Gut microbiomes from Gambian infants reveal the development of a non-industrialized Prevotella-based trophic network
Open accessPublished version of a preprint
Abstract
Distinct bacterial trophic networks exist in the gut microbiota of individuals in industrialized and non-industrialized countries. In particular, non-industrialized gut microbiomes tend to be enriched with Prevotella species. To study the development of these Prevotella-rich compositions, we investigated the gut microbiota of children aged between 7 and 37 months living in rural Gambia (616 children, 1,389 stool samples, stratified by 3-month age groups). These infants, who typically eat a high-fibre, low-protein diet, were part of a double-blind, randomized iron intervention trial (NCT02941081) and here we report the secondary outcome. We found that child age was the largest discriminating factor between samples and that anthropometric indices (collection time points, season, geographic collection site, and iron supplementation) did not significantly influence the gut microbiome. Prevotella copri, Faecalibacterium prausnitzii and Prevotella stercorea were, on average, the most abundant species in these 1,389 samples (35%, 11% and 7%, respectively). Distinct bacterial trophic network clusters were identified, centred around either P. stercorea or F. prausnitzii and were found to develop steadily with age, whereas P. copri, independently of other species, rapidly became dominant after weaning. This dataset, set within a critical gut microbial developmental time frame, provides insights into the development of Prevotella-rich gut microbiomes, which are typically understudied and are underrepresented in western populations.
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
The post-weaning diet, typically rich in high-fiber plant foods in sub-Saharan Africa, may play an important role in modulating the microbiota and selecting for specific strains.
“The post-weaning diet, typically rich in high-fiber plant foods in sub-Saharan Africa, may also play an important role in modulating the microbiota and selecting for specific strains [100,101] .”
From Genome-scale insights into the metabolic landscape and evolutionary development of Bifidobacterium bifidum (2026) · cites this paper as [101]
The Methods (Participants; page unavailable) describe plant-based foods introduced during weaning in rural Gambia. The Results (Visualization of the maturation of the gut microbiome; page unavailable) report changes in bacterial species after weaning, and the Discussion links Prevotella to high-fibre diets and dietary shifts. The paper does not establish that the post-weaning diet selects specific strains, or that the described diet is typical across sub-Saharan Africa. (LLM, conf=0.84)
Experimental — accuracy not yet measuredA study based on 16S rRNA gene sequencing confirmed in children from a non-westernized Gambian community that P. copri, F. prausnitzii, and P. stercorea were the most abundant species in the infant gut microbiome and increased gradually with age.
“Recently, a study based on 16S rRNA gene sequencing confirmed these results in children from a non-westernized Gambian community, where P. copri, F. prausnitzii, and P. stercorea were the most abundant species in the infant gut microbiome,58 and they increased gradually with age.”
From Maternal and food microbial sources shape the infant microbiome of a rural Ethiopian population (2023) · cites this paper as [58]
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Cites
Human gut microbiome viewed across age and geography
Yatsunenko, T., Rey, F. E., Manary, M. J., Trehan, I., Dominguez-Bello, M. G., Contreras, M., Magris, M., Hidalgo, G., Baldassano, R. N., Anokhin, A. P., et al. (2012) · Nature · doi:10.1038/nature11053 · Cited by 7,815 · see citing works
Enterotypes of the human gut microbiome
MetaHIT Consortium (additional members), Arumugam, M., Raes, J., Pelletier, E., Le Paslier, D., Yamada, T., Mende, D. R., Fernandes, G. R., Tap, J., Bruls, T., et al. (2011) · Nature · doi:10.1038/nature09944 · Cited by 7,548 · see citing works
Kozich, J. J., Westcott, S. L., Baxter, N. T., Highlander, S. K., & Schloss, P. D. (2013) · Applied and Environmental Microbiology · doi:10.1128/aem.01043-13 · Cited by 7,004 · see citing works
ARB: a software environment for sequence data
Ludwig, W. (2004) · Nucleic Acids Research · doi:10.1093/nar/gkh293 · Cited by 6,649 · see citing works
Linking long-term dietary patterns with gut microbial enterotypes
Wu, G. D., Chen, J., Hoffmann, C., Bittinger, K., Chen, Y.-Y., Keilbaugh, S. A., Bewtra, M., Knights, D., Walters, W. A., Knight, R., et al. (2011) · Science · doi:10.1126/science.1208344 · Cited by 6,513 · see citing works
De Filippo, C., Cavalieri, D., Di Paola, M., Ramazzotti, M., Poullet, J. B., Massart, S., Collini, S., Pieraccini, G., & Lionetti, P. (2010) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1005963107 · Cited by 5,579 · see citing works
