A biosecure composting system for disposal of cattle carcasses and manure following infectious disease outbreak

Viability of African Swine Fever Virus with the Shallow Burial with Carbon Carcass Disposal Method

African swine fever (ASF) is a highly contagious swine disease with high mortality. In many countries, culling pigs infected and exposed to the ASF virus is mandatory to control the disease, which poses a real challenge in the disposal of large numbers of carcasses during ASF outbreaks. Shallow burial with carbon (SBC) Thanks ew mortality disposal method developed from deep burial and composting. The present study investigates the effectiveness of SBC in disposing of ASF virus-infected pigs. The real-time PCR results showed that DNA of the ASF virus was still detected in bone marrow samples on day 56, while the virus isolation test revealed that the infectious ASF virus was destroyed in both spleen and bone marrow samples on day 5. Interestingly, decomposition was found to occur rapidly in these shallow burial pits. On day 144, only large bones were found in the burial pit. In general, the results of this study indicated that SBC is a potential method for the disposal of ASF-infected carcasses; however, further studies are needed to provide more scientific evidence for the efficacy of SBC in different environment conditions.

Biodegradation of bovine spongiform encephalopathy prions in compost

To reduce the transmission risk of bovine spongiform encephalopathy prions (PrPBSE), specified risk materials (SRM) that can harbour PrPBSE are prevented from entering the feed and food chains. As composting is one approach to disposing of SRM, we investigated the inactivation of PrPBSE in lab-scale composters over 28 days and in bin composters over 106-120 days. Lab-scale composting was conducted using 45 kg of feedlot manure with and without chicken feathers. Based on protein misfolding cyclic amplification (PMCA), after 28 days of composting, PrPBSE seeding activity was reduced by 3-4 log10 with feathers and 3 log10 without. Bin composters were constructed using ~ 2200 kg feedlot manure and repeated in 2017 and 2018. PMCA results showed that seeding activity of PrPBSE was reduced by 1-2 log10 in the centre, but only by 1 log10 in the bottom of bin composters. Subsequent assessment by transgenic (Tgbov XV) mouse bioassay confirmed a similar reduction in PrPBSE infectivity. Enrichment for proteolytic microorganisms through the addition of feathers to compost could enhance PrPBSE degradation. In addition to temperature, other factors including varying concentrations of PrPBSE and the nature of proteolytic microbial populations may be responsible for differential degradation of PrPBSE during composting.

The use of composting for the disposal of African swine fever virus infected swine carcasses

African swine fever (ASF) has been considered as one of the most important and devastating swine diseases with high mortality rates. Since effective vaccines and treatment are not available, mass euthanasia of infected and exposed pigs has been known to be the best measure to control ASF. Although composting has been proved to be a safe method for the rapid disposal of animal carcasses during outbreaks, there is no information about the effect of composting on the viability of ASF virus in swine carcasses. This study investigates the survival of the ASF virus in swine carcasses during composting. The findings suggested that the DNA of the ASF virus was detected in all samples tested. On the contrary, infectious ASF virus particles were rapidly destroyed at day 3. This article is protected by copyright. All rights reserved.

Effect of C/N ration on disposal of pig carcass by co-composting with swine manure: experiment at laboratory scale

Disposal of animal carcasses by co-composting with animal waste usually selected conventional carbon to nitrogen (C/N) ratio around 25:1, in which the compost is widely used throughout the world. In this study, the pig carcass tissue blocks were sampled for composting at a laboratory scale to evaluate the effect of C/N ratio on the pig carcass compost. The time of thermophilic phase between 60 °C - 70 °C at a lower C/N ratio of 20:1 was significantly longer than that at the conventional C/N ratio, and it was the only one with the temperature beyond 70 °C that lasted for 2 days. Germination index and T value (the final C/N ratio / the initial C/N ratio) of the treatment with a C/N ratio of 20:1 were 94.67% and 0.69, respectively, meeting the standards of animal carcass compost. The degradation rate was 75.67%, and no significant difference was obtained as compared to the conventional C/N ratio groups. Organic fertilizer produced from the treatment with a C/N ratio of 20:1 was selected to evaluate the fertility by pot experiment of Cayenne pepper compared with chemical fertilizer. The results showed that organic fertilizer from this treatment could significantly improve the growth of Cayenne pepper. Overall, the use of the lower C/N ratio of 20:1 in the disposal of pig carcass by co-composting with swine manure could achieve the similar degradation rate as well as the maturity and stability of organic fertilizer as compared with the traditional C/N ratio at lab scale.

Degradation of antimicrobial resistance genes within stockpiled beef cattle feedlot manure

Degradation of antimicrobial resistance genes (ARG) in manure from beef cattle administered (kg^-1 feed) 44 mg of chlortetracycline (CTC), 44 mg of chlortetracycline plus sulfamethazine (CTCSMZ), 11 mg of tylosin (TYL), or no antimicrobials (Control) was examined. Manure was stockpiled and quantitative PCR (qPCR) was used to assess tetracycline [tet(C), (L), (M), (W)], erythromycin [erm(A), (B), (F), (X)], and sulfamethazine [sul(1), (2)] ARG and 16S rDNA. After 102 d, copies of all ARG decreased by 0.3 to 1.5 log₁₀ copies (g dry matter)^-1. Temperature in the interior of piles averaged ≥ 55 °C for 10 d, except for CTCSMZ, but did not reach 55 °C at pile exteriors. Compared to Control, CTCSMZ increased (P < 0.05) tet(C), tet(M), tet(W), sul(1), and sul(2) in stockpiled manure. Copies of 16S rDNA remained higher (P < 0.05) in CTCSMZ than Control for the first 26 d. Levels of most ARG did not differ between the interior and exterior of stockpiles. Our results suggest that stockpiled manure would still introduce ARG to land upon manure application, but at levels lower than if manure was applied fresh.

