and its potential towards understanding the complex rumen microbiome and its metabolic functions. We present and discuss current methods in sample handling, protein extraction and data analysis for rumen metaproteomics, and finally emphasize the potential of (meta)genome-integrated metaproteomics for accurate reconstruction of active microbial populations in the rumen.

Assessment of methane emission traits in ewes using a laser methane detector: genetic parameters and impact on lamb weaning performance

The aim of the present study was to derive individual methane (CH4) emissions in ewes separated in CH4 respiration and eructation traits. The generated longitudinal CH4 data structure was used to estimate phenotypic and genetic relationships between ewe CH4 records and energy efficiency indicator traits from same ewes as well as from their lambs (intergenerational perspective). In this regard, we recorded CH4 emissions via mobile laser methane detector (LMD) technique, body weight (EBW), backfat thickness (BFT) and body condition score (BCS) from 330 ewes (253 Merinoland (ML), 77 Rhön sheep (RH)) and their 629 lambs (478 ML, 151 RH). The interval between repeated measurements (for ewe traits and lamb body weight (LBW)) was 3 weeks during lactation. For methane concentration (µL L-1) determinations in the exhaled air, we considered short time measurements (3 min). Afterwards, CH4 emissions were portioned into a respiration and eructation fraction, based on a double normal distribution. Data preparation enabled the following CH4 trait definitions: mean CH4 concentration during respiration and eructation (CH4r+e), mean CH4 concentration during respiration (CH4r), mean CH4 concentration during eructation (CH4e), sum of CH4 concentrations per minute during respiration (CH4rsum), sum of CH4 concentrations per minute during eructation (CH4esum), maximal CH4 concentration during respiration (CH4rmax), maximal CH4 concentration during eructation (CH4emax), and eructation events per minute (CH4event). Large levels of ewe CH4 emissions representing energy losses were significantly associated with lower LBW (P<0.05), lower EBW (P<0.01) and lower BFT (P<0.05). For genetic parameter estimations, we applied single- and multiple-trait animal models. Heritabilities and additive genetic variances for CH4 traits were small, i.e., heritabilities in the range from <0.01 (CH4r+e, CH4r, CH4rmax, CH4esum) to 0.03 (CH4rsum). We estimated negative genetic correlations between CH4 traits and EBW in the range from -0.44 (CH4r+e) to -0.05 (CH4rsum). Most of the CH4 traits were genetically negatively correlated with BCS (-0.81 for CH4esum) and with BFT (-0.72 for CH4emax), indicating same genetic mechanisms for CH4 output and energy efficiency indicators. Addressing the intergenerational aspect, genetic correlations between CH4 emissions from ewes and LBW ranged between -0.35 (CH4r+e) and 0.01 (CH4rsum, CH4rmax), indicating that breeding on reduced CH4 emissions (especially eructation traits) contribute to genetic improvements in lamb weaning performance.

The structure of microbial populations in Nelore GIT reveals inter-dependency of methanogens in feces and rumen

Background

The success of different species of ruminants in the colonization of a diverse range of environments is due to their ability to digest and absorb nutrients from cellulose, a complex polysaccharide found in leaves and grass. Ruminants rely on a complex and diverse microbial community, or microbiota, in a unique compartment known as the rumen to break down this polysaccharide. Changes in microbial populations of the rumen can affect the host’s development, health, and productivity. However, accessing the rumen is stressful for the animal. Therefore, the development and use of alternative sampling methods are needed if this technique is to be routinely used in cattle breeding. To this end, we tested if the fecal microbiome could be used as a proxy for the rumen microbiome due to its accessibility. We investigated the taxonomic composition, diversity and inter-relations of two different GIT compartments, rumen and feces, of 26 Nelore (Bos indicus) bulls, using Next Generation Sequencing (NGS) metabarcoding of bacteria, archaea and ciliate protozoa.

Results

We identified 4265 Amplicon Sequence Variants (ASVs) from bacteria, 571 from archaea, and 107 from protozoa, of which 143 (96 bacteria and 47 archaea) were found common between both microbiomes. The most prominent bacterial phyla identified were Bacteroidetes (41.48%) and Firmicutes (56.86%) in the ruminal and fecal microbiomes, respectively, with Prevotella and Ruminococcaceae UCG-005 the most relatively abundant genera identified in each microbiome. The most abundant archaeal phylum identified was Euryarchaeota, of which Methanobrevibacter gottschalkii, a methanogen, was the prevalent archaeal species identified in both microbiomes. Protozoa were found exclusively identified in the rumen with Bozasella/Triplumaria being the most frequent genus identified. Co-occurrence among ruminal and fecal ASVs reinforces the relationship of microorganisms within a biological niche. Furthermore, the co-occurrence of shared archaeal ASVs between microbiomes indicates a dependency of the predominant fecal methanogen population on the rumen population.

