Background
The gut microbiome
The microbiome in disease
Bacteria | Basic features | Associated physiologic changes | Associated disease states | References |
---|---|---|---|---|
Bifidobacterium spp. | Gram positive obligate anaerobe branched; nonmotile | SCFA production; improve gut mucosal barrier; lower intestinal LPS levels | Reduced abundance in obesity | |
Lactobacillus spp. | Gram positive facultative anaerobe rod-shaped | SCFA production; anti-inflammatory and anti-cancer activities | Attenuate IBD | |
Bacteroides spp. | Gram negative obligate anaerobe rod-shaped; variable motility | Activate CD4 + T cells | Increased abundance in IBD | |
Alistipes spp. | Gram negative obligate anaerobe rod-shaped; bile-resistant and pigment-producinga
| Reported in tissue from acute appendicitis and perirectal and brain abscesses | [174] | |
Bilophila spp. | Gram negative obligate anaerobe urease-positive, bile resistant, catalase-positive | Promote pro-inflammatory TH1 immunity | B. wadsworthia observed in colitis, perforated and gangrenous appendicitis, liver and soft tissue abscesses, cholecystitis, FG, empyema, osteomyelitis, and HS | |
Clostridium spp. | Gram positive obligate anaerobe rod-shaped; spore-forming | Promote generation of TH17 cells | Several spp. are pathogenic causing tetanus, botulism, gas gangrene, or pseudomembranous colitis | |
Roseburia spp. | Gram variable obligate anaerobe curved rod-shaped; motile | SCFA production | Reduced abundance in IBD | [179] |
Eubacterium spp. | Gram positive obligate anaerobe rod-shaped | SCFA production; form beneficial phenolic acids | Reduced abundance in IBD | |
Enterococcus spp. | Gram positive facultative anaerobe cocci | Several spp. are pathogenic causing UTI, endocarditis, or bacteremia | [182] | |
Faecalibacterium prausnitzii
| Gram positive obligate anaerobe rod-shaped; nonmotile | SCFA production; anti-inflammatory effects | Reduced abundance in IBD and obesity | |
Akkermansia muciniphila
| Gram negative obligate anaerobe oval-shaped; nonmotile | Anti-inflammatory effects | Reduced abundance in IBD, obesity, and psoriatic arthritis | |
Escherichia coli
| Gram negative facultative anaerobe rod-shaped | TLR-activation | Increased abundance in IBD gastroenteritis, UTI, and meningitis | |
Helicobacter pylori
| Gram negative microaerophilic helix-shaped; motile | Gastritis; ulcers; MALT cancers | ||
Streptococcus spp. | Gram positive facultative anaerobe cocci | Some spp. are pathogenic causing meningitis, pneumonia, and endocarditis | [191] |
Methods
Diet and microbiota
Protein
Microbial diversity |
Bifidobacteria
|
Lactobacilli
|
Bacteroides
|
Alistipes
|
Bilophila
|
Clostridia
|
Roseburia
|
Eubacterium Rectale
| References | |
---|---|---|---|---|---|---|---|---|---|---|
Animal protein |
↑
| ↑↓
|
↑↓ |
↑
|
↑
|
↑
|
↓
| ↑↓
| ||
Whey protein extract |
↑
|
↑
|
↑
|
↓
|
↓
| |||||
Pea protein extract |
↑
|
↑
|
↑
| [31] |
Fats
Lactic acid bacteriaa
|
Bifidobacteria
|
Clostridiales
|
Bacteroides
|
Bilophila
|
Faecalibacterium prausnitzii
|
Akkermansia muciniphila
| References | |
---|---|---|---|---|---|---|---|---|
High fat |
↓
|
↑
|
↑
| |||||
Low fat |
↑
| [49] | ||||||
High saturated fat |
↑
|
↑
|
↑
| |||||
High unsaturated fat |
↑
|
↑
|
↑
|
Carbohydrates
Digestible carbohydrates (starch, sugars)
Non-digestible carbohydrates (fiber)
Probiotics
Polyphenols
Select diets
Diet | Food constituents | Total bacteria |
Bifidobacteria
|
Lactobacilli
|
Prevotella
|
Eubacteria
|
Roseburia
|
Bacteroides
|
Enterobacteria
| References |
---|---|---|---|---|---|---|---|---|---|---|
Western | High animal fat/protein |
↓
|
↓
|
↓
|
↓
|
↑
|
↑
| |||
Mediterranean | High fiber/antioxidants/UFA low red meat |
↑
|
↑
|
↑
|
↑
|
↑
|
↑
|
↑
| ||
Gluten-free | No gluten |
↓
|
↓
|
↓
|
↓
|
↓
|
↓
|
↑
|
Discussion
Maintaining a healthy gut microbiome is critical to human health
SCFA | TLR | WAT | Met Endo | LPS | CRP | IL-6 | IL-10 | IgA | References | |
---|---|---|---|---|---|---|---|---|---|---|
Prebiotics |
↑
|
↓
|
↓
|
↑
| ||||||
Probiotics |
↑
|
↓
|
↑
|
↑
| ||||||
Polyphenols |
↓
|
↑
| ||||||||
Unsaturated fat |
↓
|
↓
|
↓
|
↓
| ||||||
Saturated fat |
↑
|
↑
|
↑
|
↑
| ||||||
Animal protein |
↓
| |||||||||
Pea protein |
↑
| [31] |