Quality control and preprocessing of metagenomic datasets
Schmieder, R., & Edwards, R. A. (2011) · Bioinformatics · doi:10.1093/bioinformatics/btr026 · Cited by 4,989 · see citing works
Multivariable association discovery in population-scale meta-omics studies
Mallick, H., Rahnavard, A., McIver, L. J., Ma, S., Zhang, Y., Nguyen, L. H., Tickle, T. L., Weingart, G., Ren, B., Schwager, E. H., et al. (2021) · PLOS Computational Biology · doi:10.1371/journal.pcbi.1009442 · Cited by 2,596 · see citing works
Differential abundance analysis for microbial marker-gene surveys
Paulson, J. N., Stine, O. C., Bravo, H. C., & Pop, M. (2013) · Nature Methods · doi:10.1038/nmeth.2658 · Cited by 2,393 · see citing works
Analysis of composition of microbiomes: a novel method for studying microbial composition
Mandal, S., Van Treuren, W., White, R. A., Eggesbø, M., Knight, R., & Peddada, S. D. (2015) · Microbial Ecology in Health & Disease · doi:10.3402/mehd.v26.27663 · Cited by 1,942 · see citing works
Kovatcheva-Datchary, P., Nilsson, A., Akrami, R., Lee, Y. S., De Vadder, F., Arora, T., Hallen, A., Martens, E., Björck, I., & Bäckhed, F. (2015) · Cell Metabolism · doi:10.1016/j.cmet.2015.10.001 · Cited by 1,731 · see citing works
Zhang, X., Zhang, D., Jia, H., Feng, Q., Wang, D., Liang, D., Wu, X., Li, J., Tang, L., Li, Y., et al. (2015) · Nature Medicine · doi:10.1038/nm.3914 · Cited by 1,690 · see citing works
Gut microbiome of the Hadza hunter-gatherers
Schnorr, S. L., Candela, M., Rampelli, S., Centanni, M., Consolandi, C., Basaglia, G., Turroni, S., Biagi, E., Peano, C., Severgnini, M., et al. (2014) · Nature Communications · doi:10.1038/ncomms4654 · Cited by 1,317 · see citing works
Ursell, L. K., Metcalf, J. L., Parfrey, L. W., & Knight, R. (2012) · Nutrition Reviews · doi:10.1111/j.1753-4887.2012.00493.x · Cited by 1,255 · see citing works
Enterotypes in the landscape of gut microbial community composition
Costea, P. I., Hildebrand, F., Arumugam, M., Bäckhed, F., Blaser, M. J., Bushman, F. D., de Vos, W. M., Ehrlich, S. D., Fraser, C. M., Hattori, M., et al. (2017) · Nature Microbiology · doi:10.1038/s41564-017-0072-8 · Cited by 1,138 · see citing works
Reduced incidence of Prevotella and other fermenters in intestinal microflora of autistic children
Kang, D.-W., Park, J. G., Ilhan, Z. E., Wallstrom, G., LaBaer, J., Adams, J. B., & Krajmalnik-Brown, R. (2013) · PLoS ONE · doi:10.1371/journal.pone.0068322 · Cited by 976 · see citing works
Development of the gut microbiota in infancy and its impact on health in later life
Tanaka, M., & Nakayama, J. (2017) · Allergology International · doi:10.1016/j.alit.2017.07.010 · Cited by 639 · see citing works
Eren, A. M., Morrison, H. G., Lescault, P. J., Réveillaud, J., Vineis, J. H., & Sogin, M. L. (2014) · The ISME Journal · doi:10.1038/ismej.2014.195 · Cited by 594 · see citing works
Calypso: a user-friendly web-server for mining and visualizing microbiome–environment interactions
Zakrzewski, M., Proietti, C., Ellis, J. J., Hasan, S., Brion, M., Berger, B. W., & Krause, L. (2016) · Bioinformatics · doi:10.1093/bioinformatics/btw725 · Cited by 568 · see citing works
Koren, O., Knights, D., Gonzalez, A., Waldron, L., Segata, N., Knight, R., Huttenhower, C., & Ley, R. E. (2013) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1002863 · Cited by 508 · see citing works
Tett, A., Huang, K. D., Asnicar, F., Fehlner-Peach, H., Pasolli, E., Karcher, N., Armanini, F., Manghi, P., Bonham, K., Zolfo, M., et al. (2019) · Cell Host & Microbe · doi:10.1016/j.chom.2019.08.018 · Cited by 476 · see citing works
Interpreting prevotella and bacteroides as biomarkers of diet and lifestyle
Gorvitovskaia, A., Holmes, S. P., & Huse, S. M. (2016) · Microbiome · doi:10.1186/s40168-016-0160-7 · Cited by 461 · see citing works
Prevotella copri in individuals at risk for rheumatoid arthritis
Alpizar-Rodriguez, D., Lesker, T. R., Gronow, A., Gilbert, B., Raemy, E., Lamacchia, C., Gabay, C., Finckh, A., & Strowig, T. (2019) · Annals of the Rheumatic Diseases · doi:10.1136/annrheumdis-2018-214514 · Cited by 449 · see citing works
Knights, D., Ward, T. L., McKinlay, C. E., Miller, H., Gonzalez, A., McDonald, D., & Knight, R. (2014) · Cell Host & Microbe · doi:10.1016/j.chom.2014.09.013 · Cited by 396 · see citing works
Community characteristics of the gut microbiomes of competitive cyclists
Petersen, L. M., Bautista, E. J., Nguyen, H., Hanson, B. M., Chen, L., Lek, S. H., Sodergren, E., & Weinstock, G. M. (2017) · Microbiome · doi:10.1186/s40168-017-0320-4 · Cited by 377 · see citing works
Human gut microbiota community structures in urban and rural populations in Russia
Tyakht, A., Kostryukova, E., Popenko, A., Belenikin, M. S., Pavlenko, A. V., Larin, A. K., Karpova, I. Y., Selezneva, O. V., Semashko, T. A., Ospanova, E. A., et al. (2013) · Nature Communications · doi:10.1038/ncomms3469 · Cited by 283 · see citing works
Breast Milk: A Source of Bifidobacteria for Infant Gut Development and Maturation?