Testing the plastic-wrapped composting system to dispose of swine mortalities during an animal disease outbreak

Composting has been used to dispose of animal mortalities and infected materials, such as manure and feed, during major animal disease outbreaks. In this study, we adapted the plastic-wrapped mortality composting system developed by the Canadian Food Inspection Agency during the 2004 highly pathogenic avian influenza outbreak to compost swine mortalities. The goals of the study were to evaluate the performance of the plastic-wrapped composting system to dispose of swine mortalities and to field test its ability to eliminate the spread of airborne pathogens through the aeration ducts. Two cover materials, ground cornstalks and woodchips, were tested using passively and actively aerated composting sheds. The mortalities were inoculated with Salmonella spp. and vaccine strains of Bovine herpesvirus-1 and Bovine viral diarrhea virus. Air samples collected from the upper aeration duct (air outlet) during the first 10 d of composting were negative for Salmonella and the viruses tested, which indicated that aerosol transmission of the pathogens was limited. The aeration plenum placed under the mortalities helped to keep conditions aerobic, as O₂ concentrations of both passively and actively aerated test units were above 11%. Actively aerated cornstalks had the highest degree-hours (1,462 °C h d^-1 ), which was followed by passively aerated cornstalks (1,312 °C h d^-1 ), actively aerated woodchips (1,303 °C h d^-1 ), and passively aerated woodchips (1,062 °C h d^-1 ). After a 7-wk composting period, all three pathogens were inactivated based on quantitative polymerase chain reaction test results. The mortalities were not inoculated with the African swine fever virus, but temperature data showed that if they were, the system had the potential to eliminate this virus.

Clanis bilineata larvae skin-derived biochars for immobilization of lead: Sorption isotherm and molecular mechanism

Clanis bilineata larva skin (CBLS), a new residue from the food industry, was first used to produce biochars by pyrolysis at 300 °C (CBLS300) and 700 °C (CBLS700), respectively, for Pb immobilization. The sorption isotherms and immobilization mechanisms of Pb on two biochars were investigated. CBLS700 exhibited more high-efficiency in sorption of Pb than CBLS300 due to the predicted maximum sorption capacity of CBLS700 (77.52 mg/g) was larger than that of CBLS300 (49.02 mg/g). Synchrotron-based microfocused X-ray fluorescence analysis exhibited the co-distribution of Pb and P in the sorption product of CBLS700 rather than CBLS300. Microfocused X-ray absorption near-edge structure analysis highlighted the significance of organic ligand in the biochar for Pb immobilization due to both sorption products have organic complexed Pb. Moreover, 25% of total Pb was present as hydrocerussite on CBLS300 but partially transformed into stable hydroxylpyromorphite on CBLS700 (~21%), which was in accordance with the analysis of scanning electron microscopy coupled with energy disperse spectra. Additionally, addition of CBLS700 was more effective in reducing the leachable Pb in shooting range soil than that of CBLS300. These results strongly suggested the potential application of the new biochar (CBLS700) for the remediation of Pb-contaminated soils.

A review of the animal disease outbreaks and biosecure animal mortality composting systems

Despite the development of new vaccines and the application of rigorous biosecurity measures, animal diseases pose a continuing threat to animal health, food safety, national economy, and the environment. Intense livestock production, increased travel, and changing climate have increased the risk of catastrophic animal losses due to infectious diseases. In the event of an outbreak, it is essential to properly manage the infected animals to prevent the spread of diseases. The most common disposal methods used during a disease outbreak include burial, landfilling, incineration and composting. Biosecurity, transportation logistics, public perception, and environmental concerns limit the use of some of these methods. During a disease outbreak, the large number of mortalities often exceeds the capacity of local rendering plants and landfills. Transporting mortalities to disposal and incineration facilities outside the production operation introduces biosecurity risks. Burying mortalities is limited by the size and availability of suitable sites and it has the risk of pathogen survival and contamination of groundwater and soil. Portable incinerators are expensive and have the potential to aerosolize infectious particles. Composting, on the other hand, has been recognized as a biosecure disposal method. Research showed that it eliminates bacterial pathogens such as Escherichia coli O157: H7, Salmonella spp., as well as viruses including highly pathogenic avian influenza, foot-and-mouth disease, Newcastle disease, and porcine epidemic diarrhea. This paper summarizes the lessons learned during the major animal disease outbreaks including the 2010 foot-and-mouth disease, 2016 highly pathogenic avian influenza, and recent African swine fever outbreaks. The purpose of this review is to critically discuss the biosecurity of composting as a mortality disposal method during the outbreaks of infectious animal diseases.

Composting To Inactivate Foodborne Pathogens for Crop Soil Application: A Review

Compost is organic material that has been degraded into a nutrient-stabilized humus-like substance through intense microbial activity, which can provide essential plant nutrients (nitrogen, phosphorus) to aid in the growth of fruits and vegetables. Compost can be generated from animal waste feedstocks; these can contain human pathogens, which can be inactivated through the heat and microbial competition promoted during the composting process. Outbreaks of infections caused by bacterial pathogens such as Escherichia coli O157:H7, Salmonella, and Listeria monocytogenes on fruit and vegetable commodities consumed raw emphasize the importance of minimizing the risk of pathogenic contamination on produce commodities. This review article investigates factors that affect the reduction and survival of bacterial foodborne pathogens during the composting process. Interactions with indigenous microorganisms, carbon:nitrogen ratios, and temperature changes influence pathogen survival, growth, and persistence in finished compost. Understanding the mechanisms of pathogen survival during the composting process and mechanisms that reduce pathogen populations can minimize the risk of pathogen contamination in the cultivation of fruits and vegetables.

Evaluation of compost, vegetable and food waste as amendments to improve the composting of NaOH/NaClO-contaminated poultry manure

Regular usage of NaOH/NaClO disinfectants results in high sodium salt and alkalinity of poultry manure. This study compared three amendments: vegetable waste (V), food waste (F) and mature compost (C) for their ability to improve the composting of NaOH/NaClO-contaminated poultry manure. C compost resulted in the highest compost temperatures (p<0.001) and greatest reduction in OM, TC, TN and NH₄-N (p<0.05). C and V composts were more efficient at lowering extractable-Na (ext-Na) and electrical conductivity (EC) than F (p<0.05). Maturity was primarily indicated by NH₄-N, EC and ext-Na. Bacterial dynamics was profoundly influenced by NH₄-N, EC and TC, with the decrease leading to discriminate genera shift from Sinibacillus and Thiopseudomonas to Brevbacterium, Brachybacterium, and Microbacterium. These findings suggest that mature compost was more desirable amendment than vegetable and food waste in the composting of NaOH/NaClO-contaminated poultry manure, and the decrease of ext-Na indicated compost maturity but did not influence bacterial dynamics.

