Two Routes of Metabolic Cross-Feeding between Bifidobacterium adolescentis and Butyrate-Producing Anaerobes from the Human Gut

Dietary Modulation of the Human Colonic Microbiota: Introducing the Concept of Prebiotics

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Short-Chain Fatty Acids and Human Colonic Function: Roles of Resistant Starch and Nonstarch Polysaccharides

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Regulation of short-chain fatty acid production

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Selective stimulation of bifidobacteria in the human colon by oligofructose and inulin

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The Ribosomal Database Project (RDP-II): sequences and tools for high-throughput rRNA analysis

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The microbiology of butyrate formation in the human colon

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Lactate-Utilizing Bacteria, Isolated from Human Feces, That Produce Butyrate as a Major Fermentation Product

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Development of an extensive set of 16S rDNA-targeted primers for quantification of pathogenic and indigenous bacteria in faecal samples by real-time PCR

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Phylogenetic Relationships of Butyrate-Producing Bacteria from the Human Gut

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pH and Peptide Supply Can Radically Alter Bacterial Populations and Short-Chain Fatty Acid Ratios within Microbial Communities from the Human Colon

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Impacts of substituting plant ingredients with full-fat black soldier fly and yellow mealworm larvae meals on fillet quality and liver and gut health in Atlantic salmon

Farris, N. W., Willora, F. P., Ghebre, E., Bisa, S., Abdelhafiz, Y. A., Siddik, M. A. B., Park, Y., Spiten, K., Moskál’ová, L. K., Mudroňová, D., et al. (2025) · Aquaculture · doi:10.1016/j.aquaculture.2025.743081 · Cited by 2

Influence of Prebiotic Fructooligosaccharides on the Growth of Probiotic Lactobacillus spp. to Produce Postbiotic Short Chain Fatty Acids Evaluated using Gas Chromatography

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Direct coupling of lactate oxidation with butyryl-CoA formation via a canonical electron transfer flavoprotein in Fusobacterium nucleatum

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Enzymatic Production of Prebiotic Xylooligosaccharides Using a Bacillus pumilus GH30_8 Glucuronoxylanase: Structural Basis of Glucuronoxylan Recognition and Hydrolysis

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Designing fiber–gut microbiome interactions with active learning

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Daily fiber supplementation after bariatric surgery demonstrates tolerability and influence on the fecal gut microbiome

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Estimating the probability of coexistence in cross-feeding communities

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Chapter 18 Cross-feeding during human colon fermentation

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Inulin and Oligosaccharides

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Hologenomics: The Interaction Between Host, Microbiome and Diet

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Quantifying Digestion Products: Physicochemical Aspects

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Cross Talk Between Functional Foods and Gut Health

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Translation of Immunomodulatory Effects of Probiotics into Clinical Practice

Ryan, J. C., Narasimha, S. V., Pattison, R., Zackria, R., Ghobrial, Y., Basit, S. A., Ammar, T. A. R. A., Jayaraman, V., Stone, C. D., & Shih, D. Q. (2023) · IntechOpen eBooks · doi:10.5772/intechopen.109864 · Cited by 2

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Киселева, М. А., Киселева, Т. Л., & Хлебников, Е. В. (2024) · Традиционная медицина · doi:10.54296/18186173_2024_3_17 · Cited by 2

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Vandeplas, S. (2010) · Open Repository and Bibliography (University of Liège) · Cited by 2

Biofortification: optimizing iron absorption from beans and other staple foods

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Metatranscriptome profiling of the dynamic transcription of mRNA and sRNA of a probiotic Lactobacillus strain in human gutPreprint

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The Ruminococcus bromii amylosome protein Sas6 binds single and double helical α-glucan structures in starchPreprint

Photenhauer, A. L., Cerqueira, F. M., Villafuerte-Vega, R. C., Armbruster, K. M., Mareček, F., Chen, T., Wawrzak, Z., Hopkins, J. B., Kooi, C. W. V., Janeĉek, Ŝ., et al. (2022) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2022.11.20.514607 · Cited by 2