Gueimonde, M., Laitinen, K., Salminen, S., & Isolauri, E. (2007) · Neonatology · doi:10.1159/000100088 · Cited by 273 · see citing works
De Filippo, C., Di Paola, M., Ramazzotti, M., Albanese, D., Pieraccini, G., Banci, E., Miglietta, F., Cavalieri, D., & Lionetti, P. (2017) · Frontiers in Microbiology · doi:10.3389/fmicb.2017.01979 · Cited by 270 · see citing works
Hjorth, M. F., Blædel, T., Bendtsen, L. Q., Lorenzen, J. K., Holm, J. B., Kiilerich, P., Roager, H. M., Kristiansen, K., Larsen, L. H., & Astrup, A. V. (2018) · International Journal of Obesity · doi:10.1038/s41366-018-0093-2 · Cited by 262 · see citing works
Infant and Adult Gut Microbiome and Metabolome in Rural Bassa and Urban Settlers from Nigeria
Ayeni, F. A., Biagi, E., Rampelli, S., Fiori, J., Soverini, M., Audu, H. J., Cristino, S., Caporali, L., Schnorr, S. L., Carelli, V., et al. (2018) · Cell Reports · doi:10.1016/j.celrep.2018.05.018 · Cited by 186 · see citing works
Ecology and metabolism of the beneficial intestinal commensal bacteriumFaecalibacterium prausnitzii
Miquel, S., Martín, R., Bridonneau, C., Robert, V., Sokol, H., Bermúdez‐Humarán, L. G., Thomas, M., & Langella, P. (2014) · Gut Microbes · doi:10.4161/gmic.27651 · Cited by 171 · see citing works
Microbes are trophic analogs of animals
Steffan, S. A., Chikaraishi, Y., Currie, C. R., Horn, H. A., Gaines‐Day, H. R., Pauli, J. N., Zalapa, J. E., & Ohkouchi, N. (2015) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1508782112 · Cited by 163 · see citing works
Impact of Westernized Diet on Gut Microbiota in Children on Leyte Island
Nakayama, J., Yamamoto, A., Conde, L. A., Higashi, K., Sonomoto, K., Tan, J. D., & Lee, Y. K. (2017) · Frontiers in Microbiology · doi:10.3389/fmicb.2017.00197 · Cited by 163 · see citing works
Exploration of bacterial community classes in major human habitats
Zhou, Y., Mihindukulasuriya, K. A., Gao, H., La Rosa, P. S., Wylie, K. M., Martin, J. C., Kota, K., Shannon, W. D., Mitreva, M., Sodergren, E., et al. (2014) · Genome Biology · doi:10.1186/gb-2014-15-5-r66 · Cited by 149 · see citing works
Physiology and central carbon metabolism of the gut bacterium Prevotella copri
Franke, T., & Deppenmeier, U. (2018) · Molecular Microbiology · doi:10.1111/mmi.14058 · Cited by 145 · see citing works
Megasphaera elsdenii Lactate Degradation Pattern Shifts in Rumen Acidosis Models
Chen, L., Shen, Y., Wang, C., Ding, L., Zhao, F., Wang, M., Fu, J., & Wang, H. (2019) · Frontiers in Microbiology · doi:10.3389/fmicb.2019.00162 · Cited by 132 · see citing works
Gut microbiota composition during infancy and subsequent behavioural outcomes
Loughman, A., Ponsonby, A.-L., O'Hely, M., Symeonides, C., Collier, F., Tang, M. L. K., Carlin, J., Ranganathan, S., Allen, K., Pezic, A., et al. (2020) · EBioMedicine · doi:10.1016/j.ebiom.2020.102640 · Cited by 120 · see citing works
Evolution of the Gut Microbiome in Early Childhood: A Cross-Sectional Study of Chinese Children
Niu, J., Xu, L., Qian, Y., Sun, Z., Yu, D., Huang, J., Zhou, X., Wang, Y., Zhang, T., Ren, R., et al. (2020) · Frontiers in Microbiology · doi:10.3389/fmicb.2020.00439 · Cited by 112 · see citing works
Fat and energy needs of children in developing countries
Prentice, A. M., & Paul, A. A. (2000) · American Journal of Clinical Nutrition · doi:10.1093/ajcn/72.5.1253s · Cited by 107 · see citing works
Self-citationNagpal, R., Kurakawa, T., Tsuji, H., Takahashi, T., Kawashima, K., Nagata, S., Nomoto, K., & Yamashiro, Y. (2017) · Scientific Reports · doi:10.1038/s41598-017-10711-5 · Cited by 104 · see citing works
The seasonality of diarrheal pathogens: A retrospective study of seven sites over three years
Chao, D. L., Roose, A. W., Roh, M. K., Kotloff, K. L., & Proctor, J. L. (2019) · PLoS neglected tropical diseases · doi:10.1371/journal.pntd.0007211 · Cited by 104 · see citing works
The human gut microbiome: are we our enterotypes?
Siezen, R. J., & Kleerebezem, M. (2011) · Microbial Biotechnology · doi:10.1111/j.1751-7915.2011.00290.x · Cited by 85 · see citing works
Ruohtula, T., de Goffau, M. C., Nieminen, J. K., Honkanen, J. K., Siljander, H., Hämäläinen, A., Peet, A., Tillmann, V., Ilonen, J., Niemelä, O. J., et al. (2019) · Frontiers in Immunology · doi:10.3389/fimmu.2019.02494 · Cited by 64 · see citing works
Sardarni, U. K., Shet, A., Rajnala, N., Gopalan, B. P., Moar, P., Himanshu, D., Singh, B. P., Chaturvedi, R., & Tandon, R. (2018) · Scientific Reports · doi:10.1038/s41598-018-35877-4 · Cited by 60 · see citing works
Eriksen, K. G., Johnson, W., Sonko, B. J., Prentice, A. M., Darboe, M. K., & Moore, S. E. (2016) · Journal of Nutrition · doi:10.3945/jn.116.241737 · Cited by 56 · see citing works
Self-citationTyakht, A., Alexeev, D. G., Popenko, A., Kostryukova, E., & Govorun, V. M. (2014) · Gut Microbes · doi:10.4161/gmic.28685 · Cited by 43 · see citing works
Pereira, D. I. A., Mohammed, N. I., Ofordile, O., Camara, F., Baldeh, B., Mendy, T., Sanyang, C., Jallow, A. T., Hossain, I. M., Wason, J. M. S., et al. (2018) · Gates Open Research · doi:10.12688/gatesopenres.12866.2 · Cited by 34 · see citing works
Self-citationLi, X., Jensen, B. B., & Canibe, N. (2019) · Applied and Environmental Microbiology · doi:10.1128/aem.02327-18 · Cited by 31 · see citing works
Yohe, T. T., Enger, B. D., Wang, L., Tucker, H. L. M., Ceh, C. A., Parsons, C. L. M., Yu, Z., & Daniels, K. M. (2017) · Journal of Dairy Science · doi:10.3168/jds.2017-12551 · Cited by 23 · see citing works
Environmental exposures and child and maternal gut microbiota in rural Malawi
Kortekangas, E., Kamng’ona, A. W., Fan, Y., Cheung, Y. B., Ashorn, U., Matchado, A., Poelman, B., Maleta, K. M., Dewey, K. G., & Ashorn, P. (2020) · Paediatric and Perinatal Epidemiology · doi:10.1111/ppe.12623 · Cited by 23 · see citing works
Jacobson, D. K., Honap, T. P., Ozga, A. T., Méda, N., Kagone, T., Carabin, H., Spicer, P., Tito, R. Y., Obregón-Tito, A. J., Marin-Reyes, L., et al. (2021) · Scientific Reports · doi:10.1038/s41598-021-81257-w · Cited by 22 · see citing works
Glycolysis for the Microbiome Generation
Wolfe, A. J. (2015) · ASM Press eBooks · doi:10.1128/9781555818883.ch1 · Cited by 18 · see citing works
Flagged first, then by citations
Research works printed but not linked: 2
- [25]Wolfe, A. J. in Metabolism and Bacterial Pathogenesis (ed. Cohen, T. C. P.) 1–16 (ASM Press, 2015).