Influence of pork and bone on product characteristics during the fast pyrolysis of pig carcasses

The characteristics of the products of pig carcass pyrolysis depend on initial feedstock composition, specifically tissue and bone, as well as the interaction between these components. In this work, the raw pork (RP), pig bone (PB), and a mixture of RP and PB to simulate pig carcasses with a mass ratio of 2:1 (RB21) were pyrolyzed at 650 °C and compared to investigate pig carcass pyrolytic product characteristics. The presence of minerals in PB was found to increase the gaseous product yields of RB21 by 16%, especially the CO₂, C₂H₄ and C₂H₆ yields through steam gasification and steam reforming reactions. These minerals also affect tar product distribution, promoting the cracking of long chain hydrocarbons and the cyclization reaction of hydrocarbons, esters, amides/nitriles to produce more aromatic, O-heterocyclic and N-heterocyclic compounds, respectively. The Brunauer-Emmett-Teller (BET) surface area of pyrolytic RB21 char is 134.025 m²/g and it is a porous material rich in minerals like Ca, P, and K. The addition of RP causes more wrinkles on the surface and reduces its mesopore diameter from 6.263 nm to 5.412 nm. The Ca and P in char are derived from hydroxyapatite occurring in PB, and K presents in RP participates in the crystallization of RB21 char, forming a new crystal compound Ca₈H₂(PO₄)₆·KHCO₃.

Dissipation of antimicrobial resistance genes in compost originating from cattle manure after direct oral administration or post-excretion fortification of antimicrobials

Dissipation of antimicrobial resistance genes (ARG) during composting of cattle manure generated through fortification versus administration of antimicrobials in feed was compared. Manure was collected from cattle fed diets containing (kg^-1) dry matter (DM): (1) 44 mg chlortetracycline (CTC), (2) a mixture of 44 mg each of chlortetracycline and sulfamethazine (CTCSMZ), (3) 11 mg tylosin (TYL) or (4) Control, no antimicrobials. Manures were composted for 30 d with a single mixing after 16 d to generate the second heating cycle. Quantitative PCR (qPCR) was used to measure 16S rDNA and tetracycline (tet), erythromycin (erm) and sulfamethazine (sul) genes. Temperature peaks ranged from 48 to 68°C across treatments in the first composting cycle, but except for the control, did not exceed 55°C in the second cycle. Copy numbers of 16S rDNA decreased (P < 0.05) during composting, but were not altered by antimcrobials. Except tet(L), all ARG decreased by 0.1-1.6 log₁₀ g DM^-1 in the first cycle, but some genes (tet[B], tet[L], erm[F], erm[X]) increased (P < 0.05) by 1.0-3.1 log₁₀ g DM^-1 in the second. During composting, levels of tet(M) and tet(W) in CTC, erm(A), erm(B) and erm(X) in TYL, and sul(1) in CTCSMZ remained higher (P < 0.05) in fed than fortified treatments. The dissipation of ARG during composting of manure fortified with antimicrobials differs from manure generated by cattle that are administered antimicrobials in feed, and does not always align with the dissipation of antimicrobial residues.

Inactivation of Bacillus anthracis Spores during Laboratory-Scale Composting of Feedlot Cattle Manure

Anthrax outbreaks in livestock have social, economic and health implications, altering farmer’s livelihoods, impacting trade and posing a zoonotic risk. Our study investigated the survival of Bacillus thuringiensis and B. anthracis spores sporulated at 15, 20, or 37°C, over 33 days of composting. Spores (∼7.5 log₁₀ CFU g^-1) were mixed with manure and composted in laboratory scale composters. After 15 days, the compost was mixed and returned to the composter for a second cycle. Temperatures peaked at 71°C on day 2 and remained ≥55°C for an average of 7 days in the first cycle, but did not exceed 55°C in the second. For B. thuringiensis, spores generated at 15 and 21°C exhibited reduced (P < 0.05) viability of 2.7 and 2.6 log₁₀ CFU g^-1 respectively, as compared to a 0.6 log₁₀ CFU g^-1 reduction for those generated at 37°C. For B. anthracis, sporulation temperature did not impact spore survival as there was a 2.5, 2.2, and 2.8 log₁₀ CFU g^-1 reduction after composting for spores generated at 15, 21, and 37°C, respectively. For both species, spore viability declined more rapidly (P < 0.05) in the first as compared to the second composting cycle. Our findings suggest that the duration of thermophilic exposure (≥55°C) is the main factor influencing survival of B. anthracis spores in compost. As sporulation temperature did not influence survival of B. anthracis, composting may lower the viability of spores associated with carcasses infected with B. anthracis over a range of sporulation temperatures.

Composting for Biocontained Cattle Mortality Disposal and Associated Greenhouse Gas and Leachate Emissions

Composting can be an effective means of biodegrading livestock mortalities in emergency disposal situations, such as disease outbreaks. Within the past decade, our knowledge detailing composting has increased substantially. However, research data linking the environmental impact of composting to atmospheric and terrestrial systems are limited. We investigated composting efficacy, greenhouse gas emissions, and leachate properties from two static compost piles, each containing 16 cattle mortalities, built with either beef manure (BM) or wood shavings (WS) as envelope material. Wood shavings achieved a greater maximum temperature than BM (60 vs. 50°C) and maintained higher temperatures over 200 d ( < 0.001). Greenhouse gas emissions were evaluated using a static chamber and gas chromatography. Emissions of NO ( < 0.001), CH ( < 0.01), and CO ( < 0.05) were lower from WS than BM, resulting in 3-fold lower total CO equivalent emissions. After 250 d of composting, piles were relocated, and soil cores were taken (i) from beneath the piles, (ii) adjacent to the piles where leachate had accumulated, and (iii) in a control zone without compost exposure. Elevated concentrations of ammonium ( < 0.05) and chloride ( < 0.05) were found in soil beneath both BM and WS. Microbial DNA profiles suggested that leachate from BM compost increased bacterial diversity in soil, maintaining a biological soil impact after pile removal. Degradation of bovine mitochondrial DNA fragments was monitored by polymerase chain reaction. Limited migration of genetic bovine material from compost into soil was observed. Based on the mortalities decomposition and leachate contents, both BM and WS are suitable envelope materials for composting.

