Gut Microbiome Dynamics: Implications for Methane Emissions and Animal Productivity

A special issue of Microorganisms (ISSN 2076-2607). This special issue belongs to the section "Veterinary Microbiology".

Deadline for manuscript submissions: closed (31 March 2024) | Viewed by 1064

Special Issue Editors


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Guest Editor
Bioenergetics and Environmental Sciences Division, ICAR-National Institute of Animal Nutrition and Physiology, Bengaluru, India
Interests: methane measurement; plant secondary metabolites; microbial diversity, functional genomics, methane mitigation
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Guest Editor
International Livestock Research Institute (ILRI), Nairobi, Kenya
Interests: in vivo methane quantification; sulfur hexafluoride; heritability estimates; rumen fermentation

Special Issue Information

Dear Colleagues,

The rumen microbiome refers to the diverse community of microorganisms residing in the rumen and plays a fundamental role in digestion, nutrient metabolism, and the removal of fatal products such as hydrogen and methane. The syntrophic relationship between the host animal and microbes allows the host to efficiently extract energy in the form of volatile fatty acids and synthesise microbial protein from an herbivorous diet. The rumen microbiota is composed of bacteria, archaea, protozoa, fungi, and phages. The rumen microbiome is highly dynamic and can quickly adjust its composition and metabolic activity in response to various stimuli. This plasticity is essential for ruminant animals to efficiently digest different types of diets, especially as their forage sources change with seasons or management practises. The composition of the rumen microbiome depends on several factors, including diet, age, health status, and geographical location. A significant driving factor is changes in the diet, which lead to rapid shifts in the diversity and dynamics of rumen microorganisms.

Understanding rumen microbiome dynamics is essential for improving livestock productivity, reducing methane emissions, and optimising nourishment. Rumen microbiota plasticity is a double-edged sword. On the one hand, it allows ruminant animals to adapt to varying diets and environmental conditions, enhancing their ability to survive and thrive in different settings. On the other hand, this dynamic nature can also lead to instability, which may cause temporary digestive disturbances when animals experience abrupt dietary changes.

Research on rumen microbiota plasticity is crucial for developing effective strategies to optimise ruminant nutrition, promote animal health, and reduce the environmental impact of livestock production. By understanding how the rumen microbiome responds to various factors, scientists can design targeted interventions to enhance feed efficiency, reduce methane emissions, and improve overall animal productivity. Researchers are continually exploring strategies to modulate the rumen microbiome to enhance animal performance and promote sustainable livestock production practises. These may include dietary interventions, feed additives, probiotics, and selective breeding approaches aimed at shaping the microbial community for improved efficiency and reduced environmental impact.

Original research in the following areas is invited for publication in this Special Issue on Gut Microbiome Dynamics: Implications for Methane Emissions and Animal Productivity. 

  1. Impact of diet on the rumen/gut microbial community composition;
  2. Harnessing the effect of diet on the functional capabilities of rumen/gut microbes;
  3. Strategies for modulating the rumen/gut microbiota for enhancing productivity and minimizing environmental impacts;
  4. Diet–microbiota interactions and their implications for metabolic diseases;
  5. Recent developments in the antimicrobial resistance (AMR) gene in animals and the environment.

In addition to the listed research areas, other relevant research articles, if they hold merit, will also be considered for publication.

Dr. Pradeep Kumar Malik
Dr. César S. Pinares-Patiño
Guest Editors

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Published Papers (1 paper)

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Research

18 pages, 2176 KiB  
Article
Comparative Rumen Metagenome and CAZyme Profiles in Cattle and Buffaloes: Implications for Methane Yield and Rumen Fermentation on a Common Diet
by Pradeep K. Malik, Shraddha Trivedi, Atul P. Kolte, Archit Mohapatra, Siddharth Biswas, Ashwin V. K. Bhattar, Raghavendra Bhatta and Habibar Rahman
Microorganisms 2024, 12(1), 47; https://doi.org/10.3390/microorganisms12010047 - 27 Dec 2023
Viewed by 860
Abstract
A study was undertaken to compare the rumen microbial community composition, methane yield, rumen fermentation, and CAZyme profiles between cattle and buffaloes. The primary aim of this study was to ascertain the impact of the host species on the above when diet and [...] Read more.
A study was undertaken to compare the rumen microbial community composition, methane yield, rumen fermentation, and CAZyme profiles between cattle and buffaloes. The primary aim of this study was to ascertain the impact of the host species on the above when diet and environmental factors are fixed. A total of 43 phyla, 200 orders, 458 families, and 1722 microbial genera were identified in the study. Bacteroidetes was the most prominent bacterial phylum and constituted >1/3rd of the ruminal microbiota; however, their abundances were comparable between cattle and buffaloes. Firmicutes were the second most abundant bacteria, found to be negatively correlated with the Bacteroidetes. The abundances of Firmicutes as well as the F/B ratio were not different between the two host species. In this study, archaea affiliated with the nine phyla were identified, with Euryarchaeota being the most prominent. Like bacterial phyla, the abundances of Euryarchaeota methanogens were also similar between the cattle and buffaloes. At the order level, Methanobacteriales dominated the archaea. Methanogens from the Methanosarcinales, Methanococcales, Methanomicrobiales, and Methanomassiliicoccales groups were also identified, but at a lower frequency. Methanobrevibacter was the most prevalent genus of methanogens, accounting for approximately three percent of the rumen metagenome. However, their distribution was not different between the two host species. CAZymes affiliated with five classes, namely CBM, CE, GH, GT, and PL, were identified in the metagenome, where the GH class was the most abundant and constituted ~70% of the total CAZymes. The protozoal numbers, including Entodiniomorphs and Holotrichs, were also comparable between the cattle and buffaloes. Results from the study did not reveal any significant difference in feed intake, nutrient digestibility, and rumen fermentation between cattle and buffaloes fed on the same diet. As methane yield due to the similar diet composition, feed ingredients, rumen fermentation, and microbiota composition did not vary, these results indicate that the microbiota community structure and methane emissions are under the direct influence of the diet and environment, and the host species may play only a minor role until the productivity does not vary. More studies are warranted to investigate the effect of different diets and environments on microbiota composition and methane yield. Further, the impact of variable productivity on both the cattle and buffaloes when the diet and environmental factors are fixed needs to be ascertained. Full article
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