Conclusions

Co-occurring microorganisms were identified within the rumen and fecal microbiomes, which revealed a strong association and inter-dependency between bacterial, archaeal and protozoan populations of the same microbiome. The archaeal ASVs identified as co-occurring between GIT compartments corresponded to the methanogenic genera Methanobrevibacter and Methanosphaera and represented 26.34% of the overall archaeal sequencesdiversity in the rumen and 42.73% in feces. Considering that these archaeal ASVs corresponded to a significant part of the overall diversity of both microbiomes, which is much higher if one includes the interactions of these co-occurring with other rumen archaea ASVs, we suggest that fecal methanogens could be used as a proxy of ruminal methanogens.

Gut Microbiota of Wild and Captive Alpine Musk Deer (Moschus chrysogaster)

As for the wild animals, their diet components are always changed, so that we have to monitor such changes by analyzing the modification of intestinal microbial community. Such effort allows us to amend their conservation strategies and tactics accordingly so that they are able to appropriately adapt to the new environment and dietary selection. In this study we focus on the gut flora of two groups of an endangered species, Alpine musk deer (Moschus chrysogaster), wild group (WG) which is compared with that of the individuals of the same species but kept in the captivities (CG), a control group. Such a project is aimed to work out whether the composition of the gut microbes has significantly been changed due to captive feedings. To do so, we used 16S rRNA amplicon sequencing to characterize gut bacteria of the musk deer from the two groups. The results show that there is a significant difference in community structure of the bacteria: WG shows significant enrichment of Firmicutes and depletion of Bacteroidetes, while CG has a significant abundance of Proteobacteria and Euryarchaeota. Metagenomics was used to analyze the differences in functional enzymes between the two groups. The related results indicate that genes in WG are mostly related to the enzymes digesting cellulose and generating short-chain fatty acids (SCFAs) for signaling pathways, but CG shows enrichment in methanogenesis, including the CO₂/H₂ pathway and the methylotrophic pathway. Thus, this study indicates that the Firmicutes-rich gut microbiota in the WG enables individuals to maximize their energy intake from the cellulose, and has significant abundance of Euryarchaeota and methanogenesis pathways that allow them to reduce redundant energy consumption in methane metabolism, ensuring them to adapt to the wild environments.

Dietary nitrate metabolism and enteric methane mitigation in sheep consuming a protein-deficient diet

It was hypothesised that the inclusion of nitrate (NO3–) or cysteamine hydrochloride (CSH) in a protein deficient diet (4.8% crude protein; CP) would improve the productivity of sheep while reducing enteric methane (CH4) emissions. A complete randomised designed experiment was conducted with yearling Merino sheep (n = 24) consuming a protein-deficient wheaten chaff control diet (CON) alone or supplemented with 1.8% nitrate (NO3–; DM basis), 0.098% urea (Ur, DM basis) or 80 mg cysteamine hydrochloride/kg liveweight (CSH). Feed intake, CH4 emissions, volatile fatty acids (VFA), digesta kinetics and NO3–, nitrite (NO2–) and urea concentrations in plasma, saliva and urine samples were measured. There was no dietary effect on animal performance or digesta kinetics (P &gt; 0.05), but adding NO3– to the CON diet reduced methane yield (MY) by 26% (P = 0.01). Nitrate supplementation increased blood MetHb, plasma NO3– and NO2– concentrations (P &lt; 0.05), but there was no indication of NO2– toxicity. Overall, salivary NO3– concentration was greater than plasma NO3– (P &lt; 0.05), indicating that NO3– was concentrated into saliva. Our results confirm the role of NO3– as an effective additive to reduce CH4 emissions, even in a highly protein-deficient diet and as a source of additional nitrogen (N) for microbial protein synthesis via N-recycling into saliva and the gut. The role of CSH as an additive in low quality diets for improving animal performance and reducing CH4 emissions is still unclear.

Effects of Nutritional Deprivation and Re-Alimentation on the Feed Efficiency, Blood Biochemistry, and Rumen Microflora in Yaks (Bos grunniens)

Simple Summary

Yak, the predominant and semi-domesticated livestock on the Qinghai–Tibet Plateau, suffers severe starvation and body weight reduction in the cold season and recovers relatively rapid growth in the warm season every year, because of the harsh highland environment. Rumen microorganisms have critical nutritional and physiological functions for the growth of ruminant, but the strategy of rumen microorganism of yaks to cope with the starvation and re-alimentation challenges and the contributions of rumen microflora to compensatory growth remain unclear. Herein, we investigated the effects of starvation and refeeding on the growth, feed efficiency, blood biochemistry and rumen microbial community as well as functions of yaks. Our results indicated that the rumen microorganism, in part, contributed to yak adaption to starvation and compensatory growth during re-alimentation. Our study is helpful in the understanding and utilization of this natural character of yaks to explore and improve their growth potential.

