Persistence of Mycobacterium avium subsp. paratuberculosis and Other Zoonotic Pathogens during Simulated Composting, Manure Packing, and Liquid Storage of Dairy Manure

Livestock manures contain numerous microorganisms which can infect humans and/or animals, such as Escherichia coli O157:H7, Listeria monocytogenes, Salmonella spp., and Mycobacterium avium subsp. paratuberculosis (Mycobacterium paratuberculosis). The effects of commonly used manure treatments on the persistence of these pathogens have rarely been compared. The objective of this study was to compare the persistence of artificially inoculated M. paratuberculosis, as well as other naturally occurring pathogens, during the treatment of dairy manure under conditions that simulate three commonly used manure management methods: thermophilic composting at 55°C, manure packing at 25°C (or low-temperature composting), and liquid lagoon storage. Straw and sawdust amendments used for composting and packing were also compared. Manure was obtained from a large Ohio free-stall dairy herd and was inoculated with M. paratuberculosis at 10⁶ CFU/g in the final mixes. For compost and pack treatments, this manure was amended with sawdust or straw to provide an optimal moisture content (60%) for composting for 56 days. To simulate liquid storage, water was added to the manure (to simulate liquid flushing and storage) and the slurry was placed in triplicate covered 4-liter Erlenmeyer flasks, incubated under ambient conditions for 175 days. The treatments were sampled on days 0, 3, 7, 14, 28, and 56 for the detection of pathogens. The persistence of M. paratuberculosis was also assessed by a PCR hybridization assay. After 56 days of composting, from 45 to 60% of the carbon in the compost treatments was converted to CO₂, while no significant change in carbon content was observed in the liquid slurry. Escherichia coli, Salmonella, and Listeria were all detected in the manure and all of the treatments on day 0. After 3 days of composting at 55°C, none of these organisms were detectable. In liquid manure and pack treatments, some of these microorganisms were detectable up to 28 days. M. paratuberculosis was detected by standard culture only on day 0 in all the treatments, but was undetectable in any treatment at 3 and 7 days. On days 14, 28, and 56, M. paratuberculosis was detected in the liquid storage treatment but remained undetectable in the compost and pack treatments. However, M. paratuberculosis DNA was detectable through day 56 in all treatments and up to day 175 in liquid storage treatments. Taken together, the results indicate that high-temperature composting is more effective than pack storage or liquid storage of manure in reducing these pathogens in dairy manure. Therefore, thermophilic composting is recommended for treatment of manures destined for pathogen-sensitive environments such as those for vegetable production, residential gardening, or application to rapidly draining fields.     

An assessment of pathogen removal during composting of the separated solid fraction of pig manure

The aim was to investigate pathogen survival during composting of pig manure solids with and without bulking agents in two trials of 56 days duration, each with four treatments. Salmonella was detected in the sawdust and straw bulking agents but was undetectable in the compost, except in one treatment at day 0. Enteric indicator organisms were reduced by day 7 (P<0.001) and were undetectable in the final compost, except for coliform which were present at 3.66-4.43 log?? CFU/g. Yeasts and moulds were reduced and aerobic spore-formers remained stable in one trial but both increased in the other (P<0.001). Bacillus licheniformis and Clostridium sporogenes were the predominant culturable spore-forming bacteria recovered. Microbial counts were influenced by the bulking agent but only at particular time points (P<0.05). Overall, the pig manure-derived compost complied with EU regulations for processed manure products, as E. coli and Enterococcus were below limits and it was Salmonella-free.     

畜禽粪便堆肥过程中各种氮化合物的动态变化及腐熟度评价指标

对不同畜禽粪便在堆肥过程中各种含氮化合物的动态变化进行了研究,结合综合性腐熟度评价指标——种子发芽指数（GI）,探讨了畜禽粪便堆肥过程中与氮有关的腐熟度评价指标.结果表明：随着堆肥的进行,除奶牛粪外,其它畜禽粪便的全氮（TN）含量均呈先下降而后平稳变化趋势,奶牛粪则呈先增加而后平稳变化趋势;各种畜禽粪便中,碱解性氮（HN）含量先增后降;NH₄⁺-N含量先下降而后保持平稳;NO₃^- -N含量则持续增加;NH₄⁺ -N/NO₃^- -N迅速降低.堆肥腐熟度指标中,除综合性评价指标GI值外,HN/TN和NH₄⁺ -N/TN也可作为评价畜禽粪便腐熟程度的优选指标,而NO₃^- -N/TN只能作为一般性评价指标.根据综合性评价指标GI值达到腐熟要求的标准（GI>0.50）,除仔猪粪外,其它畜禽粪便在HN/TN<20.77％、NH₄⁺ -N/TN<10.06％及NO₃^- -N/TN>0.38％时基本达到腐熟要求.     