Human Campylobacteriosis in Luxembourg, 2010-2013: A Case-Control Study Combined with Multilocus Sequence Typing for Source Attribution and Risk Factor Analysis

Campylobacteriosis has increased markedly in Luxembourg during recent years. We sought to determine which Campylobacter genotypes infect humans, where they may originate from, and how they may infect humans. Multilocus sequence typing was performed on 1153 Campylobacter jejuni and 136 C. coli human strains to be attributed to three putative animal reservoirs (poultry, ruminants, pigs) and to environmental water using the asymmetric island model. A nationwide case-control study (2010-2013) for domestic campylobacteriosis was also conducted, including 367 C. jejuni and 48 C. coli cases, and 624 controls. Risk factors were investigated by Campylobacter species, and for strains attributed to different sources using a combined case-control and source attribution analysis. 282 sequence types (STs) were identified: ST-21, ST-48, ST-572, ST-50 and ST-257 were prevailing. Most cases were attributed to poultry (61.2%) and ruminants (33.3%). Consuming chicken outside the home was the dominant risk factor for both Campylobacter species. Newly identified risk factors included contact with garden soil for either species, and consuming beef specifically for C. coli. Poultry-associated campylobacteriosis was linked to poultry consumption in wintertime, and ruminant-associated campylobacteriosis to tap-water provider type. Besides confirming chicken as campylobacteriosis primary source, additional evidence was found for other reservoirs and transmission routes.

Performance of a plastic-wrapped composting system for biosecure emergency disposal of disease-related swine mortalities

A passively-ventilated plastic-wrapped composting system initially developed for biosecure disposal of poultry mortalities caused by avian influenza was adapted and tested to assess its potential as an emergency disposal option for disease-related swine mortalities. Fresh air was supplied through perforated plastic tubing routed through the base of the compost pile. The combined air inlet and top vent area is ⩽∼1% of the gas exchange surface of a conventional uncovered windrow. Parameters evaluated included: (1) spatial and temporal variations in matrix moisture content (m.c.), leachate production, and matrix O2 concentrations; (2) extent of soft tissue decomposition; and (3) internal temperature and the success rate in achieving USEPA time/temperature (T) criteria for pathogen reduction. Six envelope materials (wood shavings, corn silage, ground cornstalks, ground oat straw, ground soybean straw, or ground alfalfa hay) and two initial m.c.'s (15-30% w.b. for materials stored indoors, and 45-65% w.b. to simulate materials exposed to precipitation) were tested to determine their effect on performance parameters (1-3). Results of triple-replicated field trials showed that the composting system did not accumulate moisture despite the 150kg carcass water load (65% of 225kg total carcass mass) released during decomposition. Mean compost m.c. in the carcass layer declined by ∼7 percentage points during 8-week trials, and a leachate accumulation was rare. Matrix O2 concentrations for all materials other than silage were ⩾10% using the equivalent of 2m inlet/vent spacing. In silage O2 dropped below 5% in some cases even when 0.5m inlet/vent spacing was used. Eight week soft tissue decomposition ranged from 87% in cornstalks to 72% in silage. Success rates for achievement of USEPA Class B time/temperature criteria ranged from 91% for silage to 33-57% for other materials. Companion laboratory biodegradation studies suggest that Class B success rates can be improved by slightly increasing envelope material m.c. Moistening initially dry (15% m.c.) envelope materials to 35% m.c. nearly doubled their heat production potential, boosting it to levels ⩾silage. The 'contradictory' silage test results showing high temperatures paired with slow soft tissue degradation are likely due to this material's high density, low gas permeability and low water vapor loss. While slow decomposition typically suggests low microbial activity and heat production, it does not rule out high internal temperatures if the heat produced is conserved. Occasional short-term odor releases during the first 2weeks of composting were associated with top-to-bottom gas flow which is contrary to the typical bottom-to-top flow typically observed in conventional compost piles. In cases where biosecurity concerns are paramount, results of this study show the plastic-wrapped passively-ventilated composting method to have good potential for above-ground swine mortality disposal.

Heat and desiccation are the predominant factors affecting inactivation of Bacillus licheniformis and Bacillus thuringiensis spores during simulated composting

AIMS

The suitability of composting for disposal of livestock mortalities due to Bacillus anthracis was assessed by measuring viability of surrogate spores from two strains each of Bacillus licheniformis and Bacillus thuringiensis after a heating cycle modelled on a cattle composting study.

METHODS AND RESULTS

Sporulation was attempted from 10 to 37°C, but poor yields at lower temperatures resulted in 25, 30 and 37°C being selected to generate sufficient spores (8 log10  CFU ml(-1) ) for experiments. Spores were inoculated into 3 g autoclaved dried-ground compost rehydrated with 6 ml water or silica beads in a factorial design for each strain, sporulation temperature, matrix and sampling day (0, 25, 50, 100, 150). Maximum incubation temperature was 62°C, but spores were maintained at ≥55°C for 78 of 150 days. Although significant differences existed among Bacillus strains and sporulation temperatures, numbers of viable spores after 150 days averaged 1·3 log10  CFU g(-1) , a 5·2 log10 reduction from day 0.

CONCLUSIONS

Spore inactivation was likely due to heat and desiccation as matrices were autoclaved prior to incubation, negating impacts of microflora.

SIGNIFICANCE AND IMPACT OF STUDY

Results support composting for disposal of anthrax mortalities, provided long-term thermophillic heating is achieved. Due to limited sporulation at 10°C, livestock mortalities from anthrax at this or lower ambient temperatures would likely be of lower risk for disease transmission.

Bacterial Pathogen Indicator Transport from Livestock Mortality Biopiles

Biopiles can be used to dispose of slaughterhouse residuals (SLRs); however, the fate of pathogenic bacteria (e.g., pathogenic strains of , ) in these systems is not well understood. The transport of these bacteria in water leaching from the biopile could represent a significant contamination source. This research examined the transport of Enterobacteriaceae and Enterococcaceae indicator bacteria from SLR biopiles. Three biopiles (2.6 m wide by 4.6 m long by 1.8 m high) were formed on soil layers in concrete cells that allowed for real-time monitoring of environmental parameters, hydrologic flux, and indicator bacteria levels in effluent leaching from the piles. In biopile effluent, indicator bacteria populations decreased exponentially following biopile formation. Indicator bacteria loads in effluent constituted <0.01% of the initial indicator bacteria levels in the biopiles, which was attributed to retention, inactivation, and death. Nearly 90% of the total indicator bacteria loads coincided with large precipitation events (>15 mm d). Movement of the indicator bacteria through the biopiles and underlying soil appeared to be consistent with preferential flow phenomena. The populations of the Enterobacteriaceae indicators remained low in conditions of higher soil water content and lower biopile temperatures, whereas the Enterococcaceae indicator appeared to regrow in these conditions. This indicated that bacterial pathogen transport from a biopile could be a concern after the disappearance of conventional bacterial indicators, such as . Management considerations should attempt to divert excess water from entering a biopile, such as locating a biopile under a roof. Unsaturated biopile and soil conditions should be maintained to impede water flow through preferential pathways in the soil underneath a biopile.