Abstract

Yak suffers severe starvation and body weight reduction in the cold season and recovers relatively rapid growth in the warm season every year. Herein, we investigated the effects of starvation and refeeding on the growth, feed efficiency, blood biochemistry and rumen microbial community as well as functions of yaks. The results showed that starvation significantly reduced the body weight of yaks. Serum glucose and triglyceride concentrations significantly decreased, and β-hydroxybutyric acid and non-esterified fatty acid levels were significantly increased during the starvation period. Starvation also dramatically inhibited rumen microbial fermentations. Whereas, refeeding with the same diet significantly increased the feed efficiency, nutrient digestibility together with rumen acetate, propionate and microbial protein productions compared with those before starvation. The 16S rDNA sequencing results showed that starvation mainly decreased the ruminal protein-degrading bacteria Prevotella and propionate-producing bacteria Succiniclasticum populations and dramatically increased the denitrifying bacteria Thauera populations. Refeeding reduced the Euryarchaeota population and increased propionate-producing bacteria Succinivibrionaceae UCG-002 and starch-degrading bacteria Ruminobacter populations when compared with those before starvation. The predicted microbial metabolic pathways, related to amino acid and starch metabolisms, were also significantly altered during the starvation and refeeding. The results indicated that the rumen microorganisms and their metabolism pathways changed with feed supply, and these alterations in part contributed to yak adaption to starvation and re-alimentation. This study is helpful for enhancing the understanding and utilization of this natural character of yaks to explore and improve their growth potential.

Effects of berry seed residues on ruminal fermentation, methane concentration, milk production, and fatty acid proportions in the rumen and milk of dairy cows

Strawberry (SB), black currant (BC), and raspberry seed (RB) residues were used in 3 experiments to study their effects on ruminal fermentation, methane concentration, and fatty acid (FA) proportions in the ruminal fluid and milk of dairy cows. Initially, a batch fermentation in vitro study (experiment 1) was performed to investigate the effects of the 3 berry residues on basic ruminal fermentation parameters. Total volatile fatty acid concentrations, including acetate, propionate, and butyrate, increased in the BC group compared with other treatments. Based on the preliminary in vitro results, 2 consecutive in vivo experiments were conducted using 4 Polish Holstein-Friesian cows fitted with rumen cannulas (experiment 2) and 30 lactating Polish Holstein-Friesian dairy cows (experiment 3) in a replicated 2 × 2 crossover design. Cows in both experiments received a partial mixed ration (PMR) in 2 variants: (1) a control diet of PMR + 2 kg of concentrate (control); (2) PMR + 2 kg of BC seed residues (BC). The BC diet did not mitigate ruminal methane production. Ruminal fermentation (experiment 2) was not affected by the BC diet; however, the concentrations of C18:1 trans-11 and C18:2 cis-9,trans-11 increased significantly by 91 and 131%, respectively. Likewise, concentrations of total trans C18:1 and total monounsaturated FA in ruminal fluid were increased significantly by BC seed residues. In experiment 3, BC significantly increased milk fat C18:1 trans-11, C18:2 cis-9,trans-11, n-3, n-6, and polyunsaturated FA concentrations without affecting milk production performance. In conclusion, the amount (2 kg/d) of BC used in this study did not adversely affect ruminal fermentation or milk production and composition. However, using BC increased proportions of unsaturated FA and conjugated linoleic acid in milk. Although dietary BC did not exert a strong methane inhibition effect, it could represent an inexpensive alternative concentrate to improve beneficial FA in milk without negative effects on rumen fermentation and production parameters in dairy cows. Incorporation of berry seed residues in diets would be profitable economically and nutritionally for dairy cattle production.

Equine Contribution in Methane Emission and Its Mitigation Strategies

Greenhouses gas emission mitigation is a very important aspect of earth sustainability with greenhouse gasses reduction, a focus of agricultural and petrochemical industries. Methane is produced in nonruminant herbivores such as horses because they undergo hindgut fermentation. Although equine produce less methane than ruminant, increasing population of horses might increase their contribution to the present 1.2 to 1.7 Tg, estimate. Diet, feeding frequency, season, genome, and protozoa population influence methane production equine. In population, Methanomicrobiales, Methanosarcinales, Methanobacteriales, and Methanoplasmatales are the clade identified in equine. Methanocorpusculum labreanum is common among hindgut fermenters like horses and termite. Naturally, acetogenesis and interrelationship between the host and the immune-anatomical interaction are responsible for the reduced methane output in horses. However, to reduce methane output in equine, and increase energy derived from feed intake, the use of biochar, increase in acetogens, inclusion of fibre enzymes and plant extract, and recycling of fecal energy through anaerobic gas fermentation. These might be feasible ways to reducing methane contribution from horse and could be applied to ruminants too.