- [34]WHO. Guideline: Daily iron supplementation in infants and children (World Health Organization, 2016). 27195348
Cited by
Sorted by citations
Cross-feeding in the gut microbiome: Ecology and mechanisms
Culp, E. J., & Goodman, A. L. (2023) · Cell Host & Microbe · doi:10.1016/j.chom.2023.03.016 · Cited by 541 · see citing works
Robust variation in infant gut microbiome assembly across a spectrum of lifestyles
Olm, M. R., Dahan, D., Carter, M. M., Merrill, B. D., Yu, F. B., Jain, S., Meng, X., Tripathi, S. M., Wastyk, H. C., Neff, N. F., et al. (2022) · Science · doi:10.1126/science.abj2972 · Cited by 210 · see citing works
Samara, J., Moossavi, S., Alshaikh, B., Ortega, V. A., Pettersen, V. K., Ferdous, T., Hoops, S. L., Soraisham, A., Vayalumkal, J., Dersch-Mills, D., et al. (2022) · Cell Host & Microbe · doi:10.1016/j.chom.2022.04.005 · Cited by 191 · see citing works
Integration of 168,000 samples reveals global patterns of the human gut microbiome
Abdill, R. J., Graham, S. P., Rubinetti, V., Ahmadian, M., Hicks, P., Chetty, A., McDonald, D., Ferretti, P., Gibbons, E., Rossi, M., et al. (2025) · Cell · doi:10.1016/j.cell.2024.12.017 · Cited by 130 · see citing works
Probiotics to improve the gut microbiome in premature infants: are we there yet?
Mercer, E. M., & Arrieta, M. (2023) · Gut Microbes · doi:10.1080/19490976.2023.2201160 · Cited by 70 · see citing works
Cystic Fibrosis-Related Gut Dysbiosis: A Systematic Review
Caley, L. R., White, H., de Goffau, M. C., Floto, R. A., Parkhill, J., Marsland, B. J., & Peckham, D. G. (2023) · Digestive Diseases and Sciences · doi:10.1007/s10620-022-07812-1 · Cited by 51 · see citing works
Self-citationRamaboli, M. C., Ocvirk, S., Mirzaei, M. K., Eberhart, B. L., Valdivia‐Garcia, M., Metwaly, A., Neuhaus, K., Barker, G., Ru, J., Nesengani, L. T., et al. (2024) · Nature Communications · doi:10.1038/s41467-024-46265-0 · Cited by 49 · see citing works
Loveikyte, R., Bourgonje, A. R., van Goor, H., Dijkstra, G. D. H., & Jong, A. E. V. D. M. (2023) · Redox Biology · doi:10.1016/j.redox.2023.102950 · Cited by 49 · see citing works
Early life microbial succession in the gut follows common patterns in humans across the globe
Bottino, G. F., Bonham, K. S., Patel, F., McCann, S., Zieff, M. R., Naspolini, N. F., Ho, D., Portlock, T., Joos, R., Midani, F. S., et al. (2025) · Nature Communications · doi:10.1038/s41467-025-56072-w · Cited by 48 · see citing works
Iron Supplementation at the Crossroads of Nutrition and Gut Microbiota: The State of the Art
Puga, A. M., Samaniego-Vaesken, M. D. L., Montero-Bravo, A., Ruperto, M., Partearroyo, T., & Varela‐Moreiras, G. (2022) · Nutrients · doi:10.3390/nu14091926 · Cited by 43 · see citing works
The importance of gut microbiome in the perinatal period
Catassi, G. N., García, S. G., Occhionero, A. S., Esposito, C., Giorgio, V., Aloi, M., Gasbarrini, A., Cammarota, G., & Ianiro, G. (2024) · European Journal of Pediatrics · doi:10.1007/s00431-024-05795-x · Cited by 38 · see citing works
Gut Microbiota in Nutrition and Health with a Special Focus on Specific Bacterial Clusters
Bresser, L. R. F., de Goffau, M. C., Levin, E., & Nieuwdorp, M. (2022) · Cells · doi:10.3390/cells11193091 · Cited by 39 · see citing works
van der Vossen, E. W. J., Davids, M., Bresser, L. R. F., Galenkamp, H., van den Born, B. H., Zwinderman, A. H., Levin, E., Nieuwdorp, M., & de Goffau, M. C. (2023) · Microbiome · doi:10.1186/s40168-023-01488-z · Cited by 39 · see citing works
Derrien, M., Mikulic, N., Uyoga, M. A., Chenoll, E., Climent, E., Howard-Varona, A., Nyilima, S., Stoffel, N. U., Karanja, S., Kottler, R., et al. (2023) · Gut Microbes · doi:10.1080/19490976.2023.2178793 · Cited by 36 · see citing works
Maternal and food microbial sources shape the infant microbiome of a rural Ethiopian population
Manara, S., Selma-Royo, M., Huang, K. D., Asnicar, F., Armanini, F., Blanco-Miguez, A., Cumbo, F., Golzato, D., Manghi, P., Pinto, F., et al. (2023) · Current Biology · doi:10.1016/j.cub.2023.04.011 · Cited by 30 · see citing works
Bénard, M. V., de Goffau, M. C., Blonk, J., Hugenholtz, F., van Buuren, J., Paramsothy, S., Kaakoush, N. O., D’Haens, G., Borody, T. J., Kamm, M. A., et al. (2024) · Clinical Gastroenterology and Hepatology · doi:10.1016/j.cgh.2024.10.001 · Cited by 28 · see citing works