Heat Shock-Enhanced Conjugation Efficiency in Standard Campylobacter jejuni Strains

Campylobacter jejuni, the leading bacterial cause of human gastroenteritis in the United States, displays significant strain diversity due to horizontal gene transfer. Conjugation is an important horizontal gene transfer mechanism contributing to the evolution of bacterial pathogenesis and antimicrobial resistance. It has been observed that heat shock could increase transformation efficiency in some bacteria. In this study, the effect of heat shock on C. jejuni conjugation efficiency and the underlying mechanisms were examined. With a modified Escherichia coli donor strain, different C. jejuni recipient strains displayed significant variation in conjugation efficiency ranging from 6.2 × 10(-8) to 6.0 × 10(-3) CFU per recipient cell. Despite reduced viability, heat shock of standard C. jejuni NCTC 11168 and 81-176 strains (e.g., 48 to 54°C for 30 to 60 min) could dramatically enhance C. jejuni conjugation efficiency up to 1,000-fold. The phenotype of the heat shock-enhanced conjugation in C. jejuni recipient cells could be sustained for at least 9 h. Filtered supernatant from the heat shock-treated C. jejuni cells could not enhance conjugation efficiency, which suggests that the enhanced conjugation efficiency is independent of secreted substances. Mutagenesis analysis indicated that the clustered regularly interspaced short palindromic repeats system and the selected restriction-modification systems (Cj0030/Cj0031, Cj0139/Cj0140, Cj0690c, and HsdR) were dispensable for heat shock-enhanced conjugation in C. jejuni. Taking all results together, this study demonstrated a heat shock-enhanced conjugation efficiency in standard C. jejuni strains, leading to an optimized conjugation protocol for molecular manipulation of this organism. The findings from this study also represent a significant step toward elucidation of the molecular mechanism of conjugative gene transfer in C. jejuni.

Nationwide surveillance for pathogenic microorganisms in groundwater near carcass burials constructed in South Korea in 2010

Widespread outbreaks of foot-and-mouth disease and avian influenza occurred in South Korea during 2010. In response to the culling of many animals to attenuate the spread of disease, South Korea used mass burial sites to dispose of the large number of carcasses; consequently, concerns about groundwater contamination by leachate from these burial sites are increasing. Groundwater is one of the main sources of drinking water, and its cleanliness is directly related to public health. Thus, this study aimed to evaluate the safety of groundwater around the burial sites (total of 600 sites). A total of 1,200 groundwater samples were collected though the country, and microbial analysis was conducted during two time periods: during the spring (n = 600; April to June 2012) and after rainfall (n = 600; August to October, 2012; fall). Fecal coliform and Escherichia coli were detected in 173 (14.4%) and 85 (7.1%) of the 1,200 samples, respectively. Salmonella spp. and Shigella spp. each were detected only once (0.083%). Clostridium perfringens was detected from 7 groundwater samples (0.583%), and E. coli O157:H7 was not detected. With respect to norovirus, only the GII type was detected from six groundwater samples (0.5%), and enterovirus was detected in 15 groundwater samples (1.25%). The frequency of E. coli that we detected was lower than that found in previous studies conducted in South Korea, but we detected higher frequency of fecal coliform than that observed in a previous report. The contamination frequencies of Salmonella spp. and Shigella spp. were very low, but C. perfringens, which could be an indicator of fecal pollution, was detected in seven regions. Overall, the results of the present study indicate a low possibility of contamination from burial sites. However, consistent monitoring is required to prevent microbial contamination of groundwater near the burial sites.

Influence of agricultural wastes and a finished compost on the decomposition of slaughterhouse waste composts

The objective of this study was to evaluate the efficacy of combining agricultural wastes or a finished compost (wheat straw, horse manure and bedding, sheep manure, and a wheat straw-SHW finished compost) as compost feedstocks with cattle slaughterhouse wastes (SHW) on a field-scale. The composts were managed in covered bins over 200 days and physico-chemical parameters related to organic matter bio-degradation were measured over time. Thermophilic temperatures were maintained above 55 °C for 12-46 days to meet the Canadian Council of Ministers of the Environment (CCME) guidelines for pathogen control. Final C:N ratios were highest in a horse manure and bedding:SHW compost at 23:1 but ranged from 18.5 to 20.5:1 for the remaining three treatments, representing a wheat straw:SHW compost and different combinations of horse manure and bedding, SHW, and/or sheep manure. Average reduction in mass of total carbon across all the composts in the current study was 54.2%. Maturity tests at the end of the study determined that the CO2-C evolution rate in all compost products was less than 1 mg g(-1) organic matter day(-1) suggesting highly stable final compost products. Compost mass reductions all responded as exponential decay functions with R(2) values ranging from 0.84 to 0.99 regardless of compost feedstock composition. Agricultural by-products and composts are suitable feedstocks for use with SHW to generate a stable final product while meeting regulatory parameters to achieve conventional pathogen control.

Assessing the inactivation of Mycobacterium avium subsp. paratuberculosis during composting of livestock carcasses

Mycobacterium avium subsp. paratuberculosis causes Johne's disease (JD) in ruminants, with substantial economic impacts on the cattle industry. Johne's disease is known for its long latency period, and difficulties in diagnosis are due to insensitivities of current detection methods. Eradication is challenging as M. avium subsp. paratuberculosis can survive for extended periods within the environment, resulting in new infections in naïve animals (W. Xu et al., J. Environ. Qual. 38:437-450, 2009). This study explored the use of a biosecure, static composting structure to inactivate M. avium subsp. paratuberculosis. Mycobacterium smegmatis was also assessed as a surrogate for M. avium subsp. paratuberculosis. Two structures were constructed to hold three cattle carcasses each. Naturally infected tissues and ground beef inoculated with laboratory-cultured M. avium subsp. paratuberculosis and M. smegmatis were placed in nylon and plastic bags to determine effects of temperature and compost environment on viability over 250 days. After removal, samples were cultured and growth of both organisms was assessed after 12 weeks. After 250 days, M. avium subsp. paratuberculosis was still detectable by PCR, while M. smegmatis was not detected after 67 days of composting. Furthermore, M. avium subsp. paratuberculosis remained viable in both implanted nylon and plastic bags over the composting period. As the compost never reached a homogenous thermophilic (55 to 65°C) state throughout each structure, an in vitro experiment was conducted to examine viability of M. avium subsp. paratuberculosis after exposure to 80°C for 90 days. Naturally infected lymph tissues were mixed with and without compost. After 90 days, M. avium subsp. paratuberculosis remained viable despite exposure to temperatures typically higher than that achieved in compost. In conclusion, it is unlikely composting can be used as a means of inactivating M. avium subsp. paratuberculosis associated with cattle mortalities.

