Characteristics of methanogens isolated from 484 bovine rumen, Appl Environ Microbiol, vol.51, pp.201-203, 1986. ,
Methanomassiliicoccus luminyensis 486 gen. nov., sp. nov., a methanogenic archaeon isolated from human faeces, Int J Syst Evol, vol.487 ,
, , vol.62, pp.1902-1909, 2012.
Methanoplasmatales," thermoplasmatales-related 489 archaea in termite guts and other environments, are the seventh order of methanogens, Appl, vol.490 ,
, Environ Microbiol, vol.78, pp.8245-53, 2012.
Archaea as emerging organisms in complex human 492 microbiomes, Anaerobe, vol.17, pp.56-63, 2011. ,
Rumen methanogenic genotypes differ in 494 abundance according to host residual feed intake phenotype and diet type, Appl Env, p.495 ,
, , vol.80, pp.586-94, 2014.
Genomics and 497 metagenomics of trimethylamine-utilizing Archaea in the human gut microbiome, ISME J, vol.498, pp.2059-74, 2017. ,
The intestinal archaea ,
, Methanosphaera stadtmanae and Methanobrevibacter smithii activate human dendritic cells
, Appl Microbiol Biotechnol, vol.586, issue.1, pp.109-125, 1990.
Metabolism of formate in Methanobacterium formicicum, J Bacteriol, vol.588, pp.800-807, 1980. ,
Continuous culture of Methanococcus 590 maripaludis under defined nutrient conditions, FEMS Microbiol Lett, 2004. ,
Identification of Parametric Models from Experimental Data, p.592 ,
, , 1997.
Review: To 594 be or not to be an identifiable model. Is this a relevant question in animal science modelling, vol.46, p.595 ,
, Animal, vol.12, pp.701-713, 2018.
DAISY: A new software tool to test global 597 identifiability of biological and physiological systems, Comput Methods Programs Biomed, vol.598, pp.52-61, 2007. ,
Practical identifiability of a biokinetic model of 600 activated-sludge respiration, Water Res, vol.29, pp.2561-70, 1995. ,
IDEAS: A parameter identification 602 toolbox with symbolic analysis of uncertainty and its application to biological modelling, IFAC Proceedings Volumes, pp.1271-1277, 2009. ,
A concordance correlation-coefficient to evaluate reproducibility, Biometrics, vol.605, pp.255-68, 1989. ,
A microcalorimetric 607 approach for investigating stoichiometric constraints on the standard metabolic rate of a small 608 invertebrate, Ecol Lett, vol.21, pp.1714-1736, 2018. ,
Structure of the archaeal community of the rumen, Appl Environ, p.610 ,
, , vol.74, pp.3619-3644, 2008.
Thermodynamic analysis of growth of Methanobacterium 612 thermoautotrophicum, Biotechnol Bioeng, vol.64, pp.74-81, 1999. ,
Calorimetry and energetic efficiencies in aerobic and 614 anaerobic microbial growth, Pure Appl Chem, vol.65, pp.1889-92, 1993. ,
Does microbial life always feed on negative entropy? Thermodynamic 616 analysis of microbial growth, Biochim Biophys Acta -Bioenerg, vol.1412, pp.191-211, 1999. ,
The competitive exclusion principle. Science (80-), vol.131, pp.1292-1299, 1960. ,
Modelling thermodynamic 619 feedback on the metabolism of hydrogenotrophic methanogens, J Theor Biol, vol.477, pp.14-23, 2019. ,
The measurement of liquid and solid 621 digesta retention in ruminants, equines and rabbits given timothy (Phleum pratense) hay, Br J, vol.622 ,
, Nutr, vol.48, pp.329-339, 1982.
An adhesin 624 from hydrogen-utilizing rumen methanogen Methanobrevibacter ruminantium M1 binds a 625 broad range of hydrogen-producing microorganisms, Env Microbiol, vol.18, pp.3010-3031, 2016. ,
Genomic 627 and metabolic adaptations of Methanobrevibacter smithii to the human gut, Proc Natl Acad, p.628 ,
, Sci, vol.104, pp.10643-10651, 2007.
The complete genome 630 sequence of the rumen methanogen Methanobacterium formicicum BRM9, p.631 ,
, Sci, vol.9, p.15, 2014.
The paradox of the plankton, Am Nat, vol.95, pp.137-182, 1961. ,
Acetogenesis from H2 and 634 CO2 by methane-and non-methane-producing human colonic bacterial communities ,
, Microbiol Ecol, vol.19, pp.193-202, 1996.