Saleem, A., Ikram, A., Dikareva, E., Lahtinen, E., Matharu, D., Pajari, A., de Vos, W. M., Hasan, F., Salonen, A., & Jian, C. (2022) · Gut Microbes · doi:10.1080/19490976.2022.2142009 · Cited by 27 · see citing works
Mohammed, N. I., Wason, J. M. S., Mendy, T., Nass, S. A., Ofordile, O., Camara, F., Baldeh, B., Sanyang, C., Jallow, A. T., Hossain, I. M., et al. (2023) · EClinicalMedicine · doi:10.1016/j.eclinm.2023.101853 · Cited by 23 · see citing works
Self-citationRecent insights into the role of microbiome in the pathogenesis of obesity
van der Vossen, E. W. J., de Goffau, M. C., Levin, E., & Nieuwdorp, M. (2022) · Therapeutic Advances in Gastroenterology · doi:10.1177/17562848221115320 · Cited by 20 · see citing works
Sheng, Y., Wang, J., Gao, Y., Peng, Y., Li, X., Huang, W., Zhou, H., Liu, R., & Zhang, W. (2023) · Computational and Structural Biotechnology Journal · doi:10.1016/j.csbj.2023.11.047 · Cited by 19 · see citing works
Karamantziani, T., Pouliakis, A., Xanthos, T. T., Ekmektzoglou, K. A., Paliatsiou, S., Sokou, R., & Iacovidou, N. M. (2024) · Children · doi:10.3390/children11020231 · Cited by 19 · see citing works
Aggarwal, D., Bellis, K., Blane, B., de Goffau, M. C., Wagner, J., Ng, D. Y. K., Raven, K. E., Naydenova, P., Kaptoge, S., Burton, S., et al. (2025) · Nature Communications · doi:10.1038/s41467-025-66564-4 · Cited by 23 · see citing works
Self-citationNeonatal microbiome in the multiomics era: development and its impact on long-term health
Neu, J., & Stewart, C. J. (2025) · Pediatric Research · doi:10.1038/s41390-025-03953-x · Cited by 17 · see citing works
Bhattacharyya, C., Barman, D., Tripathi, D., Dutta, S., Bhattacharya, C., Alam, M., Choudhury, P., Devi, U., Mahanta, J., Rasaily, R., et al. (2023) · Microbiology Spectrum · doi:10.1128/spectrum.04967-22 · Cited by 17 · see citing works
High-throughput DNA extraction strategy for fecal microbiome studies
Isokääntä, H., Tomnikov, N., Vanhatalo, S., Munukka, E., Huovinen, P., Hakanen, A., & Kallonen, T. (2024) · Microbiology Spectrum · doi:10.1128/spectrum.02932-23 · Cited by 18 · see citing works
Isokääntä, H., da Silva, L. P., Karu, N., Kallonen, T., Aatsinki, A., Hankemeier, T., Schimmel, L., Diaz, E., Hyötyläinen, T., Dorrestein, P. C., et al. (2024) · Analytical Chemistry · doi:10.1021/acs.analchem.3c04436 · Cited by 17 · see citing works
Zhang, M., Zhao, Y., Umar, A., Zhang, H., Yang, L., Huang, J., Long, Y., & Yu, Z. (2024) · BMC Oral Health · doi:10.1186/s12903-024-04181-1 · Cited by 16 · see citing works
Goosen, C., Proost, S., Baumgartner, J., Mallick, K., Tito, R. Y., Barnabas, S. L., Cotton, M. F., Zimmermann, M. B., Raes, J., & Blaauw, R. (2023) · Journal of Human Nutrition and Dietetics · doi:10.1111/jhn.13171 · Cited by 14 · see citing works
A Scoping Review Evaluating the Current State of Gut Microbiota Research in Africa
Pheeha, S. M., Tamuzi, J. L., Chale-Matsau, B., Manda, S., & Nyasulu, P. S. (2023) · Microorganisms · doi:10.3390/microorganisms11082118 · Cited by 13 · see citing works
Kinetics of imidazole propionate from orally delivered histidine in mice and humans
Warmbrunn, M. V., Attaye, I., Horak, A. J., Banerjee, R., Massey, W. J., Varadharajan, V., Rampanelli, E., Hao, Y., Dutta, S., Nemet, I., et al. (2024) · npj Biofilms and Microbiomes · doi:10.1038/s41522-024-00592-8 · Cited by 11 · see citing works
Normal Gut Microbiomes in Diverse Populations: Clinical Implications
Shete, O., & Ghosh, T. S. (2024) · Annual Review of Medicine · doi:10.1146/annurev-med-051223-031809 · Cited by 10 · see citing works
Wagner, J., Handley, A. J., Donato, C. M., Lyons, E. A., Pavlic, D. I., Ong, D. S., Bonnici, R., Bogdanovic‐Sakran, N., Parker, E. P. K., Bronowski, C., et al. (2025) · Nature Communications · doi:10.1038/s41467-025-58632-6 · Cited by 10 · see citing works
Self-citationThe nonindustrialised microbiome in a modern world
Shanahan, F., Ghosh, T. S., Molloy, M. G., & O’Toole, P. W. (2022) · Clinical Science · doi:10.1042/cs20220203 · Cited by 10 · see citing works
The gut microbiome of Baka forager-horticulturalists from Cameroon is optimized for wild plant foods
