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Diversity of Bifidobacteria within the Infant Gut Microbiota
Open accessAbstract
BACKGROUND: The human gastrointestinal tract (GIT) represents one of the most densely populated microbial ecosystems studied to date. Although this microbial consortium has been recognized to have a crucial impact on human health, its precise composition is still subject to intense investigation. Among the GIT microbiota, bifidobacteria represent an important commensal group, being among the first microbial colonizers of the gut. However, the prevalence and diversity of members of the genus Bifidobacterium in the infant intestinal microbiota has not yet been fully characterized, while some inconsistencies exist in literature regarding the abundance of this genus. METHODS/PRINCIPAL FINDINGS: In the current report, we assessed the complexity of the infant intestinal bifidobacterial population by analysis of pyrosequencing data of PCR amplicons derived from two hypervariable regions of the 16 S rRNA gene. Eleven faecal samples were collected from healthy infants of different geographical origins (Italy, Spain or Ireland), feeding type (breast milk or formula) and mode of delivery (vaginal or caesarean delivery), while in four cases, faecal samples of corresponding mothers were also analyzed. CONCLUSIONS: In contrast to several previously published culture-independent studies, our analysis revealed a predominance of bifidobacteria in the infant gut as well as a profile of co-occurrence of bifidobacterial species in the infant's intestine.
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“PS infants showed an earlier and more robust colonisation of infant-associated Bifidobacterium species, particularly B. breve and B. longum subsp. infantis, compared to NPS infants51–53.”
From Impact of early life antibiotic and probiotic treatment on gut microbiome and resistome of very-low-birth-weight preterm infants. (2025) · cites this paper as [52]
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“Bifidobacteria play an important role in gut function and typically comprise up to 90% of infant microbiota, remaining present in large numbers also in the gut of adults [3].”
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“Bifidobacterium is only a minor component of the infant gut microbiota [17].”
Mancabelli, L., Milani, C., Lugli, G. A., Fontana, F., Turroni, F., van Sinderen, D., & Ventura, M. (2020) · Microorganisms · doi:10.3390/microorganisms8010131 · Cited by 36
“For example, several published studies have reported that the abundance of members of the genus Bifidobacterium, as determined by such culture-independent metagenomic studies, was likely to have been underestimated due to PCR primer biases [4,9,10].”
BackgroundSelf-citationPuengel, D., Treveil, A., Dalby, M. J., Caim, S., Colquhoun, I. J., Booth, C., Ketskemety, J., Korcsmaros, T. D., van Sinderen, D., Lawson, M. A., et al. (2020) · Nutrients · doi:10.3390/nu12040948 · Cited by 37
“80% of the total community), which represents an important microbial pioneer or founder genus [8,9].”
BackgroundLi, G.-H., Huang, S., Li, X., Liu, X.-S., & Du, Q. (2020) · World Journal of Gastroenterology · doi:10.3748/wjg.v26.i46.7338 · Cited by 36
Nelson, B. N., & Friedman, J. E. (2024) · International Journal of Molecular Sciences · doi:10.3390/ijms25115951 · Cited by 39
Park, M. J., Park, M. S., & Ji, G. E. (2018) · Journal of Microbiological Methods · doi:10.1016/j.mimet.2018.11.019 · Cited by 34
Quin, C., & Gibson, D. L. (2020) · Gut Microbes · doi:10.1080/19490976.2020.1736973 · Cited by 35
“For instance, a study comparing Bifidobacteria, Escherichia and Clostridium spp. between 50 breastfed and 50 formula-fed infants in the Netherlands found that bifidobacterial counts were comparable using real-time PCR.92 A culturedependent study in Sweden similarly found no differences between breastfed and formula-fe…”
BackgroundResultInfluentialLogtenberg, M. J., Akkerman, R., Hobé, R. G., Donners, K. M. H., van Leeuwen, S. S., Hermes, G. D. A., de Haan, B. J., Faas, M. M., Buwalda, P. L., Zoetendal, E. G., et al. (2021) · Molecular Nutrition & Food Research · doi:10.1002/mnfr.202001077 · Cited by 34
Lipid hydrolysis products affect the composition of infant gut microbial communitiesin vitro
Nejrup, R. G., Bahl, M. I., Vigsnæs, L. K., Heerup, C., Licht, T. R., & Hellgren, L. I. (2015) · British Journal Of Nutrition · doi:10.1017/s0007114515000811 · Cited by 37
“Rapidly, anaerobic bifi-dobacteria become the most dominating genus, typically represented mainly by the species B. longum (8) .”