Effect of envelope material on biosecurity during emergency bovine mortality composting

The biosecurity of composting as an emergency disposal method for cattle mortalities caused by disease was evaluated by conducting full-scale field trials begun during three different seasons and using three different envelope materials. Process biosecurity was significantly affected by the envelope material used to construct the composting matrix. Internal temperatures met USEPA Class A time/temperature criteria for pathogen reduction in 89%, 67%, and 22%, respectively of seasonal test units constructed with corn silage, straw/manure, or ground cornstalks. In trials begun in the winter, survival times of vaccine strains of avian encephalomyelitis and Newcastle disease virus were noticeably shorter in silage test units than in the other two materials, but during summer/spring trials survival times in ground cornstalk and straw/manure test units were similar to those in test units constructed with silage.

Biodegradation of specified risk material and fate of scrapie prions in compost

Composting may be a viable alternative to rendering and land filling for the disposal of specified risk material (SRM) provided that infectious prion proteins (PrP(TSE)) are inactivated. This study investigated the degradation of SRM and the fate of scrapie prions (PrP(Sc)) over 28 days in laboratory-scale composters, with and without feathers in the compost matrices. Compost was mixed at day 14 to generate a second heating cycle, with temperatures exceeding 65°C in the first cycle and 50°C in the second cycle. Approximately 63% and 77% of SRM was degraded after the first and second cycles, respectively. Inclusion of feathers in the compost matrices did not alter compost properties during composting other than increasing (P < 0.05) total nitrogen and reducing (P < 0.05) the C/N ratio. However, addition of feathers enhanced (P < 0.05) SRM degradation by 10% upon completion of experiment. Scrapie brain homogenates were spiked into manure at the start of composting and extracted using sodium dodecyl sulphate followed by detection using Western blotting (WB). Prior to composting, PrP(Sc) was detectable in manure with 1-2 log(10) sensitivity, but was not observable after 14 or 28 days of composting. This may have been due to either biological degradation of PrP(Sc) or the formation of complexes with compost components that precluded its detection.

Evaluation of an aerobic composting process for the management of Specified Risk Materials (SRM)

In Nova Scotia (NS), approximately 2700 tonnes of Specified Risk Materials (SRM) are produced annually. SRM disposal is a serious concern for abattoirs and the beef industry. Composting offers a low risk and simple means to transform raw SRM into a more stable and easily managed material. In this project, wheat straw and sawdust were used to compost with SRM on a pilot scale. The study evaluated changes over time in total carbon, total nitrogen, pH, temperature, moisture content and electrical conductivity. Compost temperatures in all treatments met the Canadian Council of Ministers of the Environment (CCME) guidelines for pathogen kill. The compost maturity tests showed that the evolution of CO(2)-C in all the final compost products was less than 1 mg g(-1) organic matter day(-1). Wheat straw performed well as a composting feedstock for raw SRM as sawdust. While the wheat straw has advantages including greater availability, lower cost and easily decomposable carbon compounds more management is required to maintain adequate compost temperatures. The influences of seasonal variations due to temperate climatic conditions on SRM composting were also studied with wheat straw. The results suggest no significant differences in composting effectiveness between the two seasons.

Methane and carbon dioxide production from simulated anaerobic degradation of cattle carcasses

Approximately 2.2million cattle carcasses require disposal annually in the United States. Land burial is a convenient disposal method that has been widely used in animal production for disposal of both daily mortalities as well as during catastrophic mortality events. To date, greenhouse gas production after mortality burial has not been quantified, and this study represents the first attempt to quantify greenhouse gas emissions from land burial of animal carcasses. In this study, anaerobic decomposition of both homogenized and unhomogenized cattle carcass material was investigated using bench-scale reactors. Maximum yields of methane and carbon dioxide were 0.33 and 0.09m(3)/kg dry material, respectively, a higher methane yield than that previously reported for municipal solid waste. Variability in methane production rates were observed over time and between reactors. Based on our laboratory data, annual methane emissions from burial of cattle mortalities in the United States could total 1.6Tg CO(2) equivalents. Although this represents less than 1% of total emissions produced by the agricultural sector in 2009, greenhouse gas emissions from animal carcass burial may be significant if disposal of swine and poultry carcasses is also considered.

Biosecurity aspects and pathogen inactivation in acidified high risk animal by-products

The aim of the study was to investigate the effects of formic acid addition to ground high risk animal by-products (ABP 1) in terms of stabilization and pathogen inactivation and to evaluate the biosecurity risk connected with the ABP 1 based combustion fuel Biomal. Laboratory studies were performed on the persistence of Salmonella Typhimurium, Bacillus cereus spores, porcine herpes virus, avian influenza virus, bovine viral diarrhea virus, equine rhinitis A virus and porcine parvovirus in Biomal at different storage times. It was shown that Salmonella and enveloped viruses were inactivated within 1 day (24 h). Bacillus cereus spores were not reduced during 147 days and the non-enveloped virus porcine parvovirus was still detected after 168 days of storage. The conclusion that can be drawn from the study is that transmission of some highly contagious diseases such as foot-and-mouth-disease, swine vesicular disease and egg drop syndrome, caused by non-enveloped viruses, may follow accidental leakages of Biomal. In addition, there is a risk of transmission of the diseases anthrax and black leg, caused by sporulating bacteria.

