Temporospatial shifts in the human gut microbiome and metabolome after gastric bypass surgery

Ilhan, Zehra Esra; DiBaise, John K.; Dautel, Sydney E.; Isern, Nancy G.; Kim, Young Mo; Hoyt, David; Schepmoes, Athena; Brewer, Heather M.; Weitz, Karl K.; Metz, Thomas O.; Crowell, Michael D.; Kang, Dae Wook; Rittmann, Bruce E.; Krajmalnik‐Brown, Rosa

doi:10.1038/s41522-020-0122-5

Cited by 72 publications

(76 citation statements)

References 71 publications

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“…In recent years, microbiome studies using multi-omics approaches have greatly deepened our understanding of the relationship between microbiomes and hosts. For example, multi-omics studies of the gut microbiome and the human metabolome ( Chen M. X. et al, 2019 ; Ilhan et al, 2020 ) have provided new understanding in human health and diseases. In order to help the application of multi-omics technologies on plant metabolome and microbiome studies, we reviewed the data integration and analysis methods for studying human and animal microbiomes and metabolomes; and provided a few suggestions on how they could be used for plant studies.…”

Section: Introductionmentioning

confidence: 99%

Linking Plant Secondary Metabolites and Plant Microbiomes: A Review

et al. 2021

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Plant secondary metabolites (PSMs) play many roles including defense against pathogens, pests, and herbivores; response to environmental stresses, and mediating organismal interactions. Similarly, plant microbiomes participate in many of the above-mentioned processes directly or indirectly by regulating plant metabolism. Studies have shown that plants can influence their microbiome by secreting various metabolites and, in turn, the microbiome may also impact the metabolome of the host plant. However, not much is known about the communications between the interacting partners to impact their phenotypic changes. In this article, we review the patterns and potential underlying mechanisms of interactions between PSMs and plant microbiomes. We describe the recent developments in analytical approaches and methods in this field. The applications of these new methods and approaches have increased our understanding of the relationships between PSMs and plant microbiomes. Though the current studies have primarily focused on model organisms, the methods and results obtained so far should help future studies of agriculturally important plants and facilitate the development of methods to manipulate PSMs–microbiome interactions with predictive outcomes for sustainable crop productions.

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Section: Introductionmentioning

confidence: 99%

Linking Plant Secondary Metabolites and Plant Microbiomes: A Review

et al. 2021

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“…The vials were then cooled and measured for COD concentration in mgCOD/L using a spectrophotometer (HACH DR2800 Laboratory Spectrophotometer). For microbiome composition analysis, we performed 16S rRNA gene amplicon sequencing using Illumina sequencing technology and found core differences as described [ 24 , 25 ]. Further detailing regarding the 16S rRNA amplicon sequences is presented in Supplementary File S5 .…”

Section: Methodsmentioning

confidence: 99%

Wolffia globosa–Mankai Plant-Based Protein Contains Bioactive Vitamin B12 and Is Well Absorbed in Humans

Sela¹,

Meir

Brandis

et al. 2020

Nutrients

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Background: Rare plants that contain corrinoid compounds mostly comprise cobalamin analogues, which may compete with cobalamin (vitamin B12 (B12)) metabolism. We examined the presence of B12 in a cultivated strain of an aquatic plant: Wolffia globosa (Mankai), and predicted functional pathways using gut-bioreactor, and the effects of long-term Mankai consumption as a partial meat substitute, on serum B12 concentrations. Methods: We used microbiological assay, liquid-chromatography/electrospray-ionization-tandem-mass-spectrometry (LC-MS/MS), and anoxic bioreactors for the B12 experiments. We explored the effect of a green Mediterranean/low-meat diet, containing 100 g of frozen Mankai shake/day, on serum B12 levels during the 18-month DIRECT-PLUS (ID:NCT03020186) weight-loss trial, compared with control and Mediterranean diet groups. Results: The B12 content of Mankai was consistent at different seasons (p = 0.76). Several cobalamin congeners (Hydroxocobalamin(OH-B12); 5-deoxyadenosylcobalamin(Ado-B12); methylcobalamin(Me-B12); cyanocobalamin(CN-B12)) were identified in Mankai extracts, whereas no pseudo B12 was detected. A higher abundance of 16S-rRNA gene amplicon sequences associated with a genome containing a KEGG ortholog involved in microbial B12 metabolism were observed, compared with control bioreactors that lacked Mankai. Following the DIRECT-PLUS intervention (n = 294 participants; retention-rate = 89%; baseline B12 = 420.5 ± 187.8 pg/mL), serum B12 increased by 5.2% in control, 9.9% in Mediterranean, and 15.4% in Mankai-containing green Mediterranean/low-meat diets (p = 0.025 between extreme groups). Conclusions: Mankai plant contains bioactive B12 compounds and could serve as a B12 plant-based food source.