Allantoin-N concentration changes and analysis of the influencing factors on its changes during different manure composting

Allantoin is one of important nitrogenous compounds in manure. In this study, the simulation experiment of aerobic composting was adopted to explore concentration changes, degradation and relevant influencing factors of allantoin-N during six manure composting. The result showed that the allantoin-N concentration was markedly different among different manures. The various livestock and poultry excreted 1.92-11.14gkg(-1) allantoin-N which accounted for 9.98-32.27% of the total excreted nitrogen. The changing trend of the allantoin-N concentration firstly increased (for 0-14 days), then decreased (for 14-70 days) during different manure composting, and the allantoin-N concentration after composting was lower than the initial allantoin-N concentration in all manure composting. During allantoin degradation for 14-70 days of composting, the half-life of allantoin-N was 57.76 days in broiler manure, 46.21 days in layer-hen manure, 27.73 days in hog manure, 25.67 days in sow manure, 38.51 days in young pig manure and 15.75 days in dairy manure, and the sequence in the half-life was chicken manure>pig manure>dairy manure. Allantoin degradation conformed to first-order kinetics. Through the correlation analysis, hippuric acid, hydrolyzable nitrogen, amino acid-nitrogen, HUN fraction, NO(3)(-)-N and total hydrolyzable nitrogen could be closely related to allantoin-N transforming during composting. Humification could be the main influencing factor for reducing allantoin-N concentration during composting.     

Characterization of dairy cattle manure/wallboard paper compost mixture

The aim of this research was to evaluate the use of manufacturing wallboard paper scraps as an alternative bulking agent for dairy cattle manure composting. The characteristics of the composting process were studied based on the changes in physico-chemical parameters and final compost quality. Composting of dairy cattle manure with wallboard paper was performed in a 481-L cylindrical reactor with vacuum-type aeration. Rapid degradation of organic matter was observed during the thermophilic stage of composting due to high microbial activity. High temperature and alkaline pH conditions promoted intense ammonia emission during the early stage of composting. The number of mesophilic and thermophilic microorganisms were found to be affected by changes in temperature at different composting stages. The total nitrogen (N), phosphorus (P), potassium (K), and sodium (Na) concentrations of the mixture did not change significantly after 28days of composting. However, the presence of gypsum in the paper scraps increased the calcium content of the final compost. The wallboard paper had no phyto-inhibitory effects as shown by high germination index of final compost (GI=99%).     

Utilisation of manure composts by high-value crops: Safety and environmental challenges

The intensification in livestock production has increased the need of efficient treatments of waste streams especially to preserve as much as possible, the nutrients into the soil-plant system. Composting is a cheap, efficient and sustainable treatment for solid wastes that is always included in any manure treatment scenario. In this paper, an overview about the environmental and safety challenges of composting of manures is made considering the compost quality requirements established by the main demanding sectors. Co-composting and additive strategies are presented as feasible options for the improvement of compost quality. For quality evaluation of manure compost, the use of both classical and innovative instrumental techniques could increase our knowledge about added properties in compost, especially those related to organic matter stability.     

Pile mixing increases greenhouse gas emissions during composting of dairy manure

The effect of pile mixing on greenhouse gas (GHG) emissions during dairy manure composting was determined using large flux chambers designed to completely cover replicate pilot-scale compost piles. GHG emissions from compost piles that were mixed four times during the 80 day trial were approximately 20% higher than emissions from unmixed (static) piles. For both treatments, carbon dioxide (CO(2)), methane (CH(4)), and nitrous oxide (N(2)O) accounted for 75-80%, 18-21%, and 2-4% of GHG emissions, respectively. Seventy percent of CO(2) emissions and 95% of CH(4) emissions from all piles occurred within first 23 days. By contrast, 80-95% of N(2)O emissions occurred after this period. Mixed and static piles released 2 and 1.6 kg GHG (CO(2)-Eq.) for each kg of degraded volatile solids (VS), respectively. Our results suggest that to minimize GHG emissions, farmers should store manure in undisturbed piles or delay the first mixing of compost piles for approximately 4 weeks.     