Microbial Chemical Ecology in the Human Microbiome

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Navarro‐Tapia, E., Chenoll, E., Rueda, J. M. W., & Ramón, D. (2021) · Elsevier eBooks · doi:10.1016/b978-0-12-819265-8.00105-4 · Cited by 1

The Microbiome as an Endocrine Organ

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Prebiotic properties of resistant starch

Bojarczuk, A. (2024) · Biuletyn Głównej Biblioteki Lekarskiej · doi:10.2478/bgbl-2024-0008 · Cited by 1

Bibliometric and Visualized Analysis of Gut Microbiota and Hypertension Interaction Research Published from 2001 to 2024

Mo, J., Su, W., Qin, J., Feng, J., Yu, R., Li, S., Lv, J., Dong, R., Cheng, Y., & Han, B. (2025) · Microorganisms · doi:10.3390/microorganisms13071696 · Cited by 2

Wheat Bran Beyond a Fiber Source for Sustainable Poultry Nutrition: A Comprehensive Review

Salahi, A., Attia, Y. A., Zabermawi, N. M., Bovera, F., Shafi, M. E., Laudadio, V., & Tufarelli, V. (2025) · Journal of the Hellenic Veterinary Medical Society · doi:10.12681/jhvms.39381 · Cited by 1

Exploring the significance of resistant starch in ready-to-eat meals for enhanced functioning of gut microbiota: a comprehensive review

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MNetClass: a control-free microbial network clustering framework for identifying central subcommunities across ecological niches

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Balancing the dual nature of glycotoxins: interplay of diet, digestion, and gut microbiome

Semchyshyn, H. M. (2025) · Frontiers in Nutrition · doi:10.3389/fnut.2025.1693167 · Cited by 2

Probiotics for treating acute diarrhea in children: an evidence synthesis

Chen, C., Liu, P., Xiao, L., Cao, Q., Zhou, D., Liu, X., Shen, M., Jia, X., & Zhang, L. (2026) · Frontiers in Pediatrics · doi:10.3389/fped.2025.1722257 · Cited by 1

From diet to hypothalamic dysfunction: Neuroanatomical and hormonal integration of the microbiota-hypothalamus-adipose tissue axis

Barros, H. D. D. F. Q., Casagrande, B. P., Araújo, D. D., Mutran, T. A. J., Telles, M. M., Estadella, D., & Pisani, L. P. (2026) · Reviews in Endocrine and Metabolic Disorders · doi:10.1007/s11154-026-10038-5 · Cited by 3

Prebiotic potentials of plant-based foods: modulation of gut microbiota, short-chain fatty acid production, and functional health outcomes

Abolarinwa, E. O., Thierry, E. A. A., Abubakar, A. N., Muhammad, H. L., & Makun, H. A. (2026) · Nutrire · doi:10.1186/s41110-026-00464-5 · Cited by 1

Multi-Criterion In Vitro Profiling of Probiotic Strains for Preliminary Gut–Skin-Axis-Oriented Candidate Prioritization

Aleksandrzak‐Piekarczyk, T., Tymoszewska, A., Radkiewicz, M., Szczepankowska, A. K., Samborowska, E., Koryszewska-Bagińska, A., & Cukrowská, B. (2026) · Probiotics and Antimicrobial Proteins · doi:10.1007/s12602-026-11269-3 · Cited by 1

Coffee diterpenes beyond cholesterol: beverage matrix, intestinal carbohydrate handling, and downstream signaling

Tian, X., Song, E., Li, X. C., Fu, W., He, H., Gao, Z., & Gao, B. (2026) · Trends in Food Science & Technology · doi:10.1016/j.tifs.2026.105902 · Cited by 1

The Role of Lachnospiraceae in Liver Diseases: Recent Advances and Clinical Application Prospects

Feng, J., Wang, X., Cao, H., Zhang, Y., Xu, J., Wang, G., Zhu, X., & Deng, S. (2026) · International Journal of Molecular Sciences · doi:10.3390/ijms27167175 · Cited by 1

