Human Gut Microbiome, Diets and Health

A special issue of Microorganisms (ISSN 2076-2607). This special issue belongs to the section "Gut Microbiota".

Deadline for manuscript submissions: 31 July 2025 | Viewed by 2679

Special Issue Editors


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Guest Editor
Laboratory of Integrative Cancer Immunology, NCI/NIH, Bethesda, MD 20892, USA
Interests: human oral and gut microbiome; antibiotic-resistant bacteria; Gramnegative bacteria; anaerobes; effects of probiotics and antibiotics; LPS; horizontal gene transfer; plasmids; NGS

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Guest Editor
Harvard Medical School, University of Harvard, Boston, MA, 02114, USA
Interests: antibacterial activity; veterinary microbiology

Special Issue Information

Dear Colleagues,

The human gastrointestinal tract harbors a diversity of bacteria, viruses, fungi, and protozoa acquired early in life. The microbiota is a complex and dynamic ecosystem that plays a crucial role in human health and disease. The gut microbiota composition changes between populations based on diet, lifestyle, and geographic location. Diet impacts the composition and diversity of the gut microbiota and is essential for maintaining gut health and overall well-being. Different diets and eating patterns can influence bacterial diversity in the gut, while an imbalanced diet combined with an unhealthy lifestyle can have long-lasting effects. A high-fiber diet and fermented foods with probiotics may benefit the gut microbiome and support gut health. In contrast, a high consumption of processed foods, particularly those characteristic of the low-fiber, high-sugar Western diet, is associated with reduced microbial diversity. This poor dietary pattern increases the risks of obesity, cardiovascular disease, metabolic syndrome, and cancer, highlighting the importance of dietary choices in maintaining overall health. Thus, a balanced diet can reduce the incidence of chronic health conditions associated with poor gut health. Studying the ecology and interactions between a host and its microbiota promises profound insights into human health, with potential implications for the future prevention and treatment of a wide range of diseases.

This Special Issue will compile a collection of articles on the relationship between diet, the gut microbiome, and human health. It will offer new perspectives on how dietary patterns influence the gut microbiome and, consequently, human health. As the Guest Editor, I invite you to submit research articles, review articles, and short communications focusing on the interplay between diet and the gut microbiome. Topics of interest include but are not limited to the effects of various diets on microbial diversity, the role of prebiotics and probiotics, the impact of fiber intake, and the mechanisms by which diet-induced changes in the microbiota affect metabolic and immune health.

Dr. Miriam R. Fernandes
Dr. Carolina Dos Anjos
Guest Editors

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Keywords

  • gut microbiota
  • human nutrition
  • diet
  • probiotics and prebiotics
  • fermented food
  • gut health
  • metabolites
  • microbiota–host interactions

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Published Papers (1 paper)

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Research

30 pages, 3648 KiB  
Article
Fecal Microbiome and Metabolomic Profiles of Mixed-Fed Infants Are More Similar to Formula-Fed than Breastfed Infants
by Mei Wang, Negin Valizadegan, Christopher J. Fields and Sharon M. Donovan
Microorganisms 2025, 13(1), 166; https://doi.org/10.3390/microorganisms13010166 - 14 Jan 2025
Viewed by 1567
Abstract
Many infants consume both human milk and infant formula (mixed-fed); however, few studies have investigated how mixed feeding affects the gut microbiome composition and metabolic profiles compared to exclusive breastfeeding or formula feeding. Herein, how delivery mode and early nutrition affect the microbiome [...] Read more.
Many infants consume both human milk and infant formula (mixed-fed); however, few studies have investigated how mixed feeding affects the gut microbiome composition and metabolic profiles compared to exclusive breastfeeding or formula feeding. Herein, how delivery mode and early nutrition affect the microbiome and metabolome of 6-week-old infants in the STRONG Kids2 cohort was investigated. Fecal samples were collected from exclusively breastfed (BF; n = 25), formula-fed (FF; n = 25) or mixed-fed (MF; n = 25) participants. Within each feeding group, infants were either delivered vaginally (VD; n = 13) or by Cesarean section (CS; n = 12). Feeding mode affects the fecal microbiome diversity, composition, and functional potential, as well as metabolomic profiles regardless of delivery mode. Alpha and beta diversity of MF differed from that of BF (p < 0.05) but were comparable to FF infants. Functional analyses have shown 117 potential metabolic pathways differed between BF and FF, 112 between BF and MF, and 8 between MF and FF infants (p < 0.05, q < 0.10). Fecal metabolomic profiles of MF and FF clustered together and separated from BF infants. In total, 543 metabolites differed between BF and FF, 517 between BF and MF, and 3 between MF and FF (p < 0.05, q < 0.10). Delivery mode affected overall microbial composition (p = 0.022) at the genus level and 24 potential functional pathways, with 16 pathways being higher in VD than CS infants (p < 0.05, q < 0.10). Metabolomic analysis identified 47 differential metabolites between CS and VD, with 39 being lower in CS than VD (p < 0.05, q < 0.10). In summary, fecal microbiota composition and function and metabolite profiles of 6-week-old MF infants are closer to FF than BF infants. Full article
(This article belongs to the Special Issue Human Gut Microbiome, Diets and Health)
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