Fate of Salmonella enterica serovar Typhimurium on carrots and radishes grown in fields treated with contaminated manure composts or irrigation water

Three different types of compost, PM-5 (poultry manure compost), 338 (dairy cattle manure compost), and NVIRO-4 (alkaline-pH-stabilized dairy cattle manure compost), and irrigation water were inoculated with an avirulent strain of Salmonella enterica serovar Typhimurium at 10(7) CFU g(-1) and 10(5) CFU ml(-1), respectively, to determine the persistence of salmonellae in soils containing these composts, in irrigation water, and also on carrots and radishes grown in these contaminated soils. A split-plot block design plan was used for each crop, with five treatments (one without compost, three with each of the three composts, and one without compost but with contaminated water applied) and five replicates for a total of 25 plots for each crop, with each plot measuring 1.8 x 4.6 m. Salmonellae persisted for an extended period of time, with the bacteria surviving in soil samples for 203 to 231 days, and were detected after seeds were sown for 84 and 203 days on radishes and carrots, respectively. Salmonella survival was greatest in soil amended with poultry compost and least in soil containing alkaline-pH-stabilized dairy cattle manure compost. Survival profiles of Salmonella on vegetables and soil samples contaminated by irrigation water were similar to those observed when contamination occurred through compost. Hence, both contaminated manure compost and irrigation water can play an important role in contaminating soil and root vegetables with salmonellae for several months.     

Characteristics of dairy manure composting with rice straw

The aim of this work was to investigate the effects of aeration rate, aeration method, moisture content, and manure age on the characteristics of dairy manure composting with rice straw in terms of composting temperature, oxygen consumption rate, emission of odorous gases, and final compost property. It was found that the aeration rate of 0.25 L/min-kg VS was capable of achieving the highest composting temperature, longest retention time of high temperature, and less emission of odor gases. Except for the composting temperature reached, there was no significant difference between bottom-forced and top-diffusion aerations in terms of final compost property. The higher initial moisture content (65%) was more favorable for its higher temperature, longer retention time of high temperature, and more stable end compost obtained. Fresh manure showed better composting performance than the aged manure for its higher temperature reached in less time and less ammonia emission. Oxygen consumption rates were basically similar to those of temperatures. Most emissions of the odorous gases occurred during the first week of composting, therefore, special attention should be paid to this period of time for effective odor control.     

Comparison of composting, storage and urea treatment for sanitising of faecal matter and manure

To close the loop of nutrients in a safe way, the loop of pathogens has to be broken. By sanitising organic fertilisers derived from faeces and manure, the first step in the disease transmission chain is broken. Two alternatives for this treatment, thermophilic composting and ammonia-based treatment, were evaluated and compared to storage treatment. Thermal composting of faecal matter and food waste resulted in a treatment temperature of over 65 degrees C in a 90 L reactor. By using insulation and turning the compost three times during the high temperature period, it is possible to ensure a 5 log(10) reduction of pathogens. Small scale composting of the same material indicated less efficient reduction of faecal bacteria at temperatures around 50 degrees C. In the chemical treatment tested, an addition of 3% N-NH(3) increased the pH to above 9 within 1h and resulted in a good reduction in the indicator organisms for bacteria (Salmonella spp. and faecal coliforms D(r)<0.7 days, Enterococcus spp. D(r)<3 days). Lower addition rates resulted in a longer treatment period needed. The storage period tested resulted in slow reduction of faecal coliforms, Salmonella spp. and Enterococcus spp.     

Improving rock phosphate availability through feeding, mixing and processing with composting manure