Decoding dietary pectin: from structural complexity and microbial CAZyme–PUL networks to cross-feeding and host-beneficial metabolites

Li, G., Wang, C., & Bai, J. (2026) · Gut Microbes · doi:10.1080/19490976.2026.2719257 · Cited by 1

Function-based personalization of dietary fiber selection enhances gut microbial fermentation: a proof-of-concept crossover trial

Osawa, R., Inoue, J., Fukuda, I., Shirai, Y., & Kodama, Y. (2026) · Frontiers in Nutrition · doi:10.3389/fnut.2026.1907988 · Cited by 1

Ecological Engineering of the Human Gut Microbiome: A Narrative Review and Framework for Next-Generation Therapeutics

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Short-chain fatty acid-producing commensals: Key modulators of AD neuroinflammation via the microbiota-gut-brain axis

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The Influence of Probiotic Lactobacilli and Flaxseed on the Health of Weaned Piglets and Metabolism of Polyunsaturated Fatty Acids (PUFAs)

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Gut microbiota interaction in host lipid metabolism

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The beneficial role of healthy microbiome in metabolic syndrome and cardiovascular health

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Development of the Anaerobic Microbiome in the Infant Gut

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Human gut microbiota as a potential source to treat obesity

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Gut Microbiota, Probiotics, Prebiotics and Colorectal Cancer

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Starch

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Starch

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The Microbiology of Resistant Starch Fermentation in the Human Large Intestine: A Host of Unanswered Questions

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Desarrollo de nuevos métodos para la caracterización estructural de carbohidratos prebióticos y péptidos funcionales de interés alimentario. Estudio de su bioactividad

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Synthesis and characterization of new oligosaccharides with prebiotic activity

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RESISTANT STARCH FROM NOVEL RS-CONTAINING PREPARATIONS: RESIDUAL SUSCEPTIBILITY TO AMYLOLYSIS AND GROWTH OF BIFIDOBACTERIUM STRAINS

Saibene, D. (2010) · Cited by 1

Prozesstechnische Steuerung von Mischkulturen zur Erzeugung von Gärgetränken

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Elucidating the role of the mucus-associated microbiota and mucin glycosylation in inflammatory bowel disease

Thursby, E. (2016) · UEA Digital Repository (University of East Anglia) · Cited by 1

In vitroModels of Host–Microbial Interactions Within the Gastrointestinal Tract

Özcan, E., Levantovsky, R. M., & Sela, D. A. (2018) · Wiley eBooks · doi:10.1002/9781118823309.ch4 · Cited by 1

The Efficacy of Probiotics in Modulating Clostridium difficile Spore Germination, Growth and Toxin Production in an in vitro Human Gut Model

Etifa, P. (2021) · University of Hertfordshire Research Archive (University of Hertfordshire) · doi:10.18745/th.23919 · Cited by 1

Enhancing Butyric Acid Production from Mixed Culture Fermentation of Potato Peel Waste with Sorbitol AdditivePreprint

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Evaluation of five bifidobacterium isolates as potential probiotics and genetic analysis of their ability to withstand oxidative stress

Nonyane, M. (2010) · Open University of Cape Town (University of Cape Town)

Effect of microbial community on Salmonella growth

Kwan, T. (2013)

MS‐based Methodologies to Study the Microbial Metabolome

Russell, W. R., & Duncan, S. H. (2013) · doi:10.1002/9781118537282.ch8

Dietary effects on human fecal microbiota

Simões, C. (2013) · Työväentutkimus Vuosikirja

The role of the gut microbiota in inflammatory diseases of childhood

Barclay, A. R. (2010) · Enlighten: Theses (The University of Glasgow)

The Effect of Inulin Supplementation on the Quality of Life of Patients with Ileal Pouch Anal Anastomosis

Tumback, L. N. T. (2009) · University Library - University of Saskatchewan (University of Saskatchewan)