Rampelli, S., Gallois, S., D’Amico, F., Turroni, S., Fabbrini, M., Scicchitano, D., Candela, M., & Henry, A. G. (2024) · iScience · doi:10.1016/j.isci.2024.109211 · Cited by 10 · see citing works
Effect of stress urinary incontinence on vaginal microbial communities
Zhang, M., Zhou, Y., Yao, S., Zhao, Y., Batool, S. S., Huang, J., Jiang, L., Yan, D., Yan, W., & Yu, Z. P. (2024) · BMC Microbiology · doi:10.1186/s12866-024-03237-0 · Cited by 11 · see citing works
Sanyang, B., de Silva, T. I., Camara, B., Beloum, N., Kanteh, A., Manneh, J., Piters, W. A. A. D. S., Bogaert, D., Sesay, A. K., & Roca, A. (2024) · iScience · doi:10.1016/j.isci.2024.110626 · Cited by 8 · see citing works
Gut Prevotella stercorea associates with protection against infection in rural African children
Ofordile, O., Pereira, D. I. A., Prentice, A. M., & Wagner, J. (2025) · Nature Communications · doi:10.1038/s41467-025-66011-4 · Cited by 7 · see citing works
Self-citationSanyang, B., de Silva, T. I., Kanteh, A., Bojang, A., Manneh, J., Piters, W. A. A. D. S., Peno, C., Bogaert, D., Sesay, A. K., & Roca, A. (2022) · EBioMedicine · doi:10.1016/j.ebiom.2022.104227 · Cited by 7 · see citing works
Aggarwal, D., Rajan, D., Bellis, K. L., Betteridge, E., Brennan, J., de Sousa, C., CARRIAGE Study Team‡, Parkhill, J., Peacock, S. J., de Goffau, M. C., et al. (2023) · Microbial Genomics · doi:10.1099/mgen.0.001115 · Cited by 7 · see citing works
Self-citationPrevotella stercorea increases fat deposition in Jinhua pigs fed alfalfa grass-based diets
Zhang, Q., Du, M., Shen, Y., Lu, X., Jin, M., & Wang, Y. (2025) · Journal of Animal Science and Biotechnology/Journal of animal science and biotechnology · doi:10.1186/s40104-025-01217-6 · Cited by 6 · see citing works
Dalby, M. J., Kiu, R., Serghiou, I. R., Miyazaki, A., Acford-Palmer, H., Rathavy, T., Caim, S., Phillips, S., Kujawska, M., Matsui, M., et al. (2024) · npj Biofilms and Microbiomes · doi:10.1038/s41522-024-00562-0 · Cited by 6 · see citing works
Rampelli, S., Pomstra, D., Barone, M., Fabbrini, M., Turroni, S., Candela, M., & Henry, A. G. (2025) · Scientific Reports · doi:10.1038/s41598-025-00319-5 · Cited by 7 · see citing works
Qiu, X., Zhang, M., Zhang, L. J., Chen, H., Gao, M., Li, W., Yu, Z., & Hou, Z. (2025) · Annals of Clinical Microbiology and Antimicrobials · doi:10.1186/s12941-025-00828-1 · Cited by 5 · see citing works
Fricker, A. D., Sejane, K., Desai, M., Snyder, M. W., Duran, L., Mackelprang, R., Bode, L., Ross, M. G., & Flores, G. E. (2025) · Nutrients · doi:10.3390/nu17020338 · Cited by 5 · see citing works
Microbiota and growth among infants and children in low-income and middle-income settings
Njunge, J. M., & Walson, J. L. (2023) · Current Opinion in Clinical Nutrition & Metabolic Care · doi:10.1097/mco.0000000000000927 · Cited by 4 · see citing works
Wang, J., Li, Y., Mu, Y., Huang, K., Li, D., Lan, C., Cui, Y., & Wang, J. (2024) · Science China Life Sciences · doi:10.1007/s11427-023-2488-0 · Cited by 3 · see citing works
Wang, S., Yu, L., Tian, F., Chen, W., & Zhai, Q. (2024) · Food Science and Human Wellness · doi:10.26599/fshw.2024.9250252 · Cited by 2 · see citing works
Early-life immunological and microbial differences between East African and North European children
Nurminen, N., Fan, Y., Kortekangas, E., Lin, J., Hallamaa, L., Maleta, K. M., Lehto, K., Laitinen, O. H., Sinkkonen, A., Lempainen, J., et al. (2026) · Communications Medicine · doi:10.1038/s43856-026-01482-0 · Cited by 2 · see citing works
Luchen, C. C., Piedade, G. J., Chibuye, M., Simuyandi, M., Chisenga, C. C., Chilengi, R., Bosomprah, S., Schultsz, C., Mende, D. R., & Harris, V. (2026) · npj Antimicrobials and Resistance · doi:10.1038/s44259-026-00194-8 · Cited by 2 · see citing works
The African gut microbiome: A window into the hidden human microbial diversity
Zeng, S., Wang, H., Mu, D., & Wang, S. (2025) · Cell Host & Microbe · doi:10.1016/j.chom.2025.02.015 · Cited by 2 · see citing works
Isokääntä, H., da Silva, L. P., Karu, N., Kallonen, T., Aatsinki, A., Hankemeier, T., Schimmel, L., Diaz, E., Hyötyläinen, T., Dorrestein, P. C., et al. (2023) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2023.08.29.555241 · Cited by 2 · see citing works
