From: Extrinsic factors influencing gut microbes, the immediate consequences and restoring eubiosis
Extrinsic Factors | Observations in the gut | Alteration in the gut | Alternative remedies |
---|---|---|---|
Dietary | |||
High-fat/high-sugar | aAdherent-invasive Escherichia coli (AIEC) | Permeability in the intestinal mucosal and reduced expression of tight junction proteins zo-1 and occluding. Compromising selective absorption and triggers the onset of metabolic endotoxemia (Martinez-Medina et al. 2014) | PUFA and conjugated linoleic acid (CLA), phytochemicals, Mediterranean diet |
A high-protein diet | aPotentially toxic substances such as sulfide, indole, ammonia and N-nitroso compounds) | Deleterious and toxic for the intestine (Martínez et al. 2010) | PUFA and conjugated linoleic acid (CLA), phytochemicals, Mediterranean diet |
Excess dietary intake of protein and amino acids | aSynthesis of nitric oxide (NO) | Development of an obesity-associated microbiota, ulcerative colitis (Martinez-Medina et al. 2014), lead to DNA damage (Martinez-Medina et al. 2014; Irrazábal et al. 2014) | PUFA and conjugated linoleic acid (CLA) due to anti-inflammatory characteristic |
Excess nutrient intake | aFirmicutes | Obesity related to inflammatory metabolic disorders culminating from dysbiosis (Frank et al. 2007) | Probiotic (Lactobacillus paracasei) acirculating levels of ANGPTL4 and reduces body fat |
Vitamin D deficiency | Induced dysbiosis in the gut microbiota | Play a role in the pathogenesis of IBD and arisk of colitis (Ananthakrishnan 2015) | Vitamin D supplementation had an anti-inflammation due to the inhibition of pro inflammatory genes such as TNF genes |
Red meat (thiol-containing amino acids) | aSulfate-reducing bacteria (e.g. Desulfovibrio spp., in the intestine | bMucus formation, inhibits methylation of DNA and a the generation of reactive oxygen species (Ananthakrishnan 2015) | Stress such as exercise under sun or heat exposure) is recommended |
Saturated fatty acids and low in polyunsaturated fatty acids (vegetable oil) mouse model | aBilophilawadsworthia | Inflammatory reaction mediated by Th1 cells and colitis, high bad low-density lipoprotein (LDL) cholesterol level (Ananthakrishnan 2015; Liu et al. 2020) | Feeding on mono-saturated fats and polyunsaturated fatty acids (vegetable oil) |
Sucralose (aspartame and saccharin) in mouse model | aClostridia, Bacteroides and total aerobic bacteria, rise in pH (Schultz et al. 2009) | Pro-inflammatory genes and unpredictable faecal metabolites (Zhang et al. 2012) | FMT, PUFA and conjugated linoleic acid (CLA), mediterranean diet |
Gluten | Dysbiosis in microbiota, apathogenic bacteria | a Risk of coeliac diseases or even proven gluten intolerance, constipation and diarrhea (Schroeder et al. 2018) | Gluten-free diet and hydration |
Fasting and hibernation | aBacteroidetes and Verrucomicrobia bFirmicutes (more polysaccharides) | Capable of degrading mucin, suppress the immune system thus aFirmicutes (more polysaccharides) the tolerance of the host to its microbes (Secor and Carey 2016) | PUFA and conjugated linoleic acid (CLA), phytochemicals, Mediterranean diet and hydrating |
Starvation | aProteobacteria in the gut | Risk of inflammation at the mucosal layers that leads to the breaking down of epithelial barrier called ‘leaking gut’ (Couteau et al. 2001) | PUFA and conjugated linoleic acid (CLA), phytochemicals, Mediterranean diet |
Antibiotic (dextran sulfate sodium) | aLiberation of sialic acid 2, 3-linked sialylatedglycans from the intestine (mouse model), Huang et al. 2015) aSalmonellaenterica serovar Typhimurium and C. dificile (Ng et al. 2013) | Intestinal inflammation, IBD and persisting diarrhoea | Butyrate is anti-inflammatory effect (expressed by reducing the production of pro-inflammatory factors such as Nf-kb) making it a valuable ally in the treatment of IBD symptoms (Longo and Mattson 2014) |
Non-steroidal anti-inflammatory drugs | |||
Metformin (hepatic gluconeogenesis inhibitor) | a in E. coli | Although used as the standard medication for type 2 diabetes, it cause gut microbiota dysbiosis(Chassaing et al. 2015) | Probiotics (Lactobacillus rhamnosus) |
Proton-pump inhibitors | aC. difficile | C. difficile associated diarrhoea (Freedberg et al. 2015) and hepatic encephalopathy in cirrhotic patients (Tralongo et al. 2017) | Probiotics (L. rhamnosus)ensure eubiosis (Tralongo et al. 2017), Fecalmicrobial transplantation (Garza and Dutilh 2015) |
Aspirin, ibuprofen and naproxen (a month long intake) | aBacteroidaceae and Enterobacteriaceae (Rogers and Aronoff 2016) | Risk of stomach ulcers | Proton-pump inhibitors are often prescribed in combination |
Emulsifiers (polysorbate-80 and arboxymethylcellulose) mice | aProteobacteria in the mucus was enriched, bVerrucomicrobia and Bacteriodetes | Low grade inflammation, a risk if obesity and metabolic disorders (Chassaing et al. 2015) | While avoiding processed foods as much possible, avoid eating late at night |
Artificial cleansing for colonoscopy | Microbial load in the gut is bby about 30-fold | bBacterial diversity in the short term but restored after approximately 14 days (Parnell and Reimer 2012) | Prebiotics (inulin fibre) gives SCFAs including butyric acid |
Prebiotics (oligofructose) | aBacteroidetesbFirmicutes in ob/ob mice and in rats | Genetically prone to develop obesity and insulin resistance (Parnell and Reimer 2012) | A. muciniphila thickens the mucus layer, thereby b gut permeability, endotoxemia, obesity and preventing inflammation |
Probiotics (A. muciniphila) | Mucin degrading bacteria | aSeverity in colitis models (Kang et al. 2013) | Administer only when relevant |
Other factors | |||
Oxidative stress | aEnterobacteriaceae | Secretion of lipopolysaccharide (LPS) intensifies response to inflammation (Lupp et al. 2007) | PUFA and conjugated linoleic acid (CLA), phytochemicals, Mediterranean diet |
Temperature of 6 °C (mouse model) | aFirmicutes and bBacteroidetes | Thus activating non thermopile groups of bacteria (Chevalier et al. 2015) | Maintaining normal body temperature is highly recommended |
Mode of delivery (caesarian section) | aepithelial bacteria bBifidobacteria spp. lactobacillus spp. | High rate of asthma and allergies (Bäckhed et al. 2015) | Delivery through virginal canal and Probiotics supplementation of missing taxa |
Feeding method (formula fed) | Profound influence on microbiota composition | Overweight and risk of childhood obesity (Bäckhed et al. 2015) | Breast feeding supply Bifidobacterium longum subspp. infantis, Lactobacillus |