RUMINANT NUTRITION SYMPOSIUM: Tiny but mighty: the role of the rumen microbes in livestock production

The microbes inhabiting the rumen convert low-quality, fibrous, plant material into useable energy for the host ruminant. Consisting of bacteria, protozoa, fungi, archaea, and viruses, the rumen microbiome composes a sophisticated network of symbiosis essential to maintenance, immune function, and overall production efficiency of the host ruminant. Robert Hungate laid the foundation for rumen microbiome research. This area of research has expanded immensely with advances in methodology and technology that have not only improved the ability to describe microbes in taxonomic and density terms but also characterize populations of microbes, their functions, and their interactions with each other and the host. The interplay between the rumen microbiome and the host contributes to variation in many phenotypic traits expressed by the host animal. A better understanding of how the rumen microbiome influences host health and performance may lead to novel strategies and treatments for trait improvement. Furthermore, elucidation of maternal, genetic, and environmental factors that influence rumen microbiome establishment and development may provide novel insights into possible mechanisms for manipulating the rumen microbial composition to enhance long-term host health and performance. The potential for these tiny but mighty rumen microbes to play a role in improving livestock production is appreciated despite being relatively obscure.

Aspergillus terreus treated rice straw suppresses methane production and enhances feed digestibility in goats

The objectives of this study were to test the efficacy of producing lovastatin in rice straw treated with Aspergillus terreus in larger laboratory scale following the procedure previously reported and to investigate the effectiveness of the treated rice straw containing lovastatin on methane mitigation in goats. The concentration of lovastatin in the treated rice straw was 0.69 ± 0.05 g/kg dry matter (DM) rice straw. Our results showed that supplementation of lovastatin at 4.14 mg/kg BW reduced methane production by 32% while improving the DM digestibility by 13% (P < 0.05) in goats fed fermented rice straw compared to those fed untreated rice straw. Populations of total methanogens and Methanobacteriales species were significantly reduced (P < 0.05) while the population of total bacteria and Ruminococcus albus were increased in the treatment group (P < 0.05). Our results demonstrated that lovastatin in the treated rice straw acted specifically on the methanogens by inhibiting the activity of HMG-CoA reductase in the methanogens' cell membrane biosynthesis pathway and thus the growth of rumen methanogens as previously reported. This study provides a simple yet practical approach to mitigate enteric methane production particularly in the developing countries which depend heavily on the use of agro-biomass such as rice straw to feed their ruminant animals.

Increased microbiome diversity at the time of infection is associated with improved growth rates of pigs after co-infection with porcine reproductive and respiratory syndrome virus (PRRSV) and porcine circovirus type 2 (PCV2)

Porcine reproductive and respiratory syndrome virus (PRRSV) and porcine circovirus type 2 (PCV2) are two of the most important pathogens affecting the swine industry worldwide. Co-infections are common on a global scale, resulting in pork production losses through reducing weight gain and causing respiratory disease in growing pigs. Our initial work demonstrated that the fecal microbiome was associated with clinical outcome of pigs 70days post-infection (dpi) with PRRSV and PCV2. However, it remained uncertain if microbiome characteristics could predispose response to viral infection. The purpose of this study was to determine if microbiome characteristics present at the time of virus exposure were associated with outcome after co-infection. Using the Lawrence Livermore Microbial Detection Array, we profiled the microbiome in feces prior to infection from pigs identified retrospectively as having high or low growth rates after co-infection. High growth rate pigs had less severe interstitial pneumonia, reduced virus replication, and a significant increase in average daily weight gain throughout the study. At the level of the fecal microbiome, high growth rate pigs had increased microbial diversity on both a family and species level. Shifts in the microbiome composition of high growth rate pigs included reduced Methanobacteriaceae species, increased Ruminococcaceae species, and increased Streptococcaceae species when compared to low growth rate pigs. The results indicate that both microbiome diversity and composition at the time of virus exposure may play a role in the subsequent response of pigs to PRRSV/PCV2 co-infection.

In vitro fermentation of key dietary compounds with rumen fluid: A genome-centric perspective

The anaerobic decomposition of organic substrates leads to the generation of gases, such as methane, which can either be a valuable energy carrier in industrial applications or can be considered as a main greenhouse gas when it is naturally emitted. In this study we investigated in vitro the effect of dietary compounds, such as starch and proteins, on the microbial community present in the rumen fluid. High throughput shotgun sequencing, followed by metagenomic assembly and binning allowed the extraction of 18 genome bins. A composite bioinformatic analysis led to the prediction of metabolic pathways involved in the degradation of dietary compounds and in the biosynthesis of crucial products like propionate, methane and ammonia. The identification of genomes belonging to poorly characterized phyla such as Thermoplasmata and Elusimicrobia shed light on their putative role. The high abundance of methylotrophic archaea in the inoculum suggests a relevant role in methane production.