Prebiotics: Modulators of the Human Gut Microflora

Lesmes, U. (2011) · Springer eBooks · doi:10.1007/978-3-642-21680-0_20

Microbiota fecal, produtos de fermentação, aspectos histológicos da mucosa gastrintestinal e imunidade de cães Beagle de diferentes gurpos etários

Gomes, M. D. O. S. (2013) · Aleph UCLA Undergraduate Research Journal for the Humanities and Social Sciences

Influencia de la microbiota intestinal en la obesidad

de Ciencia, C. N. (2012)

Dietary Supplementation Of Prebiotics In Whey Based Functional Drink

Yasmin, A. (2013) · HEC National Digital Library

Interrogation of the Distal Gut Microbiota of Healthy Adolescents and those with Irritable Bowel Syndrome

Rigsbee, L. (2011) · CORE Scholar (Wright State University)

Health Effects of Dietary Fermentable Fiber (Resistant Starch)

Carvajal‐Aldaz, D. (2015) · Louisiana State University · doi:10.31390/gradschool_dissertations.916

Structural and enzymatic features of a recombinant β-fructofuranosidase from Bifidobacterium adolescentis

Mera, A. E. M. (2016) · doi:10.11606/d.76.2016.tde-21102016-140952

Effects of Energy Restriction during Gilt Development on Milk Nutrient Profile, Progeny Biomarkers, and Growth Performance

Barnett, S. M. (2017) · Lincoln (University of Nebraska)

Fermentable Non-Digestible Dietary Fiber and Bioactive Compounds Affect Aging and Fat Deposition in Caenorhabditis elegans

Gao, C. (2015) · Louisiana State University · doi:10.31390/gradschool_dissertations.2424

A framework for detecting and quantifying relationship alterations in microbial community: Quantifying microbial relationship alterationPreprint

Liu, Z., Mi, K., Xu, Z. Z., Zhang, Q., & Liu, X. (2020) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2020.04.09.033688

Development and dynamics of the normal gut microbiota

Olsson, L. M. (2020) · Gothenburg University Publications Electronic Archive (Gothenburg University)

Impact of antibiotics and dietary fibre on gut bacterial diversity: an in vitro approach

Johnson, L. P. (2017) · Spiral (Imperial College London) · doi:10.25560/80499

High fiber, whole foods dietary intervention alters the human gut microbiome but not fecal short-chain fatty acidsPreprint

Oliver, A. S., Chase, A. B., Weihe, C., Orchanian, S. B., Riedel, S. F., Hendrickson, C. L., Lay, M., Sewall, J. M., Martiny, J. B. H., & Whiteson, K. (2021) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2021.02.04.429869

Designing New Foods or Food Ingredients Targeting the Gut Microbiota to Reduce FODMAP-Induced Irritable Bowel Syndrome (IBS)

O'Donnell, S., Ross, R., Arendt, E., & Stanton, C. (2021) · Reference Module in Food Science · doi:10.1016/b978-0-12-819265-8.00093-0

The effects of digestion resistant carbohydrates on the colon microbiota and colon tissue transcriptome of weanling rats

Young, W. (2011) · Otago University Research Archive (University of Otago)

Inulin and Health Benefits

Moser, M., Sentko, A., & Alexiou, H. (2014) · Springer eBooks · doi:10.1007/978-3-319-03751-6_37-1

The role of diet and physical activity in influencing the microbiota/microbiome

Murphy, E. A., & Velázquez, K. T. (2022) · Elsevier eBooks · doi:10.1016/b978-0-12-822130-3.00017-x

Faculty Opinions recommendation of Microbial Metabolic Networks at the Mucus Layer Lead to Diet-Independent Butyrate and Vitamin B12 Production by Intestinal Symbionts.

