The Effect of , , and on Ruminal Methanogenesis and Metagenomic Functional Profiles

Overview

Journal Microbiol Spectr

Specialty Microbiology

Date 2024 Sep 30

PMID 39347544

Authors

Timur Yergaliyev

Susanne Kunzel

Anna Hanauska

Antonia Rees

Katharina J Wild

Asta H Petursdottir

Helga Gunnlaugsdottir

Christopher K Reynolds

David J Humphries

Markus Rodehutscord

Amelia Camarinha-Silva

Affiliations

Soon will be listed here.

Abstract

Importance: The application of significantly reduced methane production . We showed that this reduction was linked to changes in microbial function profiles, the decline in the overall archaeal community counts, and shifts in ratios of "SGMT" and "RO" clades. and , obtained from Scotland, also decreased methane concentration in the total gas, while the same seaweed species from Iceland did not.

References

Huws S, Creevey C, Oyama L, Mizrahi I, Denman S, Popova M . Addressing Global Ruminant Agricultural Challenges Through Understanding the Rumen Microbiome: Past, Present, and Future. Front Microbiol. 2018; 9:2161. PMC: 6167468. DOI: 10.3389/fmicb.2018.02161. View

McDougall E . Studies on ruminant saliva. 1. The composition and output of sheep's saliva. Biochem J. 1948; 43(1):99-109. PMC: 1274641. View

Wang Q, Garrity G, Tiedje J, Cole J . Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl Environ Microbiol. 2007; 73(16):5261-7. PMC: 1950982. DOI: 10.1128/AEM.00062-07. View

Hook S, Wright A, McBride B . Methanogens: methane producers of the rumen and mitigation strategies. Archaea. 2011; 2010:945785. PMC: 3021854. DOI: 10.1155/2010/945785. View

Parks D, Chuvochina M, Chaumeil P, Rinke C, Mussig A, Hugenholtz P . A complete domain-to-species taxonomy for Bacteria and Archaea. Nat Biotechnol. 2020; 38(9):1079-1086. DOI: 10.1038/s41587-020-0501-8. View

Langmead B, Salzberg S . Fast gapped-read alignment with Bowtie 2. Nat Methods. 2012; 9(4):357-9. PMC: 3322381. DOI: 10.1038/nmeth.1923. View

Abbott D, Aasen I, Beauchemin K, Grondahl F, Gruninger R, Hayes M . Seaweed and Seaweed Bioactives for Mitigation of Enteric Methane: Challenges and Opportunities. Animals (Basel). 2020; 10(12). PMC: 7766277. DOI: 10.3390/ani10122432. View

Henderson C . The influence of extracellular hydrogen on the metabolism of Bacteroides ruminicola, Anaerovibrio lipolytica and Selenomonas ruminantium. J Gen Microbiol. 1980; 119(2):485-91. DOI: 10.1099/00221287-119-2-485. View

Vilela R, Benchimol M . Trichomonas vaginalis and Tritrichomonas foetus: interaction with fibroblasts and muscle cells - new insights into parasite-mediated host cell cytotoxicity. Mem Inst Oswaldo Cruz. 2012; 107(6):720-7. DOI: 10.1590/s0074-02762012000600003. View

10.

Blaut M . Metabolism of methanogens. Antonie Van Leeuwenhoek. 1994; 66(1-3):187-208. DOI: 10.1007/BF00871639. View

11.

Machado L, Tomkins N, Magnusson M, Midgley D, de Nys R, Rosewarne C . In Vitro Response of Rumen Microbiota to the Antimethanogenic Red Macroalga Asparagopsis taxiformis. Microb Ecol. 2017; 75(3):811-818. DOI: 10.1007/s00248-017-1086-8. View

12.

CZERKAWSKI J, Breckenridge G . Design and development of a long-term rumen simulation technique (Rusitec). Br J Nutr. 1977; 38(3):371-84. DOI: 10.1079/bjn19770102. View

13.

Ojetti V, Petruzziello C, Migneco A, Gnarra M, Gasbarrini A, Franceschi F . Effect of Lactobacillus reuteri (DSM 17938) on methane production in patients affected by functional constipation: a retrospective study. Eur Rev Med Pharmacol Sci. 2017; 21(7):1702-1708. View

14.

Kang D, Li F, Kirton E, Thomas A, Egan R, An H . MetaBAT 2: an adaptive binning algorithm for robust and efficient genome reconstruction from metagenome assemblies. PeerJ. 2019; 7:e7359. PMC: 6662567. DOI: 10.7717/peerj.7359. View

15.

Sieber C, Probst A, Sharrar A, Thomas B, Hess M, Tringe S . Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy. Nat Microbiol. 2018; 3(7):836-843. PMC: 6786971. DOI: 10.1038/s41564-018-0171-1. View

16.

Buck M, Mehrshad M, Bertilsson S . mOTUpan: a robust Bayesian approach to leverage metagenome-assembled genomes for core-genome estimation. NAR Genom Bioinform. 2022; 4(3):lqac060. PMC: 9376867. DOI: 10.1093/nargab/lqac060. View

17.

Wongnate T, Ragsdale S . The reaction mechanism of methyl-coenzyme M reductase: how an enzyme enforces strict binding order. J Biol Chem. 2015; 290(15):9322-34. PMC: 4392240. DOI: 10.1074/jbc.M115.636761. View

18.

Raab L, Cafantaris B, Jilg T, MENKE K . Rumen protein degradation and biosynthesis. I. A new method for determination of protein degradation in rumen fluid in vitro. Br J Nutr. 1983; 50(3):569-82. DOI: 10.1079/bjn19830128. View

19.

Callahan B, McMurdie P, Rosen M, Han A, Johnson A, Holmes S . DADA2: High-resolution sample inference from Illumina amplicon data. Nat Methods. 2016; 13(7):581-3. PMC: 4927377. DOI: 10.1038/nmeth.3869. View

20.

Belanche A, de la Fuente G, Newbold C . Study of methanogen communities associated with different rumen protozoal populations. FEMS Microbiol Ecol. 2014; 90(3):663-77. PMC: 4286163. DOI: 10.1111/1574-6941.12423. View