Manus, M. B., Lucore, J. M., Kuthyar, S., Moy, M. R., Sardaro, M. L. S., & Amato, K. R. (2024) · American Journal of Biological Anthropology · doi:10.1002/ajpa.25020 · Cited by 1 · see citing works
Ethical Considerations for Microbiome Research
Ramanathan, J. (2025) · Springer eBooks · doi:10.1007/978-3-031-80029-0_11 · Cited by 1 · see citing works
Intestinal microbiota diversity in children from three African countries
Dauga, C., Gilbart, V., Habib, A., Tondeur, L., Randremanana, R. V., Hedible, K. G. B., Manirazika, A., Vray, M., & Jambou, R. (2025) · Infection Genetics and Evolution · doi:10.1016/j.meegid.2025.105808 · Cited by 1 · see citing works
Gut Microbiota Throughout the Lifespan
Ishiguro, E. E., Haskey, N., & Campbell, K. (2023) · Elsevier eBooks · doi:10.1016/b978-0-323-91387-4.00006-5 · Cited by 1 · see citing works
Microbiome assembly in The Gambia
Carter, M. M., Olm, M. R., & Sonnenburg, E. D. (2021) · Nature Microbiology · doi:10.1038/s41564-021-01036-1 · Cited by 1 · see citing works
Deng, L., Taelman, S., Olm, M. R., Toe, L. C., Balini, E., Ouédraogo, L. O., Bastos-Moreira, Y., Argaw, A., Tesfamariam, K., Sonnenburg, E. D., et al. (2023) · medRxiv · doi:10.1101/2023.11.24.23298964 · Cited by 1 · see citing works
Ofordile, O. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.05.25.727687 · Cited by 1 · see citing works
Selleri, E., Longhi, G., Tarracchini, C., Carolis, E. D., Petraro, S., Mancabelli, L., Milani, C., Turroni, F., Ventura, M., & Lugli, G. A. (2026) · Microbiome Research Reports · doi:10.20517/mrr.2026.19
史新 (2007) · 广告导报
Breastfeeding, the Gut Microbiome, and Growth among Infants in Lusaka, Zambia
Lauer, J. M., Odom-Mabey, A. R., Rani, A., Story, G., Chembe, M., Henderson, S., Parkerson, D., Fink, G., Rockers, P. C., Sela, D. A., et al. (2025) · Journal of Nutrition · doi:10.1016/j.tjnut.2025.10.026
van der Vossen, E. W. J., Davids, M., Bresser, L. R. F., Galenkamp, H., van den Born, B. H., Zwinderman, A. H., Levin, E., Nieuwdorp, M., & de Goffau, M. C. (2024) · Figshare · doi:10.6084/m9.figshare.26587719
van der Vossen, E. W. J., Davids, M., Bresser, L. R. F., Galenkamp, H., van den Born, B. H., Zwinderman, A. H., Levin, E., Nieuwdorp, M., & de Goffau, M. C. (2024) · Figshare · doi:10.6084/m9.figshare.26587728
van der Vossen, E. W. J., Davids, M., Bresser, L. R. F., Galenkamp, H., van den Born, B. H., Zwinderman, A. H., Levin, E., Nieuwdorp, M., & de Goffau, M. C. (2024) · Figshare · doi:10.6084/m9.figshare.26587734
van der Vossen, E. W. J., Davids, M., Bresser, L. R. F., Galenkamp, H., van den Born, B. H., Zwinderman, A. H., Levin, E., Nieuwdorp, M., & de Goffau, M. C. (2024) · Figshare · doi:10.6084/m9.figshare.26587749
van der Vossen, E. W. J., Davids, M., Bresser, L. R. F., Galenkamp, H., van den Born, B. H., Zwinderman, A. H., Levin, E., Nieuwdorp, M., & de Goffau, M. C. (2024) · Figshare · doi:10.6084/m9.figshare.26587737
van der Vossen, E. W. J., Davids, M., Bresser, L. R. F., Galenkamp, H., van den Born, B. H., Zwinderman, A. H., Levin, E., Nieuwdorp, M., & de Goffau, M. C. (2024) · Figshare · doi:10.6084/m9.figshare.26587722
van der Vossen, E. W. J., Davids, M., Bresser, L. R. F., Galenkamp, H., van den Born, B. H., Zwinderman, A. H., Levin, E., Nieuwdorp, M., & de Goffau, M. C. (2024) · Figshare · doi:10.6084/m9.figshare.26587725
van der Vossen, E. W. J., Davids, M., Bresser, L. R. F., Galenkamp, H., van den Born, B. H., Zwinderman, A. H., Levin, E., Nieuwdorp, M., & de Goffau, M. C. (2024) · Figshare · doi:10.6084/m9.figshare.26587716
van der Vossen, E. W. J., Davids, M., Bresser, L. R. F., Galenkamp, H., van den Born, B. H., Zwinderman, A. H., Levin, E., Nieuwdorp, M., & de Goffau, M. C. (2024) · Figshare · doi:10.6084/m9.figshare.26587743
van der Vossen, E. W. J., Davids, M., Bresser, L. R. F., Galenkamp, H., van den Born, B. H., Zwinderman, A. H., Levin, E., Nieuwdorp, M., & de Goffau, M. C. (2024) · Figshare · doi:10.6084/m9.figshare.26587755
Zhang, M., Zhao, Y., Umar, A., Zhang, H., Yang, L., Huang, J., Long, Y., & Yu, Z. (2024) · Figshare · doi:10.6084/m9.figshare.25546999
van der Vossen, E. W. J., Davids, M., Bresser, L. R. F., Galenkamp, H., van den Born, B. H., Zwinderman, A. H., Levin, E., Nieuwdorp, M., & de Goffau, M. C. (2024) · Figshare · doi:10.6084/m9.figshare.26587731