Grazing management: setting the table, designing the menu and influencing the diner

Pastoral livestock-production systems are under increasing environmental, social and consumer pressures to reduce environmental impacts and to enhance biodiversity and animal welfare. At the same time, farmers face the challenge of managing grazing, which is intimately linked with profitability. Recent advances in understanding grazing patterns and nutritional ecology may help alleviate such pressures. For instance, by managing grazing to (1) manipulate links between ingestive–digestive decisions and temporal patterns of nutrient excretion, (2) provide phytochemically diverse diets at appropriate temporal (the menu) and spatial (the table) scales and (3) influence the behaviour of animals (the diners) on the basis of their specific ‘personalities’ and needs, to overcome or enhance animal differences, thereby enhancing their and farm productivity and welfare, as well as our health. Under pastoral systems, synergies between animals’ and farmers’ grazing decisions have the potential to offer greater benefits to the animal, the environment and the farm than does simple and parsimonious grazing management based on a single component of the system. In the present review, we look at grazing and its management through an alternate lens, drawing ideas and hypotheses to stimulate thinking, dialogue and discussions that we anticipate will evolve into innovative research programs and grazing strategies. To do so, we combined experimental and observational studies from a wide range of disciplines with simulation-modelling exercises. We envisage a more holistic approach to manage grazing based on recent advances in the understanding of the nutritional ecology of grazing animals, and propose management practices that may enable pastoral livestock-production systems to evolve continually as complex creative systems.

First insight into the faecal microbiota of the high Arctic muskoxen (Ovibos moschatus)

The faecal microbiota of muskoxen (n=3) pasturing on Ryøya (69° 33′ N 18° 43′ E), Norway, in late September was characterized using high-throughput sequencing of partial 16S rRNA gene regions. A total of 16 209 high-quality sequence reads from bacterial domains and 19 462 from archaea were generated. Preliminary taxonomic classifications of 806 bacterial operational taxonomic units (OTUs) resulted in 53.7–59.3 % of the total sequences being without designations beyond the family level. Firmicutes (70.7–81.1 % of the total sequences) and Bacteroidetes (16.8–25.3 %) constituted the two major bacterial phyla, with uncharacterized members within the family Ruminococcaceae (28.9–40.9 %) as the major phylotype. Multiple-library comparisons between muskoxen and other ruminants indicated a higher similarity for muskoxen faeces and reindeer caecum (P>0.05) and some samples from cattle faeces. The archaeal sequences clustered into 37 OTUs, with dominating phylotypes affiliated to the methane-producing genus Methanobrevibacter (80–92 % of the total sequences). UniFrac analysis demonstrated heterogeneity between muskoxen archaeal libraries and those from reindeer and roe deer (P=1.0e-02, Bonferroni corrected), but not with foregut fermenters. The high proportion of cellulose-degrading Ruminococcus-affiliated bacteria agrees with the ingestion of a highly fibrous diet. Further experiments are required to elucidate the role played by these novel bacteria in the digestion of this fibrous Artic diet eaten by muskoxen.

Rumen and Cecum Microbiomes in Reindeer (Rangifer tarandus tarandus) Are Changed in Response to a Lichen Diet and May Affect Enteric Methane Emissions

Reindeer (Rangifer tarandus tarandus) are large Holarctic herbivores whose heterogeneous diet has led to the development of a unique gastrointestinal microbiota, essential for the digestion of arctic flora, which may include a large proportion of lichens during winter. Lichens are rich in plant secondary metabolites, which may affect members of the gut microbial consortium, such as the methane-producing methanogenic archaea. Little is known about the effect of lichen consumption on the rumen and cecum microbiotas and how this may affect methanogenesis in reindeer. Here, we examined the effects of dietary lichens on the reindeer gut microbiota, especially methanogens. Samples from the rumen and cecum were collected from two groups of reindeer, fed either lichens (Ld: n = 4), or a standard pelleted feed (Pd: n = 3). Microbial densities (methanogens, bacteria and protozoa) were quantified using quantitative real-time PCR and methanogen and bacterial diversities were determined by 454 pyrosequencing of the 16S rRNA genes.

In general, the density of methanogens were not significantly affected (p>0.05) by the intake of lichens. Methanobrevibacter constituted the main archaeal genus (>95% of reads), with Mbr. thaueri CW as the dominant species in both groups of reindeer. Bacteria belonging to the uncharacterized Ruminococcaceae and the genus Prevotella were the dominant phylotypes in the rumen and cecum, in both diets (ranging between 16–38% total sequences). Bacteria belonging to the genus Ruminococcus (3.5% to 0.6%; p = 0.001) and uncharacterized phylotypes within the order Bacteroidales (8.4% to 1.3%; p = 0.027), were significantly decreased in the rumen of lichen-fed reindeer, but not in the cecum (p = 0.2 and p = 0.087, respectively). UniFrac-based analyses showed archaeal and bacterial libraries were significantly different between diets, in both the cecum and the rumen (vegan::Adonis: pseudo-F<0.05). Based upon previous literature, we suggest that the altered methanogen and bacterial profiles may account for expected lower methane emissions from lichen-fed reindeer.