The objective of this study was to improve the availability of phosphorus (P) from rock phosphate (RP) through feeding, mixing and composting manure. The experiment was conducted as a 3 x 2 split-plot design. Manure was collected from 12 Boran steers (200+/-4.5 kg live weight) fed a basal diet of Napier grass (Pennisetum purpureum) at 2.5% body weight on a dry matter (DM) basis. The main plot treatments were (i) manure from steers supplemented with 113 g Busumbu rock phosphate (BRP) per day (FBRP), (ii) manure from steers not supplemented with BRP, feces mixed with 113 g BRP per day (MBRP) and (iii) manure from steers not supplemented with BRP and feces not mixed with BRP (CONT). The sub-plots comprised composting the manure either (i) mixed with 440 g of wheat (Triticum aestivum L.) straw per kg fresh feces (WS) or (ii) without straw (WOS). The manure was composted in 200 L plastic bins for 90 days. After 90 days, P availability was evaluated (i) by aerobic laboratory incubation at 25 degrees C for 1, 2, 4, 8, 12, and 16 weeks and (ii) by greenhouse agronomic evaluation study using maize (Zea Mays L.) as the test crop in either a humic Nitosol or an Andosol. In the laboratory incubation study, resin P was higher (p<0.05) for the WS compost than for the WOS compost; values were higher (p<0.05) for the Andosol than for Nitosol and followed the order of FBRP-WS, Andosol>FBRP-WS, Nitosol>MBRP-WS, Andosol>MBRP-WS, Nitosol>FBRP-WOS, Andosol>FBRP-WOS, Nitosol. In the greenhouse evaluation, maize crops in the WS compost had higher (p<0.05) biomass yield than the reference fertilizer, triple super phosphate, (173% versus 196%; Andosol and Nitosol, respectively). The biomass yield and P uptake relative agronomic effectiveness (RAE) for WS compost was also higher (p<0.05) than that of WOS compost (184 versus 3+/-0.8 and 242 versus 162+/-0.2, WS and WOS, biomass yield and P uptake, respectively). Nitosol biomass yield and P uptake RAE were also higher (p<0.05) than for the Andosol (99 versus 88+/-0.8 and 332 versus 72+/-0.2, Nitosol and Andosol, biomass yield and P uptake, respectively). The results show that P-enriched composting in the presence of wheat straw significantly increased P availability and increased plant growth. However, in terms of plant growth, there was no additional benefit of first feeding the RP to steers before composting the manure because most of the RP fed seem to have been utilized by the animal.     

Composting rapidly reduces levels of extractable oxytetracycline in manure from therapeutically treated beef calves

Oxytetracycline (OTC) is a broad-spectrum antibiotic used in livestock production. The widespread use and relative persistence of OTC may encourage development of antibiotic-resistant bacteria. The objective of this study was to determine whether composting would substantially reduce the concentration of OTC found in manure from medicated animals. The effect of OTC on composting was also investigated. Five beef calves were medicated for 5 days with 22 mg/kg/day of OTC. Approximately 23% of the OTC fed to the calves was recovered in the manure. Manure samples collected from calves prior to and after medication were mixed with straw and woodchips, and aliquots of the subsequent mixtures were treated in laboratory composters for 35 days. In addition, aliquots of the OTC-containing mixture were incubated at 25 degrees C or sterilized followed by incubation at 25 degrees C. The presence of OTC did not appear to affect composting processes. Within the first six days of composting, levels of extractable OTC in the compost mixture decreased from 115+/-8 microg/g dry weight to less than 6+/-1 microg/g dry weight (a 95% reduction). In contrast, levels of extractable OTC in room temperature incubated and sterilized mixtures decreased only 12-25% after 37 and 35 days, respectively. Levels of total heterotrophic bacteria and OTC-resistant bacteria in the finished compost mixture were roughly 30-fold higher and 10-fold lower, respectively, than levels in the mixture prior to composting. Although the basis of the OTC disappearance during composting is not known, the preponderence of OTC-sensitive bacteria and the decrease of OTC-resistant bacteria in the finished compost suggests that OTC residues have been rendered biologically inactive or unavailable.     

Compost biofiltration of ammonia gas from bin composting

The effects of the manure compost/coconut peels on the ammonia removal efficiency were examined from dairy manure composting mixed with crop residues. The high rapid composting and manure compost biofiltration experiments consisted of three biofilter vessels with one composter. Dairy manure amended with rice hulls and sawdust was composted in 605 L pilot-scale composter using continuous aeration for 19 days. Three pilot-scale manure compost biofilter amended with media bed 500 mm in depth and 300 mm in diameter were built to clean ammonia emission from composter, respectively. The manure compost biofilter media in the three experimental vessels was using a 50:50 by weight mixture of manure compost and coconut peels (MC/CP). The ammonia concentrations at the inlet and outlet biofilter media were measured by boric acid traps as described by Hong et al. [Hong, J.H., Keener, H.M., Elwell, D.L., 1998. Preliminary study of the effect of continuous and intermittent aeration on composting hog manure amended with sawdust. Compost Science and Utilization 6 (3), 74-88]. Results indicated that the mixture of MC/CP performed well as a biofilter media and the ammonia removal efficiency was 100% for the filter depth of 500 mm.     