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“…Increased prevalence of Roseburia (88) and Akkermansia were reported in association with medical weight loss (89). Although transient changes were observed at 3 months after medical weight loss, the gut microbiota composition had a tendency to return to baseline composition after 1 year (81) Firmicutes (78) Fusobacteria (73,75) Bifidobacteriaceae (73) Proteobacteria (73,75,78) Anaerostipes (78) Akkermansia (79,80) Bacteroides (79) Alistipes (97) Bifidobacterium (73,97) Bacteroides (97) Blautia (76,80,97) Citrobacter (78,80) Faecalibacterium (78,98) Fusobacterium (73) Coprococcus comes (78) Granulicatella (73,80) Faecalibacterium prausnitzii (75,78) Klebsiella (79,80) Streptococcus salivarius (98) Streptococcus (76,79,80,98) Veillonella (73,76,78,80) Alistipes shahii (75,79) Streptococcus parasanguinis (75,79) Streptococcus salivarius (75) Streptococcus thermophiles (75,79) Veillonella dispar (75,78) Veillonella parvula (75,78) SG Bacteroidetes (81) Firmicutes (74) Fusobacteria (74) Bifidobacteriaceae (73,74) Akkermansia (73,…”

Section: Microbiomes and Bariatric Surgerymentioning

confidence: 99%

“…A possible link between gut microbiota alterations and improved asthma symptoms includes increased production of SCFAs, particularly butyrate and propionate. Following RYGB, increases of propionate/acetate and butyrate/acetate ratios were reported in humans (72,80), although another study reported a postsurgical tendency of SCFAs to decrease after RYGB (84). Although SCFAs have a conflicting role in obesity, butyrate (50,52) and propionate (49,50,52,54) were associated with reduced proinflammatory cytokines and/or increased immunosuppressive cytokines, which could, in turn, modulate the pathobiology of asthma concurrent with obesity.…”

Section: Bariatric Surgery Microbiome Alterations and Asthma Concurmentioning

confidence: 99%

“…However, because studies discerning long-term effects of bariatric surgery compared microbiota with non-operated controls (82,84), similar studies that compare the same cohort with pre-bariatric surgery baselines are recommended to reduce interindividual differences. Human studies are also limited by low sample size, as some included less than 10 patients who underwent bariatric surgery (74,78,80,87,88). There is a clear need for more studies that consider the effect of a restrictive diet before surgery if one was employed.…”

Section: Obesity Biology and Integrated Physiologymentioning

confidence: 99%

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The Gut/Lung Microbiome Axis in Obesity, Asthma, and Bariatric Surgery: A Literature Review

Kim

Womble

Gunsch

et al. 2021

Obesity

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Mounting evidence suggests that obesity, parameters of metabolic syndrome, and asthma are significantly associated. Interestingly, these conditions are also associated with microbiome dysbiosis, notably in the airway microbiome for patients with asthma and in the gut microbiome for patients with obesity and/or metabolic syndrome. Considering that improvements in asthma control, lung function, and airway hyperresponsiveness are often reported after bariatric surgery, this review investigated the potential role of bacterial gut and airway microbiome changes after bariatric surgery in ameliorating asthma symptoms. Rapid and persistent gut microbiota alterations were reported following surgery, some of which can be sustained for years. The gut microbiome is thought to modulate airway cellular responses via short-chain fatty acids and inflammatory mediators, such that increased propionate and butyrate levels following surgery may aid in reducing asthma symptoms. In addition, increased prevalence of Akkermansia muciniphila after Roux-en-Y gastric bypass and sleeve gastrectomy may confer protection against airway hyperreactivity and inflammation. Metabolic syndrome parameters also improved following bariatric surgery, and whether weight-loss-independent metabolic changes affect airway processes and asthma pathobiology merits further research. Fulfilling knowledge gaps outlined in this review could facilitate the development of new therapeutic options for patients with obesity and asthma.

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Temporospatial shifts in the human gut microbiome and metabolome after gastric bypass surgery

Cited by 72 publications

References 71 publications

Linking Plant Secondary Metabolites and Plant Microbiomes: A Review

Linking Plant Secondary Metabolites and Plant Microbiomes: A Review

Wolffia globosa–Mankai Plant-Based Protein Contains Bioactive Vitamin B12 and Is Well Absorbed in Humans

The Gut/Lung Microbiome Axis in Obesity, Asthma, and Bariatric Surgery: A Literature Review

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