Rumen microbial community composition varies with diet and host, but a core microbiome is found across a wide geographical range

Ruminant livestock are important sources of human food and global greenhouse gas emissions. Feed degradation and methane formation by ruminants rely on metabolic interactions between rumen microbes and affect ruminant productivity. Rumen and camelid foregut microbial community composition was determined in 742 samples from 32 animal species and 35 countries, to estimate if this was influenced by diet, host species, or geography. Similar bacteria and archaea dominated in nearly all samples, while protozoal communities were more variable. The dominant bacteria are poorly characterised, but the methanogenic archaea are better known and highly conserved across the world. This universality and limited diversity could make it possible to mitigate methane emissions by developing strategies that target the few dominant methanogens. Differences in microbial community compositions were predominantly attributable to diet, with the host being less influential. There were few strong co-occurrence patterns between microbes, suggesting that major metabolic interactions are non-selective rather than specific.

Methane production and energy partitioning in sheep fedAndropogon gayanusgrass ensiled at three regrowth stages

Ribeiro Jr., G. A., Teixeira, A. M., Velasco, F. O., Faria Jr., W. G., Jayme, D. G., Maurício, R. M., Gonçalves, L. C. and McAllister, T. A. 2015. Methane production and energy partitioning in sheep fed Andropogon gayanus grass ensiled at three regrowth stages. Can. J. Anim. Sci. 95: 103–110. This study was undertaken to evaluate the effect of harvesting Andropogon gayanus at different regrowth stages (56, 84 and 112 d) on the nutritional value of silage and CH4emissions from sheep. Rams (n=18) were adapted to silages for 21 d after which intake and digestibility were measured over 5 d in a completely randomized design (six rams/treatment). Heat production and methane emissions from each ram were measured in a respiration chamber over 24 h. Silage dry matter (DM; 54.4 g kg−1BW0.75d−1) intake was not influenced (P>0.05) by silage regrowth stage, but apparent DM digestibility linearly decreased (P<0.05) from 526 to 380 g kg−1with increasing regrowth. Energy lost as a percent of gross energy intake (GEI) linearly increased with longer regrowth, yet no effect on CH4losses (as% GEI; g kg−1DM; g kg−1digestible DM) or heat production were observed. Ensiling A. gayanus grass at an earlier regrowth stage (56 d) will improve silage quality, but improvements in the energetic value are not due to a reduction in enteric CH4emissions as a% GEI.

Effect of DNA extraction methods and sampling techniques on the apparent structure of cow and sheep rumen microbial communities

Molecular microbial ecology techniques are widely used to study the composition of the rumen microbiota and to increase understanding of the roles they play. Therefore, sampling and DNA extraction methods that result in adequate yields of microbial DNA that also accurately represents the microbial community are crucial. Fifteen different methods were used to extract DNA from cow and sheep rumen samples. The DNA yield and quality, and its suitability for downstream PCR amplifications varied considerably, depending on the DNA extraction method used. DNA extracts from nine extraction methods that passed these first quality criteria were evaluated further by quantitative PCR enumeration of microbial marker loci. Absolute microbial numbers, determined on the same rumen samples, differed by more than 100-fold, depending on the DNA extraction method used. The apparent compositions of the archaeal, bacterial, ciliate protozoal, and fungal communities in identical rumen samples were assessed using 454 Titanium pyrosequencing. Significant differences in microbial community composition were observed between extraction methods, for example in the relative abundances of members of the phyla Bacteroidetes and Firmicutes. Microbial communities in parallel samples collected from cows by oral stomach-tubing or through a rumen fistula, and in liquid and solid rumen digesta fractions, were compared using one of the DNA extraction methods. Community representations were generally similar, regardless of the rumen sampling technique used, but significant differences in the abundances of some microbial taxa such as the Clostridiales and the Methanobrevibacter ruminantium clade were observed. The apparent microbial community composition differed between rumen sample fractions, and Prevotellaceae were most abundant in the liquid fraction. DNA extraction methods that involved phenol-chloroform extraction and mechanical lysis steps tended to be more comparable. However, comparison of data from studies in which different sampling techniques, different rumen sample fractions or different DNA extraction methods were used should be avoided.

Characterization, metabolites and gas formation of fumarate reducing bacteria isolated from Korean native goat (Capra hircus coreanae)

Fumarate reducing bacteria, able to convert fumarate to succinate, are possible to use for the methane reduction in rumen because they can compete for H(2) with methanogens. In this, we isolated fumarate reducing bacteria from a rumen of Korean native goat and characterized their molecular properties [fumarate reductase A gene (frdA)], fumarate reductase activities, and productions of volatile fatty acids and gas. Eight fumarate reducing bacteria belonging to Firmicutes were isolated from rumen fluid samples of slaughtered Korean black goats and characterized their phylogenetic positions based on 16S rRNA gene sequences. PCR based analyses showed that only one strain, closely related to Mitsuokella jalaludinii, harbored frdA. The growths of M. jalaludinii and Veillonella parvula strains were tested for different media. Interestingly, M. jalaludinii grew very well in the presence of hydrogen alone, while V. parvula grew well in response of fumarate and fumarate plus hydrogen. M. jalaludinii produced higher levels of lactate (P≤0.05) than did V. parvula. Additionally, M. jalaludinii produced acetate, but not butyrate, whereas V. parvula produced butyrate, not acetate. The fumarate reductase activities of M. jalaludinii and V. parvula were 16.8 ± 0.34 and 16.9 ± 1.21 mmol NADH oxidized/min/mg of cellular N, respectively. In conclusion, this showed that M. jalaludinii can be used as an efficient methane reducing agent in rumen.

