Review Article

The Gut Microbiome Profile in Obesity: A Systematic Review

Table 2

Bariatric surgery clinical trials.

Study identificationDescriptionNPopulation descriptionOutcomes

Palleja et al. 2016 [36]Longitudinal observational study13Participants were recruited for bariatric surgery: BMI > 40 kg/m2 or BMI > 35 kg/m2 with T2D/hypertensionGut microbial diversity increased within the first 3 months after RYGB and remained high 1 year later. RYGB led to altered relative abundances of 31 species: Escherichia coli, Klebsiella pneumoniae, Veillonella spp., Streptococcus spp., Alistipes spp., and Akkermansia muciniphila.
Fecal samples
Quantification of gut microbiomes at baseline (), 3 months () after RYGB, and 12 months () after RYGB
16S rDNA shotgun sequencing

Tremaroli et al. 2015 [29]Clinical trial21Weight-stable women 9 years after randomization to either RYGB or LSG and matched for weight and fat mass loss
Control: 2 groups of nonoperated women with BMI matched to patients’ (1) presurgical BMI and (2) postsurgical BMI
Significant differences in microbiota composition for RYGB versus OBS samples but not for LSG versus OBS or RYGB versus LSG.
29 microbial genera differed significantly between RYGB and controls:
↑ Gammaproteobacteria class and ↓ three species in the Firmicutes phylum (Cdifficile, Chiranonis, and Gsanguinis).
At the genus level:
↑ Proteobacteria (Escherichia, Klebsiella, and Pseudomonas) in RYGB.
No different microbiota profiles for RYGB and LSG patients.
Fecal samples
16S rDNA
Illumina HiSeq 2000
Shotgun sequencing

Damms-Machado et al. 2015 [34]Clinical trial1010 unrelated subjects with obesity grade III at 3 time points:
(1) baseline
(2) 3 months after LSG
(3) 6 months after LSG () or dietary weight loss regimen ()
Both interventions resulted in changes of the B/F ratio but with an inverse relationship between the main phyla.
LSG: ↑ Bacteroidetes and ↓Firmicutes
Dietary intervention: ↓ Bacteroidetes and ↑Firmicutes
In LSG: Bacteroidetes correlated negatively with weight. Firmicutes positively correlated with weight.
Fecal samples
SOLiD long-mate-paired shotgun sequencing

Graessler et al. 2013 [37]Clinical trial63 men and 3 women, recruited for RYGB
38–53 years
Preoperative BMI 40.9–52.1
↓ Firmicutes, Bacteroidetes, Actinobacteria, and Cyanobacteria. However, the ratios of B/F shifted from 0.99 to 1.31, showing an apparent increase.
↑ Proteobacteria, Verrucomicrobia, and Fusobacteria.
3 months after RYGB, ↑ Ecancerogenus, Veillonella parvula, Vdispar, Shigella boydii, and Salmonella entérica.
Postoperative abundances of these species were also significantly higher than those in lean controls.
Fecal samples
16S rDNA
Illumina HiSeq 2000
Shotgun sequencing

BMI: body mass index, expressed as kg/m2; RYGB: Roux-en-Y gastric bypass; LSG: sleeve gastrectomy.