Bidart, G. N., Rodríguez‐Díaz, J., & Yebra, M. J. (2015) · Applied and Environmental Microbiology · doi:10.1128/aem.02888-15 · Cited by 34
Żeber‐Lubecka, N., Kulecka, M., Ambrożkiewicz, F., Paziewska, A., Lechowicz, M., Konopka, E., Majewska, U., Borszewska-Kornacka, M. K., Mikuła, M., Cukrowská, B., et al. (2016) · PLoS ONE · doi:10.1371/journal.pone.0150306 · Cited by 34
“Recent advances in culture-independent approaches allow insights into the diversity, complexity, and individual variability of normal and probiotic-modified gut microbial community [14].”
BackgroundAmoxicillin-Clavulanic Acid Resistance in the Genus Bifidobacterium
Mancabelli, L., Mancino, W., Lugli, G. A., Argentini, C., Longhi, G., Milani, C., Viappiani, A., Anzalone, R., Bernasconi, S., van Sinderen, D., et al. (2021) · Applied and Environmental Microbiology · doi:10.1128/aem.03137-20 · Cited by 34
“to be important to support a healthy human physiology (1, 2).”
BackgroundSelf-citationShimada, Y., Watanabe, Y., Wakinaka, T., Funeno, Y., Kubota, M., Chaiwangsri, T., Kurihara, S., Yamamoto, K., Katayama, T., & Ashida, H. (2014) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-014-6201-x · Cited by 34
“B. bifidum is one of the most frequently found bacteria in the intestines of newborn infants (Turroni et al. 2012).”
BackgroundInfluentialInvestigation of phenyllactic acid as a potent tyrosinase inhibitor produced by probiotics
Shin, M., Truong, V., Lee, M., Kim, D.-G., Kim, M. S., Cho, H., Jung, Y. H., Yang, J., Jeong, W., & Kim, Y. (2022) · Current Research in Food Science · doi:10.1016/j.crfs.2022.100413 · Cited by 36
Kelly, S. M., O’Callaghan, J., Kinsella, M., & van Sinderen, D. (2018) · Frontiers in Microbiology · doi:10.3389/fmicb.2018.02690 · Cited by 33
Carbohydrate Metabolism in Bifidobacteria
Egan, M., & van Sinderen, D. (2017) · Elsevier eBooks · doi:10.1016/b978-0-12-805060-6.00008-9 · Cited by 35
Characterization of GH2 and GH42 β-galactosidases derived from bifidobacterial infant isolates
Ambrogi, V., Bottacini, F., O’Sullivan, J., Motherway, M. O., Cao, L., Schoemaker, B., Schoterman, M. H. C., & van Sinderen, D. (2019) · AMB Express · doi:10.1186/s13568-019-0735-3 · Cited by 31
2′-Fucosyllactose promotes Bifidobacterium bifidum DNG6 adhesion to Caco-2 cells
Zhang, G., Zhao, J., Wen, R., Zhu, X., Liu, L., & Li, C. (2020) · Journal of Dairy Science · doi:10.3168/jds.2020-18773 · Cited by 35
Palsson, O. S., Peery, A. F., Seitzberg, D., Amundsen, I. D., McConnell, B., & Simrén, M. (2020) · Clinical and Translational Gastroenterology · doi:10.14309/ctg.0000000000000276 · Cited by 34
Modulating the Gut Microbiota of Humans by Dietary Intervention with Plant Glycans
Tannock, G. W. (2020) · Applied and Environmental Microbiology · doi:10.1128/aem.02757-20 · Cited by 33
“sisting predominantly of bifidobacterial species (2).”
He, L. (2021) · International Journal of Molecular Sciences · doi:10.3390/ijms22042121 · Cited by 35
“The intestinal tract is quickly colonized by bacteria, and the bacteria metabolize nutrients, producing high levels of lactate and acetate in the intestine [1,2].”
BackgroundGenome of Bifidobacteria and Carbohydrate Metabolism
Bondue, P., & Delcenserie, V. (2015) · Korean Journal for Food Science of Animal Resources · doi:10.5851/kosfa.2015.35.1.1 · Cited by 32
“As indicated by previous studies involved in gastrointestinal microbiota analysis, additional bifidobacterial species are to be discovered in the future (Turroni et al. 2012; Zoetendal et al., 2008) and further expansion or refinement of the classification is to be expected.”