Relationship between rumen methanogens and methane production in dairy cows fed diets supplemented with a feed enzyme additive

AIMS

To investigate the relationship between ruminal methanogen community and host enteric methane (CH(4) ) production in lactating dairy cows fed diets supplemented with an exogenous fibrolytic enzyme additive.

METHODS AND RESULTS

Ecology of ruminal methanogens from dairy cows fed with or without exogenous fibrolytic enzymes was examined using PCR-denaturing gradient gel electrophoresis (PCR-DGGE) analyses and quantitative real-time PCR (qRT-PCR). The density of methanogens was not affected by the enzyme additive or sampling times, and no relationship was observed between the total methanogen population and CH(4) yield (as g per head per day or g kg(-1) DMI). The PCR-DGGE profiles consisted of 26 distinctive bands, with two bands similar to Methanogenic archaeon CH1270 negatively correlated, and one band similar to Methanobrevibacter gottschalkii strain HO positively correlated, with CH(4) yield. Three bands similar to Methanogenic archaeon CH1270 or Methanobrevibacter smithii ATCC 35061 appeared after enzyme was added.

CONCLUSIONS

Supplementing a dairy cow diet with an exogenous fibrolytic enzyme additive increased CH(4) yield and altered the composition of the rumen methanogen community, but not the overall density of methanogens.

SIGNIFICANCE AND IMPACT OF THE STUDY

This is the first study to identify the correlation between methanogen ecology and host CH(4) yield from lactating dairy cows.

Methanogens: methane producers of the rumen and mitigation strategies

Methanogens are the only known microorganisms capable of methane production, making them of interest when investigating methane abatement strategies. A number of experiments have been conducted to study the methanogen population in the rumen of cattle and sheep, as well as the relationship that methanogens have with other microorganisms. The rumen methanogen species differ depending on diet and geographical location of the host, as does methanogenesis, which can be reduced by modifying dietary composition, or by supplementation of monensin, lipids, organic acids, or plant compounds within the diet. Other methane abatement strategies that have been investigated are defaunation and vaccines. These mitigation methods target the methanogen population of the rumen directly or indirectly, resulting in varying degrees of efficacy. This paper describes the methanogens identified in the rumens of cattle and sheep, as well as a number of methane mitigation strategies that have been effective in vivo.

Experimental validation of the Intergovernmental Panel on Climate Change default values for ruminant-derived methane and its carbon-isotope signature

Two aspects regarding the ruminant’s contribution to global methane (CH4) emissions were investigated: (i) testing the accuracy of the Intergovernmental Panel on Climate Change default values for dairy cows fed different diet types and differing slurry storage temperatures; and (ii) providing carbon-isotope (C-isotope) signature data to contribute information on the characteristics of ruminant-derived CH4 as global source. The experimental diets, fed to 18 dairy cows, were separated into forage-only (hay, C3 plant) and forage-concentrate diets (barley, C3 plant; maize, C4 plant). Accumulated slurry was stored at either 14 or 27°C. The hay diet had the highest CH4 conversion rate (Ym 7.9%). Negligible amounts of CH4 were emitted from slurries stored at low temperature. No diet effect was found at 27°C (~33 L/kg volatile solids). The isotope ratios of enteric CH4 averaged −67.7‰ (C3 plants) and −57.4‰ (C4; maize). High temperature slurry storage resulted in different enrichment factors ϵCO2-CH4 for maize (33.2‰) and hay (35.9‰). Compared with the Intergovernmental Panel on Climate Change default values for Ym and slurry CH4 emission the results gained in the present experiment were higher and lower, respectively. Slurry-derived CH4 was less depleted in 13C than enteric CH4, which decreases the usefulness of this signature for global ruminant-derived CH4.