van der Vossen, E. W. J., Davids, M., Bresser, L. R. F., Galenkamp, H., van den Born, B. H., Zwinderman, A. H., Levin, E., Nieuwdorp, M., & de Goffau, M. C. (2024) · Figshare · doi:10.6084/m9.figshare.26587740
Additional file 1 of Effect of stress urinary incontinence on vaginal microbial communities
Zhang, M., Zhou, Y., Yao, S., Zhao, Y., Batool, S. S., Huang, J., Jiang, L., Yan, D., Yan, W., & Yu, Z. P. (2024) · Figshare · doi:10.6084/m9.figshare.25546993
van der Vossen, E. W. J., Davids, M., Bresser, L. R. F., Galenkamp, H., van den Born, B. H., Zwinderman, A. H., Levin, E., Nieuwdorp, M., & de Goffau, M. C. (2024) · Figshare · doi:10.6084/m9.figshare.26587752
van der Vossen, E. W. J., Davids, M., Bresser, L. R. F., Galenkamp, H., van den Born, B. H., Zwinderman, A. H., Levin, E., Nieuwdorp, M., & de Goffau, M. C. (2024) · Figshare · doi:10.6084/m9.figshare.26587746
Abjani, F., Er, Y. X., Lee, S. C., Madhavan, P., Rhodes, A., Lim, Y. A. L., Chong, P. P., & Chinna, K. (2026) · British Journal of Biomedical Science · doi:10.3389/bjbs.2025.15378 · Cited by 1 · see citing works
Liu, Y., Chen, C., & Gao, J. (2026) · Frontiers in Microbiology · doi:10.3389/fmicb.2026.1818141
Development of Infant Microbiome and Its Long‐Term Health Impacts
Adeboye, S. O., Olarewaju, V. O., Allen, O. V., Oyegbade, S. A., & Adeboye, B. J. (2026) · Advanced Gut & Microbiome Research · doi:10.1155/agm3/3719969
Ofordile, O. (2026) · BMC Medical Genomics · doi:10.1186/s12920-026-02449-9 · Cited by 4 · see citing works
Azouz, S., Benabid, M., Zarrouk‐Mahjoub, S., Elati, J., Aoun, K., & Bouratbine, A. (2026) · FEMS Microbiology Letters · doi:10.1093/femsle/fnag095
Papadaki, M. I., Falony, G., Vieira‐Silva, S., Tito, R. Y., Rymenans, L., Swinnen, J., Close, L., Wagemans, J., Jahan, S., Alam, M., et al. (2026) · mSystems · doi:10.1128/msystems.00101-26
Composition and Function of the Human Gut Microbiome
Hitch, T. C. A., & Clavel, T. (2026) · Springer eBooks · doi:10.1007/978-3-032-26410-7_2
Ofordile, O. (2026) · Medical Hypotheses · doi:10.1016/j.mehy.2026.112158
- Authors
- de Goffau, M. C., Jallow, A. T., Sanyang, C., Prentice, A. M., Meagher, N., Price, D. J., Revill, P. A., Parkhill, J., Pereira, D. I. A., & Wagner, J.
- Affiliations
- MRC Unit the Gambia (GM)
- The Royal Melbourne Hospital (AU)
- University of Cambridge (GB)
- Corresponding author
- Wagner, Josef
- ORCID
- Venue
- Nature Microbiology
- Published
- 2021-12-31
- Volume
- 7
- Issue
- 1
- Pages
- 132-144
- ISSN
- 2058-5276 (ISSN-L)
- PMC
- PMC8727306
- OpenAlex
- W4206114862
- Cited by
- 82
- References
- 52
- Citations by year
- 2026: 12 · 2025: 14 · 2024: 29 · 2023: 17 · 2022: 8 · 2021: 1
- FWCI
- 4.55
- Type
- journal article
- Language
- en
- Open access
- hybrid
- doi.org
- Locations
- Nature Microbiology (publishedVersion, cc-by)
- Research Square (acceptedVersion, cc-by)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- LSHTM Research Online (London School of Hygiene and Tropical Medicine) (acceptedVersion)
- Data Archiving and Networked Services (DANS) (submittedVersion, other-oa)
- Minerva Access (University of Melbourne) (submittedVersion, cc-by)
- Pure Amsterdam UMC (submittedVersion, cc-by)
- Apollo (University of Cambridge) (submittedVersion, cc-by)
- Apollo
- Apollo (cc-by)
- Greater South Information System
- Funders
- MRC Unit The Gambia/MRC International Nutrition Group by the UK MRC and the UK Department for the International Development
- Bill and Melinda Gates Foundation (OPP1140952)
- Bill & Melinda Gates Foundation Grand Challenges New Interventions in Global Health award
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
- Health Sciences › Nursing › Nutrition and Dietetics › Infant Nutrition and Health
- Health Sciences › Dentistry › Periodontics › Oral microbiology and periodontitis research
- Keywords
- gut microbiota development, Prevotella, Prevotella copri, Faecalibacterium prausnitzii, Prevotella stercorea, infants, weaning, iron supplementation, rural Gambia, high-fiber diet, microbial community composition
- MeSH terms
- Gastrointestinal Microbiome, Bacteria, Child, Preschool, Feces, Gambia, Humans, Infant, Rural Population, Randomized Controlled Trials as Topic, Prevotella
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
