<i>Methanocorpusculum</i>

Shao, Nana; Akinyemi, Taiwo S.; Whitman, William B.

doi:10.1002/9781118960608.gbm00504.pub2

Cited by 3 publications

(2 citation statements)

References 25 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…8 – 9 ), an observation that has been previously reported for manure storages [ 4 , 5 , 20 ]. Since these methanogens are hydrogenotrophs [ 88 ], the methane emission from a manure storage would be tightly linked to the hydrogen production by fermentative bacteria [ 89 ]. Significant abundance of Methanomethylophilaceae and Methanomassiliicoccaceae ASVs were observed in EP while CS had more prevalence of Methanosarcina (Fig.…”

Section: Discussionmentioning

confidence: 99%

Nitrogen transformation processes catalyzed by manure microbiomes in earthen pit and concrete storages on commercial dairy farms

Khairunisa

Loganathan

Ogejo³

et al. 2023

Environmental Microbiome

View full text Add to dashboard Cite

Storing manure is an essential aspect of nutrient management on dairy farms. It presents the opportunity to use manure efficiently as a fertilizer in crop and pasture production. Typically, the manure storages are constructed as earthen, concrete, or steel-based structures. However, storing manure can potentially emit aerial pollutants to the atmosphere, including nitrogen and greenhouse gases, through microbial and physicochemical processes. We have characterized the composition of the microbiome in two manure storage structures, a clay-lined earthen pit and an aboveground concrete storage tank, on commercial dairy farms, to discern the nitrogen transformation processes, and thereby, inform the development of mitigation practices to preserve the value of manure. First, we analyzed the 16S rRNA-V4 amplicons generated from manure samples collected from several locations and depths (0.3, 1.2, and 2.1–2.75 m below the surface) of the storages, identifying a set of Amplicon Sequence Variant (ASVs) and quantifying their abundances. Then, we inferred the respective metabolic capabilities. These results showed that the manure microbiome composition was more complex and exhibited more location-to-location variation in the earthen pit than in the concrete tank. Further, the inlet and a location with hard surface crust in the earthen pit had unique consortia. The microbiomes in both storages had the potential to generate ammonia but lacked the organisms for oxidizing it to gaseous compounds. However, the microbial conversion of nitrate to gaseous N2, NO, and N2O via denitrification and to stable ammonia via dissimilatory nitrite reduction seemed possible; minor quantities of nitrate was present in manure, potentially originating from oxidative processes occurring on the barn floor. The nitrate-transformation linked ASVs were more prevalent at the near-surface locations and all depths of the inlet. Anammox bacteria and archaeal or bacterial autotrophic nitrifiers were not detected in either storage. Hydrogenotrophic Methanocorpusculum species were the primary methanogens or methane producers, exhibiting higher abundance in the earthen pit. These findings suggested that microbial activities were not the main drivers for nitrogen loss from manure storage, and commonly reported losses are associated with the physicochemical processes. Finally, the microbiomes of stored manure had the potential to emit greenhouse gases such as NO, N2O, and methane.

show abstract

Section: Discussionmentioning

confidence: 99%

Nitrogen transformation processes catalyzed by manure microbiomes in earthen pit and concrete storages on commercial dairy farms

Khairunisa

Loganathan

Ogejo³

et al. 2023

Environmental Microbiome

View full text Add to dashboard Cite

show abstract

“…However, when genomes became widely available, it became clear that many methanogens possessed multiple copies of mcrA , including species in the following genera: Methanoculleus , Methanofollis , Methanoregula , Methanolacinia , Methanocorpusculum , Methanonatronarchaeum , Methanothermus , Methanobrevibacter , Methanobacterium , Methanothermobacter , Methanocaldococcus , Methanotorris and Methanothermococcus . For at least some genera, the sequence of mcrA obtained from PCR amplification did not agree with the sequence from the genome, sometimes possessing less than 94.7 % sequence similarity [78]. Presumably, the PCR amplicons were chimaeras with low similarity to the authentic genes.…”