A bromochloromethane formulation reduces enteric methanogenesis in cattle fed grain-based diets

Enteric fermentation has been estimated to be responsible for 64.2 Mt CO2-e, or ~16% of Australia’s greenhouse gas emissions (Australian Greenhouse Office 2007). A bromochloromethane (BCM) formulation, previously shown to inhibit methanogenesis, was included in the diet of Brahman (Bos indicus) cross steers, twice daily in three separate experiments, to determine the effect on methane production, daily feed intake, liveweight (LW) gain and accumulation of residues of BCM in edible tissue. In the first experiment, the BCM formulation was fed at rates of 0, 0.15, 0.30, or 0.60 g/100 kg LW, twice daily, for 28 days. Methane production (mean ± s.e.), measured over 11 h after feed was first consumed on day 28, was 0.3 ± 0.13 and 0.1 ± 0.03 L/h for animals treated at a rate of 0.30 and 0.60 g/100 kg LW, respectively. This was significantly less (P < 0.05) than for control animals (4.6 ± 0.46 L/h) and animals treated at a rate of 0.15 g/100 kg LW (2.1 ± 0.28 L/h). The dose rate of 0.30 g/100 kg LW was associated with a decrease in methanogenesis by ~93% compared with the control group and was used in subsequent experiments. The second experiment evaluated the efficacy of the BCM formulation fed at rates of 0 or 0.30 g/100 kg LW, twice daily, for 90 days. Methane production was measured over 24-h periods, on days 30, 60 and 90. For days 30 and 90, methane production was reduced by 60% (P < 0.05) to 4.2 ± 1.82 L/h and by 50% (P < 0.05) to 6.1 ± 0.63 L/h, respectively, for treated animals compared with the control group. The final experiment determined the effect on LW gain and detectable residues in edible tissue, with animals given the BCM formulation at rates of 0 or 0.30 g/100 kg LW, twice daily, for 85 days. Liver, kidney, depot fat and muscle samples collected 1 and 10 days after the last day of treatment had concentrations of BCM that did not exceed 0.015 mg/kg and were less than the temporary maximum residue limit (0.02 mg/kg BCM), which applies to bovine meat, fat and edible offal. There were no significant differences in LW gain (1.4 ± 0.10 v. 1.5 ± 0.07 kg/day), feed conversion ratio (5.7 ± 0.32 v. 5.4 ± 0.09), hot carcass weight (235 ± 5.0 v. 250 ± 6.5 kg) or P8 fat depth (6.4 ± 0.89 v. 8.1 ± 1.15 mm) between control and treated animals. The experiments reported here were completed in 2004 before the Australian Government prohibited the manufacture and use of BCM. It is unlikely that the BCM formulation will be available for commercial use to mitigate livestock methane emissions in Australia. Nevertheless, the study has demonstrated that methane emissions were substantially reduced over a 90-day feedlot finishing period. This indicates that alternative antimethanogens with a similar mechanism of action may have practical commercial relevance.

Methane production and energy partition of cattle in the tropics

The aim of this experiment was to determine CH4production and energy partition for a range of diets fed toBos indicuscattle. Six Brahman cattle were fed on three different diets in a replicated Latin square experiment over three periods. The diets were (1) long-chopped Angleton grass (Dicanthium aristatum) hayad libitum(DM digestibility (DMD) 41 (se 2)%; 4 g N/kg), (2) long-chopped Rhodes grass (Chloris gayana) hayad libitum(DMD 60 (se 1)%; 14 g N/kg) or (3) 2 kg long-chopped lucerne (Medicago sativa) hay/d plus a high-grain diet (ad libitum) (DMD 70 (se 1)%; 31 g N/kg). CH4production was measured using confinement-type respiration chambers. Metabolizable energy intake (MJ/d) of cattle fed on Angleton grass (18·4 (se 2·0)) was lower (P< 0·01) than that for Rhodes grass (54·9 (se 2·1)), which was lower (P< 0·01) than that for the high-grain diet (76·7 (se 5·8)). CH4production (g/d) for cattle fed on Rhodes grass (257 (se 14)) was higher (P< 0·01) than that for cattle fed on both the high-grain diet (160 (se 24)) and Angleton grass (113 (se 16)). CH4conversion rate (MJ CH4produced per 100 MJ gross energy intake) was not significantly different between cattle fed on Angleton (10·4 (se 1·1)) and Rhodes (11·4 (se 0·3)) grass, but was higher (P< 0·01) than for cattle fed on the high-grain diet (6·7 (se 0·7)). CH4production (g/kg live-weight gain) was associated (P< 0·001) with both live-weight gain and feed: gain ratio. We conclude that the relationships between CH4production, energy utilization and live-weight change of cattle fed on tropical forages differ from those of cattle fed on diets based on temperate forages.

Methane production in cattle calculated by the nutrient composition of the diet

In this study data originating from complete metabolic trials with cattle of both sexes, fed 337 rations at feed intake levels between one to three times maintenance energy requirement were used to regress the total CH4 emission to the level of DM intake and to the nutrient composition, respectively. A major component of the measured CH4 emission cannot be explained by DM intake but is rather due to differences in dietary nutrient composition. The amount of digestible nutrients especially of the carbohydrate fraction (starch, sugar, N-free residuals) are reliable to estimate CH4 release with high precision (r2 = 0.885). Its production rate increased to 1.9-fold higher levels (range 1.8-2.1) per g of N-free residuals compared to that induced per g of protein, starch or sugar, respectively. Furthermore, diets rich in fat reduced CH4 formation in the rumen. The regression equations fit a wide range of diets and diet compositions, and more importantly, they are applicable to various types of production systems.