The environmental and biosecurity characteristics of livestock carcass disposal methods: A review

Livestock mortalities represent a major waste stream within agriculture. Many different methods are used throughout the world to dispose of these mortalities; however within the European Union (EU) disposal options are limited by stringent legislation. The legal disposal options currently available to EU farmers (primarily rendering and incineration) are frequently negatively perceived on both practical and economic grounds. In this review, we assess the potential environment impacts and biosecurity risks associated with each of the main options used for disposal of livestock mortalities in the world and critically evaluate the justification for current EU regulations. Overall, we conclude that while current legislation intends to minimise the potential for on-farm pollution and the spread of infectious diseases (e.g. transmissible spongiform encephalopathies, bacterial pathogens), alternative technologies (e.g. bioreduction, anaerobic digestion) may provide a more cost-effective, practical and biosecure mechanism for carcass disposal as well as having a lower environmental footprint. Further social, environmental and economic research is therefore warranted to assess the holistic benefits of alternative approaches for carcass disposal in Europe, with an aim to provide policy-makers with robust knowledge to make informed decisions on future legislation.

Field scale evaluation of bovine-specific DNA as an indicator of tissue degradation during cattle mortality composting

Currently, mortality compost is managed by temperature as extent of tissue degradation is difficult to assess. In the present study, field-scale mortality compost was constructed with composted brain tissue (Brain) and compost adjacent to brain tissue (CAB) sampled over 230 d. Following genomic DNA extraction, bovine-specific mitochondrial DNA (Mt-DNA) and bacterial 16S rDNA fragments were quantified using real-time PCR. Genomic DNA yield of Brain and CAB decreased rapidly (89-98%) and stabilized after 7 d. Compared to d 0, Brain Mt-DNA rapidly decreased (84-91% reduction on d 7). In CAB, Mt-DNA dramatically increased until d 28 (up to 34,500 times) thereafter decreasing by 77-93% on d 112. Quantification of bovine Mt-DNA indicates tissue degradation was initially characterized by rapid decomposition and release of cell contents into surrounding compost matrix followed by further degradation of Mt-DNA by flourishing microorganisms. Consequently, bovine Mt-DNA copies in compost matrix were reliable indicators of tissue degradation.

Viability of Bacillus licheniformis and Bacillus thuringiensis spores as a model for predicting the fate of bacillus anthracis spores during composting of dead livestock

Safe disposal of dead livestock and contaminated manure is essential for the effective control of infectious disease outbreaks. Composting has been shown to be an effective method of disposal, but no information exists on its ability to contain diseases caused by spore-forming bacteria, such as Bacillus anthracis. Duplicate composters (east and west), each containing 16 dead cattle, were constructed (final capacity, 85,000 kg). Spores (10(7) CFU/g manure) of Bacillus licheniformis and Bacillus thuringiensis were mixed with autoclaved feedlot manure and placed in either sterile vials or porous nylon bags. Compost temperatures in the west composter were slightly higher than in the east composter. Viable B. thuringiensis spores were reduced to ≤10(2) CFU in all samples after 112 days but were isolated from bags (west composter) at ≤10(2) and at 10(5) CFU (east composter) after 230 days. In contrast, B. licheniformis was at ≤10(2) CFU in vials (west composter) after 112 days but remained at 10(6) CFU after 230 days (east composter). Similarly, B. licheniformis in bags was not detected after 230 days in the west composter but remained at 10(7) CFU in the east composter. Our study suggests that spore viability was reduced in the west composter by exposure to compost and elevated temperatures over time. Different temperature profiles may explain why spores remained viable in the east structure but were largely rendered nonviable in the west structure. Under practical conditions, variation in composting microclimates may preclude the complete inactivation of Bacillus spores, including those of B. anthracis, during composting. However, composting may still have merit as a method of biocontainment, reducing and diluting the transfer of infectious spores into the environment.

Field scale evaluation of volatile organic compound production inside biosecure swine mortality composts

Emergency mortality composting associated with a disease outbreak has special requirements to reduce the risks of pathogen survival and disease transmission. The most important requirements are to cover mortalities with biosecure barriers and avoid turning compost piles until the pathogens are inactivated. Temperature is the most commonly used parameter for assessing success of a biosecure composting process, but a decline in compost core temperature does not necessarily signify completion of the degradation process. In this study, gas concentrations of volatile organic compounds (VOCs) produced inside biosecure swine mortality composting units filled with six different cover/plant materials were monitored to test the state and completion of the process. Among the 55 compounds identified, dimethyl disulfide, dimethyl trisulfide, and pyrimidine were found to be marker compounds of the process. Temperature at the end of eight weeks was not found as an indicator of swine carcass degradation. However, gas concentrations of the marker compounds at the end of eight weeks were found to be related to carcass degradation. The highest gas concentrations of the marker compounds were measured for the test units with the lowest degradation (highest respiration rates). Dimethyl disulfide was found to be the most robust marker compound as it was detected from all composting units in the eighth week of the trial. Concentration of dimethyl disulfide decreased from a range of 290-4340 ppmv to 6-160 ppbv. Dimethyl trisulfide concentrations decreased to a range of below detection limit to 430 ppbv while pyrimidine concentrations decreased to a range of below detection limit to 13 ppbv.

Biocontained carcass composting for control of infectious disease outbreak in livestock

Intensive livestock production systems are particularly vulnerable to natural or intentional (bioterrorist) infectious disease outbreaks. Large numbers of animals housed within a confined area enables rapid dissemination of most infectious agents throughout a herd. Rapid containment is key to controlling any infectious disease outbreak, thus depopulation is often undertaken to prevent spread of a pathogen to the larger livestock population. In that circumstance, a large number of livestock carcasses and contaminated manure are generated that require rapid disposal.

Composting lends itself as a rapid-response disposal method for infected carcasses as well as manure and soil that may harbor infectious agents. We designed a bio-contained mortality composting procedure and tested its efficacy for bovine tissue degradation and microbial deactivation. We used materials available on-farm or purchasable from local farm supply stores in order that the system can be implemented at the site of a disease outbreak. In this study, temperatures exceeded 55°C for more than one month and infectious agents implanted in beef cattle carcasses and manure were inactivated within 14 days of composting. After 147 days, carcasses were almost completely degraded. The few long bones remaining were further degraded with an additional composting cycle in open windrows and the final mature compost was suitable for land application.