ResultImoto, N., Morita, H., Amanuma, F., Maruyama, H., Watanabe, S., & Hashiguchi, N. (2018) · Journal of Perinatology · doi:10.1038/s41372-018-0172-1 · Cited by 32
Yan, W., Luo, B., Zhang, X., Ni, Y., & Tian, F. (2021) · Frontiers in Microbiology · doi:10.3389/fmicb.2021.669442 · Cited by 32
Research progress on conjugated linoleic acid bio-conversion in Bifidobacterium
Mei, Y., Chen, H., Yang, B. K., Zhao, J., Zhang, H., & Chen, W. (2022) · International Journal of Food Microbiology · doi:10.1016/j.ijfoodmicro.2022.109593 · Cited by 35
Kwak, M.-J., Kwon, S.-K., Yoon, J.-K., Song, J. Y., Seo, J.-G., Chung, M. J., & Kim, J. F. (2016) · Systematic and Applied Microbiology · doi:10.1016/j.syapm.2016.07.004 · Cited by 31
Gut Microbiota in a Rat Oral Sensitization Model: Effect of a Cocoa‐Enriched Diet
Camps‐Bossacoma, M., Pérez-Cano, F. J., Franch, À., & Castell, M. (2017) · Oxidative Medicine and Cellular Longevity · doi:10.1155/2017/7417505 · Cited by 31
Bifidobacteria and Their Health-Promoting Effects
Hidalgo-Cantabrana, C., Delgado, S., Ruíz, L., Ruas‐Madiedo, P., Sánchez, B., & Margollés, A. (2018) · ASM Press eBooks · doi:10.1128/9781555819705.ch3 · Cited by 32
Impact ofBifidobacterium bifidumMIMBb75 on mouse intestinal microorganisms
Singh, N., Arioli, S., Wang, A. Y., Villa, C., Jahani, R., Song, Y. S., Mora, D., Guglielmetti, S., & Comelli, E. M. (2013) · FEMS Microbiology Ecology · doi:10.1111/1574-6941.12124 · Cited by 34
“All rights reserved M IC RO BI O LO G Y E C O LO G Y they predominate in the infant gut microbiota (Turroni et al., 2012) but may persist throughout adulthood.”
BackgroundJames, K., Motherway, M. O., Penno, C., O'Brien, R. L., & van Sinderen, D. (2018) · Applied and Environmental Microbiology · doi:10.1128/aem.02774-17 · Cited by 31
“biota (1) is substantially aided by the ability of these infant-associated species to utilize”
BackgroundSasaki, Y., Horigome, A., Odamaki, T., Xiao, J., Ishiwata, A., Ito, Y., Kitahara, K., & Fujita, K. (2021) · Applied and Environmental Microbiology · doi:10.1128/aem.02690-20 · Cited by 30
“been detected in hosts across a wider age range, from infancy to adult (4).”
BackgroundYou, X., Rani, A., Özcan, E., Lyu, Y., & Sela, D. A. (2023) · Gut Microbes · doi:10.1080/19490976.2023.2192546 · Cited by 35
“Specific bifidobacterial lineages have evolved to colonize the nursing infant GIT and thus are often abundant within this environment.(5) Microbiologically-active molecules secreted in human milk enhance bifidobacterial fitness relative to competing genera.”
BackgroundEarly Gut Colonization of Preterm Infants
Gómez, M., Moles, L., Melgar, A. J., Ureta, N., Bustos, G., Fernández, L., Rodríguez, J. M., & Jiménez, E. (2016) · Journal of Pediatric Gastroenterology and Nutrition · doi:10.1097/mpg.0000000000001104 · Cited by 30
“Such bacteria can also be isolated or detected, albeit at a lower rate, in nonheated human milk (34); however, their prevalence may be underrated using either culture-dependent or culture-independent techniques because their isolation is often more difficult than that of other bacteria while DNA isolation methods and…”
Micelle PCR reduces chimera formation in 16S rRNA profiling of complex microbial DNA mixtures
Boers, S. A., Hays, J. P., & Jansen, R. (2015) · Scientific Reports · doi:10.1038/srep14181 · Cited by 30
Quinn, E. M., Slattery, H., Thompson, A. P., Kilcoyne, M., Joshi, L., & Hickey, R. M. (2018) · Foods · doi:10.3390/foods7120196 · Cited by 32
The metabolic profile of Bifidobacterium dentium reflects its status as a human gut commensal
Engevik, M. A., Danhof, H. A., Hall, A., Engevik, K. A., Horvath, T. D., Haidacher, S. J., Hoch, K. M., Endres, B. T., Bajaj, M., Garey, K. W., et al. (2021) · BMC Microbiology · doi:10.1186/s12866-021-02166-6 · Cited by 33
Ma, B., Sundararajan, S., Nadimpalli, G., France, M., McComb, E. J., Rutt, L., Lemme‐Dumit, J. M., Janofsky, E., Roskes, L. S., Gajer, P., et al. (2022) · mBio · doi:10.1128/mbio.01299-22 · Cited by 32
“breve is a known dominant Bifidobacterium species in both preterm and term infant gut microbiota (59) and was also observed in breastmilk and vaginal microbiota (60, 61).”
