Nick W Smith1,2,3, Paul R Shorten4,5, Eric Altermann2,6,7, Nicole C Roy2,7,8,9, Warren C McNabb2,7. 1. School of Food and Advanced Technology, Massey University, Palmerston North, New Zealand. 2. Riddet Institute, Massey University, Private Bag 11222, Palmerston North, 4442, New Zealand. 3. AgResearch, Ruakura Research Centre, Private Bag 3123, Hamilton, 3240, New Zealand. 4. Riddet Institute, Massey University, Private Bag 11222, Palmerston North, 4442, New Zealand. paul.shorten@agresearch.co.nz. 5. AgResearch, Ruakura Research Centre, Private Bag 3123, Hamilton, 3240, New Zealand. paul.shorten@agresearch.co.nz. 6. AgResearch, Grasslands Research Centre, Private Bag 11008, Palmerston North, 4442, New Zealand. 7. High-Value Nutrition National Science Challenge, Auckland, New Zealand. 8. Department of Human Nutrition, University of Otago, Dunedin, New Zealand. 9. Liggins Institute, The University of Auckland, Auckland, New Zealand.
Abstract
BACKGROUND: Hydrogen cross-feeding microbes form a functionally important subset of the human colonic microbiota. The three major hydrogenotrophic functional groups of the colon: sulphate-reducing bacteria (SRB), methanogens and reductive acetogens, have been linked to wide ranging impacts on host physiology, health and wellbeing. RESULTS: An existing mathematical model for microbial community growth and metabolism was combined with models for each of the three hydrogenotrophic functional groups. The model was further developed for application to the colonic environment via inclusion of responsive pH, host metabolite absorption and the inclusion of host mucins. Predictions of the model, using two existing metabolic parameter sets, were compared to experimental faecal culture datasets. Model accuracy varied between experiments and measured variables and was most successful in predicting the growth of high relative abundance functional groups, such as the Bacteroides, and short chain fatty acid (SCFA) production. Two versions of the colonic model were developed: one representing the colon with sequential compartments and one utilising a continuous spatial representation. When applied to the colonic environment, the model predicted pH dynamics within the ranges measured in vivo and SCFA ratios comparable to those in the literature. The continuous version of the model simulated relative abundances of microbial functional groups comparable to measured values, but predictions were sensitive to the metabolic parameter values used for each functional group. Sulphate availability was found to strongly influence hydrogenotroph activity in the continuous version of the model, correlating positively with SRB and sulphide concentration and negatively with methanogen concentration, but had no effect in the compartmentalised model version. CONCLUSIONS: Although the model predictions compared well to only some experimental measurements, the important features of the colon environment included make it a novel and useful contribution to modelling the colonic microbiota.
BACKGROUND:Hydrogen cross-feeding microbes form a functionally important subset of the humancolonic microbiota. The three major hydrogenotrophic functional groups of the colon: sulphate-reducing bacteria (SRB), methanogens and reductive acetogens, have been linked to wide ranging impacts on host physiology, health and wellbeing. RESULTS: An existing mathematical model for microbial community growth and metabolism was combined with models for each of the three hydrogenotrophic functional groups. The model was further developed for application to the colonic environment via inclusion of responsive pH, host metabolite absorption and the inclusion of host mucins. Predictions of the model, using two existing metabolic parameter sets, were compared to experimental faecal culture datasets. Model accuracy varied between experiments and measured variables and was most successful in predicting the growth of high relative abundance functional groups, such as the Bacteroides, and short chain fatty acid (SCFA) production. Two versions of the colonic model were developed: one representing the colon with sequential compartments and one utilising a continuous spatial representation. When applied to the colonic environment, the model predicted pH dynamics within the ranges measured in vivo and SCFA ratios comparable to those in the literature. The continuous version of the model simulated relative abundances of microbial functional groups comparable to measured values, but predictions were sensitive to the metabolic parameter values used for each functional group. Sulphate availability was found to strongly influence hydrogenotroph activity in the continuous version of the model, correlating positively with SRB and sulphide concentration and negatively with methanogen concentration, but had no effect in the compartmentalised model version. CONCLUSIONS: Although the model predictions compared well to only some experimental measurements, the important features of the colon environment included make it a novel and useful contribution to modelling the colonic microbiota.
Entities:
Keywords:
Community modelling; Hydrogen sulphide; Methane; Microbiome; microPop
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