Abundance and diversity of 637 mucosa-associated hydrogenotrophic microbes in the healthy human colon, ISME J, vol.638, pp.57-70, 2012. ,
Interactions and competition within the microbial community 640 of the human colon : links between diet and health, Environ Microbiol, vol.9, pp.1101-1112, 2007. ,
Addressing 642 global ruminant agricultural challenges through understanding the rumen microbiome: past, 643 present, and future, Front Microbiol, vol.9, p.2161, 2018. ,
Cooperation and competition in the evolution of ATP-645 producing Pathways. Science (80-), vol.292, pp.50-507, 2001. ,
Increased competition 647 may promote species coexistence, Proc Natl Acad Sci, vol.99, pp.8731-8737, 2002. ,
Resource competition and social conflict in experimental populations 649 of yeast, Nature, vol.441, pp.498-501, 2006. ,
Long run coexistence in the chemostat with multiple 651 species, J Theor Biol, vol.257, pp.252-261, 2009. ,
Competition between phytoplankton and bacteria: 653 exclusion and coexistence, J Math Biol, vol.70, pp.959-1006, 2015. ,
A mathematical theory for single-nutrient competition in 655 continuous cultures of micro-organisms, SIAM J Appl Math, vol.32, pp.366-83, 1977. ,
Challenges in microbial 657 ecology: Building predictive understanding of community function and dynamics, ISME J, vol.658, pp.2557-68, 2016. ,
A 660 parsimonious software sensor for estimating the individual dynamic pattern of methane 661 emissions from cattle, Animal, 2018. ,
Human intestinal gas 663 measurement systems: In vitro fermentation and gas capsules, Trends Biotechnol, vol.664, pp.208-221, 2015. ,
, Hydrogenotrophic methanogens of the mammalian gut: functionally similar, thermodynamically different -A modelling approach
, Nicole Morel-Desrosiers, vol.3
,
France 759 760 769 centrifuged at 5 000 g for 15 min. The supernatant was autoclaved and centrifuged again at the same conditions as above. The clarified 770 rumen fluid (decanted supernatant) was stored at -20°C and centrifuged again after thawing prior to media preparation ,
, Media was boiled to expel dissolved oxygen, a reducing agent (L-cystein) and a redox indicator (resazurin) were added to keep a low 772 redox potential and indicate the oxidative state of the medium
, KH2PO4.2H2O (0.6g), (NH4)2SO4 (0.6g), NaCl (1.2g), MgSO4.7H2O (0.12g), CaCl2.2H2O (0.12g), distilled water qs 100, p.775
, NiCl.6H2O (0.01g), Na2SeO3 (0.001g), distilled water qs 100 ml, p.777
, PABA (0.5 mg), Riboflavine (0.5 mg), Pantothenic acid (0.5 mg), Sodium ascorbate (0.5 mg), p.778
, Choline chloride (0.5 779 mg), Inositol (0.5 mg), Nicotinamide (0.5 mg), Pyridoxal (0.5mg), distilled water qs 100 ml 780 . CC-BY-NC-ND 4.0 International license It is made available under a (which was not peer-reviewed) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. The copyright holder for this preprint, Pyridoxine (0.10 mg), thiamine (0.05 mg), Vitamin B12 0.1mg/ml (0.1 ml), lipoic acid (0.5 mg), 2018.
Techniques for cultivating methanogens, Methods Enzymol, vol.494, pp.1-22, 2011. ,
Anaerobic Digestion Model No.1 (ADM1). IWA Task Group for Mathematical Modelling of Anaerobic Digestion Processes, 2002. ,
The Nbs Tables of Chemical Thermodynamic Properties -Selected Values for Inorganic and C-1 and C-2 Organic-Substances in Si Units, J Phys Chem Ref Data, vol.11, p.2, 1982. ,
Microbial growth by a net heat up-take: A calorimetric and thermodynamic study on acetotrophic methanogenesis by Methanosarcina barkeri, Biotechnol Bioeng, vol.75, pp.170-80, 2001. ,
Traité de thermodynamique, conformément aux méthodes de Gibbs et De Donder, Éditions Desoer, 1950. ,
Cellulose Fermentation by Continuous Cultures of Ruminococcus-Albus and Methanobrevibacter-Smithii, Appl Microbiol Biotechnol, vol.33, issue.1, pp.109-125, 1990. ,
Metabolism of formate in Methanobacterium formicicum, J Bacteriol, vol.142, pp.800-807, 1980. ,