BackgroundBacterial Munch for Infants: Potential Pediatric Therapeutic Interventions of Probiotics
Khurshid, M., Aslam, B., Nisar, M. A., Akbar, R., Rahman, H., Khan, A. A., & Rasool, M. H. (2015) · Future Microbiology · doi:10.2217/fmb.15.102 · Cited by 29
Pafčo, B., Sharma, A. K., Petrželková, K. J., Vlčková, K., Todd, A. F., Yeoman, C. J., Wilson, B. A., Stumpf, R. M., White, B. A., Nelson, K. E., et al. (2019) · American Journal of Physical Anthropology · doi:10.1002/ajpa.23842 · Cited by 34
“All rights reserved. this lactic acid bacteria is proposed to be associated with protection against pathogens by inhibiting their growth, supporting mucosal barrier and immunological functions (Koenig et al., 2010; Turroni et al., 2012).”
Background
Metadata
- Authors
- Turroni, F., Peano, C., Pass, D. A., Foroni, E., Severgnini, M., Claesson, M. J., Kerr, C., Hourihane, J., Murray, D., Fuligni, F., Gueimonde, M., Margolles, A., De Bellis, G., O’Toole, P. W., van Sinderen, D., Marchesi, J. R., & Ventura, M.
- Affiliations
- University of Parma (IT)
- National Research Council (IT)
- Cardiff University (GB)
- University College Cork (IE)
- Consejo Superior de Investigaciones Científicas (ES)
- Corresponding author
- Ventura, Marco
- ORCID
- Venue
- PLoS ONE
- Publisher
- Public Library of Science (PLoS)
- Published
- 2012-05-11
- Volume
- 7
- Issue
- 5
- Pages
- e36957
- ISSN
- 1932-6203 (ISSN-L)
- PMC
- PMC3350489
- OpenAlex
- W2048550695
- Cited by
- 647
- References
- 54
- Citations by year
- 2026: 17 · 2025: 32 · 2024: 45 · 2023: 36 · 2022: 49 · 2021: 57 · 2020: 71 · 2019: 29 · 2018: 46 · 2017: 56 · 2016: 52 · 2015: 50 · 2014: 48 · 2013: 41 · 2012: 17
- FWCI
- 20.04
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Locations
- PLoS ONE (publishedVersion, cc-by)
- Europe PMC (PubMed Central) (publishedVersion, cc-by)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- ORCA Online Research @Cardiff (Cardiff University) (acceptedVersion)
- DIGITAL.CSIC (Spanish National Research Council (CSIC)) (submittedVersion)
- DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
- Figshare (submittedVersion, cc-by)
- Funders
- Royal Society
- Irish Research Council for Science, Engineering and Technology
- Science Foundation Ireland (02/CE/B124, 07/CE/B1368)
- Ministero dell’Istruzione, dell’Università e della Ricerca
- Natural Environment Research Council (NBAF010005)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
- Health Sciences › Nursing › Nutrition and Dietetics › Infant Nutrition and Health
- Life Sciences › Agricultural and Biological Sciences › Food Science › Probiotics and Fermented Foods
- Keywords
- Bifidobacterium, infant gut microbiota, bacterial diversity, 16S rRNA gene, fecal microbiota, breastfeeding, bottle feeding, mode of delivery, vaginal delivery, cesarean section, maternal microbiota, species co-occurrence, gut commensal bacteria
- MeSH terms
- Base Sequence, Bifidobacterium, Feces, Female, Genes, Bacterial, Humans, Infant, Phylogeny, Pregnancy, RNA, Bacterial, RNA, Ribosomal, 16S, Genetic Variation, DNA Primers, Gastrointestinal Tract, Metagenome
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