Cotter, P. D., & Barton, W. (2019) · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature · doi:10.3410/f.731251101.793567413

A Spore-Based Probiotic Containing Five Strains of Bacillus Had No Notable Effect on the Recovery of the Activity and Composition of the Baby Gut Microbiota Following Antibiotic Treatment in an In Vitro Model

Marzorati, M., Bubeck, S. S., Bayne, T., Krishnan, K., & Giusto, M. (2022) · Applied Sciences · doi:10.3390/app122312302

Gut microbiome interventions in regenerative medicine

Assalin, H. B., Santos, A., de Souza, A. B., & Bastos, R. G. (2023) · Elsevier eBooks · doi:10.1016/b978-0-323-90471-1.00006-2

Gut Microbiota and Host Immune System in Cancer

Sunita, P., Pattanayak, S. P., Ranjan, G., & Bose, P. (2023) · BENTHAM SCIENCE PUBLISHERS eBooks · doi:10.2174/9789815124781123030004

Disrupted Ecology and H. parainfluenzae Distinguish the Gut Microbiota of an Ethnic Minority Predisposed to Type 2 Diabetes MellitusPreprint

Nayman, E. I., Schwartz, B. A., Polmann, M. B., Gumabong, A. C., Nieuwdorp, M., Cickovski, T., & Mathee, K. (2023) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2023.10.01.560393

Polyphenol-gut microbiota interplay in neuroprotection

Cuciniello, R., Meo, F. D., & Crispi, S. (2024) · Elsevier eBooks · doi:10.1016/b978-0-443-23763-8.00004-x

Impacts of Substituting Plant Ingredients with Full-Fat Black Soldier Fly and Yellow Mealworm Larvae Meals on Fillet Quality and Liver and Gut Health in Atlantic SalmonPreprint

Farris, N. W., Willora, F. P., Bisa, S., Ghebre, E., Abdelhafiz, Y. A., Park, Y., Siddik, M. A. B., Spiten, K., Moskalova, L. R., Mudroňová, D., et al. (2025) · SSRN Electronic Journal · doi:10.2139/ssrn.5276380

Gut-joint axis mediates susceptibility to osteoarthritis in female adult offspring rats with prenatal caffeine exposure

Tong, K., Xu, D., Lu, X., Wang, Q., He, H., Tan, Y., & Wang, H. (2025) · Journal of Future Foods · doi:10.1016/j.jfutfo.2025.03.011

Gut Harmony: Nourishing the Microbiome for Optimal Health and Well-being

Altamimi, M., Ibrahim, A., & Filippis, F. D. (2025) · Nutrition and health · doi:10.1007/978-3-031-95373-6_1

Are Bifidobacterium Species Key Players in the Progression of Type 1 Diabetes? A Systematic Review

Vergoz, V., Jeong, D., & Hamilton‐Williams, E. E. (2025) · Endocrinology Diabetes & Metabolism · doi:10.1002/edm2.70120

Additional file 1 of Comparison of microbial signatures between paired faecal and rectal biopsy samples from healthy volunteers using next-generation sequencing and culturomics

Mukhopadhya, I., Martin, J. C., Shaw, S., McKinley, A. J., Gratz, S. W., & Scott, K. P. (2022) · Figshare · doi:10.6084/m9.figshare.21341177

Additional file 2 of In vitro gut microbiome response to carbohydrate supplementation is acutely affected by a sudden change in diet

Pantoja-Feliciano, I. G., Karl, J. P., Perisin, M., Doherty, L. A., McClung, H. L., Armstrong, N. J., Renberg, R. L., Racicot, K., Branck, T. A., Arcidiacono, S., et al. (2023) · Figshare · doi:10.6084/m9.figshare.22600024

Additional file 11 of Comparison of microbial signatures between paired faecal and rectal biopsy samples from healthy volunteers using next-generation sequencing and culturomics

Mukhopadhya, I., Martin, J. C., Shaw, S., McKinley, A. J., Gratz, S. W., & Scott, K. P. (2022) · Figshare · doi:10.6084/m9.figshare.21341168

Additional file 3 of Comparison of microbial signatures between paired faecal and rectal biopsy samples from healthy volunteers using next-generation sequencing and culturomics

Mukhopadhya, I., Martin, J. C., Shaw, S., McKinley, A. J., Gratz, S. W., & Scott, K. P. (2022) · Figshare · doi:10.6084/m9.figshare.21341183