Evolution of extracellular enzyme activities during manure composting

AIMS: The objectives of this work were to determine the extracellular enzyme profiles during composting, relate the activities of these enzymes to the changes in microbial population and compare the enzyme profiles between two manures. METHODS AND RESULTS: API ZYM assay was used to monitor the activities of 19 extracellular enzymes during poultry and pig manure composting. Results showed an overall increase in diversity and relative abundance of enzymes present. The relative abundance and activities of enzymes were higher in poultry manure than in pig manure. Among the 19 enzymes tested, esterase, valine amino-peptidase and alpha-galactosidase were the most abundant enzymes in poultry manure, whereas it was N-acetyl-beta-glucosaminidase for the pig manure. A number of these enzymes correlated with change in numbers of different microbial groups during composting. CONCLUSIONS: The composting process represented a combined activity of a wide succession of environments, as one enzyme/microbial group overlapped the other and each emerged gradually due to the continual change in temperature and progressive breakdown of complex compounds to simpler ones. SIGNIFICANCE AND IMPACT OF THE STUDY: The results presented here show the applicability of the API ZYM test not only in monitoring the quantitative and qualitative fluctuation of the available substrate during composting, but also in revealing differences in composts and compost maturity.     

The fate of a genetically modified Pseudomonas strain and its transgene during the composting of poultry manure

The fate of the genetically modified (GM) Pseudomonas chlororaphis strain 3732 RN-L11 and its transgene (lacZ insert) during composting of chicken manure was studied using plate count and nested polymerase chain reaction (PCR) methods. The detection sensitivity of the nested PCR method was 165 copies of the modified gene per gram of moist compost or soil. Compost microcosms consisted of a 100-g mixture of chicken manure and peat, whereas soil microcosms were 100-g samples of sandy clay loam. Each microcosm was inoculated with 4 x 1010 CFU of P. chlororaphis RN-L11. In controlled temperature studies, neither P. chlororaphis RN-L11 nor its transgene could be detected in compost microcosms after incubation temperature was elevated to 45 degrees C or above for one or more days. In contrast, in the compost microcosms incubated at 23 degrees C, the target organism was not detected by the plate count method after 6 days, but its transgene was detectable for at least 45 days. In compost bins, the target organism was not recovered from compost microcosms or soil microcosms at different levels in the bins for 29 days. However, the transgene was detected in 8 of the 9 soil microcosms and in only 1 of the 9 compost microcosms. The compost microcosm in which transgene was detected was at the lower level of the bin where temperatures remained below 45 degrees C. The findings indicated that composting of organic wastes could be used to reduce or degrade heat sensitive GM microorganisms and their transgenes.     

Transformation of organic matter during co-composting of pig manure with sawdust

Co-composting of pig manure with sawdust was studied in order to characterize the organic transformation during the process, using both chemical and spectroscopic methods. Humic acids (HA) and fulvic acids (FA) were fractionated from immature and mature pig manure compost, and characterized. After 63 days of composting, the ratio of total organic carbon and soluble organic carbon decreased to a satisfactory low level and the solid and soluble C/N ratios decreased rapidly for the first 35 days before attaining a constant value, indicating compost maturity. Humification could be responsible for the increase in humic acid proportion during composting. The increase in the aromatic bonds after composting, as indicated by the reduction of C/H and C/O ratios of HA and FA, resulted in a more stabilized product. A substantial increase in high molecular weight compounds along with a small increase in low molecular weight compounds was found in mature compost. Moreover the HA also had more complex organic compounds at this stage. Fluorescence spectral analysis showed an increase in the maximum wavelength of HA associated with the contents of aromatic structures in solution. A decrease in relative absorbance of HA at 1160 cm(-1), 2950 cm(-1) and 2850 cm(-1) was seen in the FTIR spectra indicating the decomposition of complex organic constituents, into simpler ones. Increase in the aromatic compounds with higher stability could account for the relative increase in the absorbance of HA at 1650 cm(-1) and 1250 cm(-1) of the mature compost. The composition of FA was not much altered, indicating most of the degradation of organic matter occurred in HA. Data from organic carbon, C/N ratio, elemental analysis, E(4)/E(6) ratio, gel chromatography, fluorescence and FTIR spectra indicated an increase in polycondensed structures and the presence of more stable organic matter in the mature compost.     

