Genome analysis of Bifidobacterium bifidum PRL2010 reveals metabolic pathways for host-derived glycan foraging
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The human intestine is densely populated by a microbial consortium whose metabolic activities are influenced by, among others, bifidobacteria. However, the genetic basis of adaptation of bifidobacteria to the human gut is poorly understood. Analysis of the 2,214,650-bp genome of Bifidobacterium bifidum PRL2010, a strain isolated from infant stool, revealed a nutrient-acquisition strategy that targets host-derived glycans, such as those present in mucin. Proteome and transcriptome profiling revealed a set of chromosomal loci responsible for mucin metabolism that appear to be under common transcriptional control and with predicted functions that allow degradation of various O-linked glycans in mucin. Conservation of the latter gene clusters in various B. bifidum strains supports the notion that host-derived glycan catabolism is an important colonization factor for B. bifidum with concomitant impact on intestinal microbiota ecology.
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Using a Putative Operon Value (POV), 40 operons comprising three or more unique COGs were predicted in B. bifidum reference strain PRL2010.
“Genomic organization of the B. bifidum reference strain PRL2010 [89] using a Putative Operon Value (POV), predicted 40 operons comprising three or more unique COGs [ Supplementary Table 11].”
From Genome-scale insights into the metabolic landscape and evolutionary development of Bifidobacterium bifidum (2026) · cites this paper as [89]
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- Authors
- Turroni, F., Bottacini, F., Foroni, E., Mulder, I., Kim, J.-H., Zomer, A., Sánchez, B., Bidossi, A., Ferrarini, A., Giubellini, V., Delledonne, M., Henrissat, B., Coutinho, P., Oggioni, M., Fitzgerald, G. F., Mills, D., Margolles, A., Kelly, D., van Sinderen, D., & Ventura, M.
- Affiliations
- University of Parma (IT)
- University of Aberdeen (GB)
- University of California, Davis (US)
- APC Microbiome Institute (IE)
- Consejo Superior de Investigaciones Científicas (ES)
- University of Siena (IT)
- University of Verona (IT)
- Aix-Marseille Université (FR)
- National University of Ireland (IE)
- Departamento de Microbiologia y Bioquimica de Productos Lacteos, Instituto de Productos Lácteos de Asturias Consejo Superior de Investigaciones Científicas, Villaviciosa, 3300 Asturias, Spain;
- Alimentary Pharmabiotic Centre and
- ORCID
- Venue
- Proceedings of the National Academy of Sciences
- Publisher
- National Academy of Sciences
- Published
- 2010-10-25
- Volume
- 107
- Issue
- 45
- Pages
- 19514-19519
- ISSN
- 0027-8424 (ISSN-L)
- 1091-6490
- PMC
- PMC2984195
- OpenAlex
- W2079031212
- Cited by
- 364
- References
- 48
- Citations by year
- 2026: 11 · 2025: 15 · 2024: 28 · 2023: 17 · 2022: 18 · 2021: 21 · 2020: 28 · 2019: 19 · 2018: 18 · 2017: 27 · 2016: 29 · 2015: 26 · 2014: 24 · 2013: 28 · 2012: 35
- FWCI
- 10.68
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Locations
- Proceedings of the National Academy of Sciences (publishedVersion)
- Europe PMC (PubMed Central) (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Archivio istituzionale della ricerca (Alma Mater Studiorum Università di Bologna) (submittedVersion)
- DIGITAL.CSIC (Spanish National Research Council (CSIC)) (submittedVersion)
- Funders
- Science Foundation Ireland (07/CE/B1368)
- National Institutes of Health
- National Institute of Child Health and Human Development
- Eunice Kennedy Shriver National Institute of Child Health and Human Development (R01HD061923)
- 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
- mucin degradation, O-linked glycans, nutrient acquisition, intestinal colonization, infant gut microbiota, gene clusters, transcriptional regulation
- MeSH terms
- Bifidobacterium, Feces, Multigene Family, Humans, Infant, Newborn, Intestines, Molecular Sequence Data, Mucins, Polysaccharides, Genome, Bacterial, Gene Expression Profiling, Genomics, Metabolic Networks and Pathways, Host-Pathogen Interactions
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 ›
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