Duplicate compost structures (final dimensions 25 m x 5 m x 2.4 m; L x W x H) were constructed using barley straw bales and lined with heavy black silage plastic sheeting. Each was loaded with loose straw, carcasses and manure totaling ~95,000 kg. A 40-cm base layer of loose barley straw was placed in each bunker, onto which were placed 16 feedlot cattle mortalities (average weight 343 kg) aligned transversely at a spacing of approximately 0.5 m. For passive aeration, lengths of flexible, perforated plastic drainage tubing (15 cm diameter) were placed between adjacent carcasses, extending vertically along both inside walls, and with the ends passed though the plastic to the exterior. The carcasses were overlaid with moist aerated feedlot manure (~1.6 m deep) to the top of the bunker. Plastic was folded over the top and sealed with tape to establish a containment barrier and eight aeration vents (50 x 50 x 15 cm) were placed on the top of each structure to promote passive aeration. After 147 days, losses of volume and mass of composted materials averaged 39.8% and 23.7%, respectively, in each structure.

Biodegradation of genetically modified seeds and plant tissues during composting

BACKGROUND

The increasing global market of genetically modified (GM) crops amplifies the potential for unintentional contamination of food and feed with GM plants. Methods proposed for disposal of crop residues should be assessed to prevent unintended distribution of GM materials. Composting of organic material is inexpensive and location-independent. The objective of this study was to determine the effectiveness of composting for disposal of GM plants in terms of reducing seed viability and promoting the degradation of endogenous as well as transgenic DNA.

RESULTS

Duplicate samples of corn kernels, alfalfa leaves, and GM canola seeds, meal and pellets were sealed in porous nylon bags and implanted in duplicate 85,000 kg (initial weight) feedlot manure compost piles. Samples were collected at intervals over 230 days of composing. Canola seeds and corn kernels were not viable after 14 days of composting with temperatures in the piles exceeding 50 degrees C. In all samples, PCR analyses revealed that plant endogenous and transgenic fragments were substantially degraded after 230 days of composting. Southern blotting of genomic DNA isolated from canola seeds identified differences in the persistence of endogenous, transgenic, and bacterial DNA.

CONCLUSION

Composting GM and non-GM plant materials with manure rendered seeds non-viable, and resulted in substantial, although not complete, degradation of endogenous and transgenic plant DNA. This study demonstrates that composting could be effective for disposing of GM crops in the event of their inadvertent entry into the food or feed chain.

Prolonged survival of Campylobacter species in bovine manure compost

The persistence of naturally occurring campylobacteria in aerobic compost constructed of manure from beef cattle that were administered chlortetracycline and sulfamethazine (AS700) or from cattle not administered antibiotics (control) was examined. Although there were no differences in population sizes of heterotrophic bacteria, the temperature of AS700 compost was more variable and did not become as high as that of control compost. There were significant differences in water content, total carbon (C), total nitrogen (N), and electrical conductivity but not in the C/N ratio or pH between the two compost treatments. Campylobacteria were readily isolated from pen manure, for up to day 15 from control compost, and throughout the active phase of AS700 compost. Campylobacter DNA (including Campylobacter coli, Campylobacter fetus, Campylobacter hyointestinalis, and Campylobacter jejuni) was detected over the ca. 10-month composting period, and no reductions in quantities of C. jejuni DNA were observed over the duration of the active phase. The utilization of centrifugation in combination with ethidium monoazide (EMA) significantly reduced (>90%) the amplification of C. jejuni DNA that did not originate from cells with intact cell membranes. No differences were observed in the frequency of Campylobacter DNA detection between EMA- and non-EMA-treated samples, suggesting that Campylobacter DNA amplified from compost was extracted from cells with intact cell membranes (i.e., from viable cells). The findings of this study indicate that campylobacteria excreted in cattle feces persist for long periods in compost and call into question the common belief that these bacteria do not persist in manure.

Use of quantitative and conventional PCR to assess biodegradation of bovine and plant DNA during cattle mortality composting

Understanding mortality composting requires assessing the biodegradation efficacy of carcasses and other materials of animal and plant origin. Biosecure (plastic-wrapped) compost structures were built containing 16 cattle carcasses placed on 40 cm straw and covered with 160-cm of feedlot manure. Compost was collected from depths of 80 and 160 cm (P80, P160) and DNA degradation assessed over 147 days of static composting, and during 180 days of active composting. Residual soft tissues from carcasses were collected on day 147. At P80, copies of a 171-bp bovine mitochondrial DNA (Mt171) and 138-bp plant Rubisco gene fragment (Rub138) were reduced compared to initial copy numbers (CN) by 79% and 99% after 147 days, respectively. At P160, Mt171, and Rub138 decreased compared to initial CN by 20% and 99% by day 147, respectively. After 327 days, degradation of Mt171 increased to 91% compared to initial CN. Compared to fresh tissues, residual tissues at day 147 had a 99% reduction in genomic DNA yield. Yield of DNA was related to copies of a 760-bp bovine mitochondrial fragment (Mt760) which were > 93% reduced at both P80 and P160 after 147 day. Secondary composting improved decomposition of bovine tissues and Mt760 was not detectable after 207 days. A 99% reduction in genomic DNA of composted tissue and > 93% reduction of Mt760 suggests almost complete decomposition of carcass soft tissue after 147 days.

Actinomadura keratinilytica sp. nov., a keratin-degrading actinobacterium isolated from bovine manure compost

A novel keratinolytic actinobacterium, strain WCC-2265(T), was isolated from bovine hoof keratin 'baited' into composting bovine manure from southern Alberta, Canada, and subjected to phenotypic and genotypic characterization. Strain WCC-2265(T) produced well-developed, non-fragmenting and extensively branched hyphae within substrates and aerial hyphae, from which spherical spores possessing spiny cell sheaths were produced in primarily flexuous or straight chains. The cell wall contained meso-diaminopimelic acid, whole-cell sugars were galactose, glucose, madurose and ribose, and the major menaquinones were MK-9(H(6)), MK-9(H(8)), MK-9(H(4)) and MK-9(H(2)). These characteristics suggested that the organism belonged to the genus Actinomadura and a comparative analysis of 16S rRNA gene sequences indicated that it formed a distinct clade within the genus. Strain WCC-2265(T) could be differentiated from other species of the genus Actinomadura by DNA-DNA hybridization, morphological and physiological characteristics and the predominance of iso-C(16 : 0), iso-C(17 : 0) and 10-methyl C(17 : 0) fatty acids. The broad range of phenotypic and genetic characters supported the suggestion that this organism represents a novel species of the genus Actinomadura, for which the name Actinomadura keratinilytica sp. nov. is proposed; the type strain is strain WCC-2265(T) (=DSM 45195(T)=CCUG 56181(T)).