Co-composting solid swine manure with pine sawdust as organic substrate

The main objectives of this work were to investigate the evolution of the principal physicochemical properties, i.e., bulk temperature, pH, electrical conductivity (EC), moisture content, total organic matter, total nitrogen and total phosphorus, in co-composting pine sawdust with increasing percentages of fresh solid swine manure, and thus to evaluate the most desirable manure proportion for producing organic substrates in consideration of the quality of the resulted compost. The composting was in four identical 100.5l lab vessels, using 5% each tea leaves and herb residues as conditioners. The swine manure was added in the trials at 20%, 30%, 40%, respectively, and was substituted in the control with 30% lake sludge corrected by 0.5% urea. The initial humidity of each treatment was 60+/-2%. While being aerated actively at approximately 0.3m(3)/min at intervals of 10 min/h, the mixture was composted for 29 days. The results indicated that N and P decomposition primarily occurred in the mesophilic phase, while organic carbon decomposed in the thermophilic phase and 30% swine manure with initial C/N ratio of about 40 was more desirable for composting organic substrates.     

Inactivation of Salmonella spp. in cow manure composts formulated to different initial C:N ratios

Aerobic composting is a common management practice to inactivate pathogens in manure; however, additional research on the role of compost composition in pathogen inactivation is needed. The objective of this study was therefore to determine the effect of the carbon:nitrogen (C:N) ratio and the presence of ammonium sulfate on inactivation of Salmonella spp. in cow manure-based mixtures composted in a bioreactor under controlled conditions. Compost preparations with an initial C:N ratio of 20:1 required a maximum of 4 days of storage before Salmonellae were inactivated by 7 log₁₀, whereas preparations with C:N ratios of 30:1 and 40:1 C:N required more than 5 and 7 days of storage, respectively. The pH values of both the 20:1 and 30:1 C:N preparations decreased during the onset of composting before increasing to >8. In contrast, pH values of 40:1 C:N preparations increased immediately to >8, generally within the first day of storage. Maximum temperatures observed in 20:1 C:N preparations for inactivation of pathogens were less than 50 °C, and the cumulative heat exposure required for pathogen inactivation in 20:1 C:N preparations was 15-fold less than in 40:1 C:N preparations. Supplementation of compost mixtures with 0.08% ammonium sulfate resulted in slightly higher temperatures; however, these higher temperatures did not translate into more rapid rates of pathogen inactivation.     

Effect of compost temperature on oxygen uptake rate, specific growth rate and enzymatic activity of microorganisms in dairy cattle manure

Investigations were carried out to find out the relationship between temperature and microbial activity in dairy cattle manure composting using oxygen uptake rate, specific growth rate and enzymatic activities during autothermal and isothermal composting experiments. In autothermal composting, oxygen uptake rate and specific growth rate were found to be most intensive in order of 43 degrees C, 60 degrees C and 54 degrees C. Isothermal composting at 54 degrees C resulted highest levels of enzymatic activity and promoted the volatile solids reduction. Based on the maximum enzymatic activity, specific growth rate appeared to be more closely linked with microbial activity in compost than with oxygen uptake rate. The enhancement of specific growth rate, enzymatic activity and volatile solids reduction were induced at 54 degrees C in cattle manure composting.     

Changes in Bacterial and Fungal Communities across Compost Recipes,Preparation Methods,and Composting Times

Compost production is a critical component of organic waste handling, and compost applications to soil are increasingly important to crop production. However, we know surprisingly little about the microbial communities involved in the composting process and the factors shaping compost microbial dynamics. Here, we used high-throughput sequencing approaches to assess the diversity and composition of both bacterial and fungal communities in compost produced at a commercial-scale. Bacterial and fungal communities responded to both compost recipe and composting method. Specifically, bacterial communities in manure and hay recipes contained greater relative abundances of Firmicutes than hardwood recipes with hay recipes containing relatively more Actinobacteria and Gemmatimonadetes. In contrast, hardwood recipes contained a large relative abundance of Acidobacteria and Chloroflexi. Fungal communities of compost from a mixture of dairy manure and silage-based bedding were distinguished by a greater relative abundance of Pezizomycetes and Microascales. Hay recipes uniquely contained abundant Epicoccum, Thermomyces, Eurotium, Arthrobotrys, and Myriococcum. Hardwood recipes contained relatively abundant Sordariomycetes. Holding recipe constant, there were significantly different bacterial and fungal communities when the composting process was managed by windrow, aerated static pile, or vermicompost. Temporal dynamics of the composting process followed known patterns of degradative succession in herbivore manure. The initial community was dominated by Phycomycetes, followed by Ascomycota and finally Basidiomycota. Zygomycota were associated more with manure-silage and hay than hardwood composts. Most commercial composters focus on the thermophilic phase as an economic means to insure sanitation of compost from pathogens. However, the community succeeding the thermophilic phase begs further investigation to determine how the microbial dynamics observed here can be best managed to generate compost with the desired properties.