Section: Phylogenetic Analysismentioning

confidence: 99%

Proposed minimal standards for description of methanogenic archaea

Prakash

Dodsworth

Dong

et al. 2023

International Journal of Systematic and Evolutionary Microbiology

Self Cite

View full text Add to dashboard Cite

Methanogenic archaea are a diverse, polyphyletic group of strictly anaerobic prokaryotes capable of producing methane as their primary metabolic product. It has been over three decades since minimal standards for their taxonomic description have been proposed. In light of advancements in technology and amendments in systematic microbiology, revision of the older criteria for taxonomic description is essential. Most of the previously recommended minimum standards regarding phenotypic characterization of pure cultures are maintained. Electron microscopy and chemotaxonomic methods like whole-cell protein and lipid analysis are desirable but not required. Because of advancements in DNA sequencing technologies, obtaining a complete or draft whole genome sequence for type strains and its deposition in a public database are now mandatory. Genomic data should be used for rigorous comparison to close relatives using overall genome related indices such as average nucleotide identity and digital DNA–DNA hybridization. Phylogenetic analysis of the 16S rRNA gene is also required and can be supplemented by phylogenies of the mcrA gene and phylogenomic analysis using multiple conserved, single-copy marker genes. Additionally, it is now established that culture purity is not essential for studying prokaryotes, and description of Candidatus methanogenic taxa using single-cell or metagenomics along with other appropriate criteria is a viable alternative. The revisions to the minimal criteria proposed here by the members of the Subcommittee on the Taxonomy of Methanogenic Archaea of the International Committee on Systematics of Prokaryotes should allow for rigorous yet practical taxonomic description of these important and diverse microbes.

show abstract

Nitrogen Transformation Processes in Manure Microbiomes of Earthen Pit and Concrete Storages on Commercial Dairy Farms

Khairunisa

Loganathan

Ogejo

et al. 2022

Preprint

View full text Add to dashboard Cite

Storing manure is an essential aspect of nutrient management on dairy farms, presenting the opportunity to use it effectively as a fertilizer in crop and pasture production. The storage structures are earthen, concrete, or steel-based constructs. However, this practice presents the potential of losing nitrogen (fertilizer value) and emitting greenhouse gases (environmental stressors) to the atmosphere through microbial and physicochemical processes. We have conducted a study to characterize the relevant microbial processes in two manure storage structures, a clay lined earthen pit and an above-ground concrete storage tank, on commercial dairy farms, to inform the development of mitigation practices to preserve the value of manure. First, we analyzed the 16S rRNA-V4 amplicons generated from manure samples collected from several locations and depths (0.3, 1.2 and 2.1–2.75 meters below the surface) of the storages, identifying a set of OTUs and quantifying their abundances. Then, we inferred the respective metabolic capabilities. These results showed that the manure microbiome composition was more complex and exhibited more location-to-location variation in the earthen pit than in the concrete tank. Further, the inlet and a location with hard surface crust in the earthen pit had unique consortia. The microbiomes in both storages had the potential to generate ammonia but lacked the organisms for oxidizing it to gaseous compounds. However, the microbial conversion of nitrate to emittable N2, NO, and N2O via denitrification and to stable ammonia via dissimilatory nitrite reduction seemed possible; minor quantities of nitrate was present in manure, potentially originating from oxidative processes occurring on barn floor. The nitrate-transformation linked OTUs were more prevalent at the near-surface locations and all depths of the inlet. No anammox bacteria and autotrophic nitrifiers, archaeal or bacterial, were detected in both storages. Hydrogenotrophic Methanocorpusculum species were the primary methanogens or methane producers, exhibiting higher abundance in the earthen pit. These findings suggested that microbial activities were not the main drivers for nitrogen loss from manure storage, and commonly reported losses are associated with the physicochemical processes. Finally, the microbiomes of stored manure had the potential to emit greenhouse gases such as NO, N2O, and methane.

show abstract

Methanocorpusculum

Cited by 3 publications

References 25 publications

Nitrogen transformation processes catalyzed by manure microbiomes in earthen pit and concrete storages on commercial dairy farms

Nitrogen transformation processes catalyzed by manure microbiomes in earthen pit and concrete storages on commercial dairy farms

Proposed minimal standards for description of methanogenic archaea

Nitrogen Transformation Processes in Manure Microbiomes of Earthen Pit and Concrete Storages on Commercial Dairy Farms

Contact Info

Product

Resources

About