Additional file 9 of Comparison of microbial signatures between paired faecal and rectal biopsy samples from healthy volunteers using next-generation sequencing and culturomics

Mukhopadhya, I., Martin, J. C., Shaw, S., McKinley, A. J., Gratz, S. W., & Scott, K. P. (2022) · Figshare · doi:10.6084/m9.figshare.21341201

Additional file 1 of Gut microbiome signatures of nursing home residents carrying Enterobacteria producing extended-spectrum β-lactamases

Bastard, Q. L., Chapelet, G., Birgand, G., Hillmann, B., Javaudin, F., Hayatgheib, N., Bourigault, C., Bémer, P., de Decker, L., Batard, É., et al. (2020) · Figshare · doi:10.6084/m9.figshare.12655685

Additional file 12 of Comparison of microbial signatures between paired faecal and rectal biopsy samples from healthy volunteers using next-generation sequencing and culturomics

Mukhopadhya, I., Martin, J. C., Shaw, S., McKinley, A. J., Gratz, S. W., & Scott, K. P. (2022) · Figshare · doi:10.6084/m9.figshare.21341171

Additional file 5 of Comparison of microbial signatures between paired faecal and rectal biopsy samples from healthy volunteers using next-generation sequencing and culturomics

Mukhopadhya, I., Martin, J. C., Shaw, S., McKinley, A. J., Gratz, S. W., & Scott, K. P. (2022) · Figshare · doi:10.6084/m9.figshare.21341189

Additional file 6 of Comparison of microbial signatures between paired faecal and rectal biopsy samples from healthy volunteers using next-generation sequencing and culturomics

Mukhopadhya, I., Martin, J. C., Shaw, S., McKinley, A. J., Gratz, S. W., & Scott, K. P. (2022) · Figshare · doi:10.6084/m9.figshare.21341192

Additional file 8 of Comparison of microbial signatures between paired faecal and rectal biopsy samples from healthy volunteers using next-generation sequencing and culturomics

Mukhopadhya, I., Martin, J. C., Shaw, S., McKinley, A. J., Gratz, S. W., & Scott, K. P. (2022) · Figshare · doi:10.6084/m9.figshare.21341198

Additional file 7 of Comparison of microbial signatures between paired faecal and rectal biopsy samples from healthy volunteers using next-generation sequencing and culturomics

Mukhopadhya, I., Martin, J. C., Shaw, S., McKinley, A. J., Gratz, S. W., & Scott, K. P. (2022) · Figshare · doi:10.6084/m9.figshare.21341195

Enhanced butyrate formation by cross-feeding between Faecalibacterium prausnitzii and Bifidobacterium adolescentis

Rios-Covian, D., Gueimonde, M., Duncan, S. H., Flint, H. J., & de los Reyes-Gavilan, C. G. (2015) · FEMS Microbiology Letters · doi:10.1093/femsle/fnv176 · Cited by 371

Lactate cross-feeding between Bifidobacterium species and Megasphaera indica contributes to butyrate formation in the human colonic environment

Zhao, S., Lau, R. W. M., Yang, Z. H., & Chen, M. (2023) · Applied and Environmental Microbiology · doi:10.1128/aem.01019-23 · Cited by 87

Lactate-Utilizing Bacteria, Isolated from Human Feces, That Produce Butyrate as a Major Fermentation Product

Duncan, S. H., Louis, P., & Flint, H. J. (2004) · Applied and Environmental Microbiology · doi:10.1128/aem.70.10.5810-5817.2004 · Cited by 1,178

Lactate- and acetate-based cross-feeding interactions between selected strains of lactobacilli, bifidobacteria and colon bacteria in the presence of inulin-type fructans

Moens, F., Verce, M., & Vuyst, L. D. (2016) · International Journal of Food Microbiology · doi:10.1016/j.ijfoodmicro.2016.10.019 · Cited by 204

Mucin Cross-Feeding of Infant Bifidobacteria and Eubacterium hallii

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