Page 53 - Read Online

Klaassens et al. Microbiome Res Rep 2024;3:38 https://dx.doi.org/10.20517/mrr.2024.13 Page 19 of 19

packages/vegan/index.html. [Last accessed on 27 Jun 2024].
39. Wichham H. ggplot2: elegant graphics for data analysis. 2nd edition. New York: Springer Cham. 2016. DOI
40. Casaburi G, Frese SA. Colonization of breastfed infants by Bifidobacterium longum subsp. infantis EVC001 reduces virulence gene
abundance. Hum Microbiome J 2018;9:7-10. DOI
41. Alba C, Carrera M, Álvarez-Calatayud G, Arroyo R, Fernández L, Rodríguez JM. Evaluation of safety and beneficial health effects of
the human-milk strain Bifidobacterium breve DSM32583: an infant pilot trial. Nutrients 2024;16:1134. DOI PubMed PMC
42. Rodríguez-Sojo MJ, Ruiz-Malagón AJ, Rodríguez-Cabezas ME, Gálvez J, Rodríguez-Nogales A. Limosilactobacillus fermentum
CECT5716: mechanisms and therapeutic insights. Nutrients 2021;13:1016. DOI PubMed PMC
43. Lagkouvardos I, Intze E, Schaubeck M, et al. Early life gut microbiota profiles linked to synbiotic formula effects: a randomized
clinical trial in European infants. Am J Clin Nutr 2023;117:326-39. DOI PubMed
44. Piloquet H, Vrignaud B, Gillaizeau F, et al; GOLF III Study Group. Efficacy and safety of a synbiotic infant formula for the prevention
of respiratory and gastrointestinal infections: a randomized controlled trial. Am J Clin Nutr 2024;119:1259-69. DOI PubMed
45. Maldonado J, Gil-Campos M, Maldonado-Lobón JA, et al. Evaluation of the safety, tolerance and efficacy of 1-year consumption of
infant formula supplemented with Lactobacillus fermentum CECT5716 Lc40 or Bifidobacterium breve CECT7263: a randomized
controlled trial. BMC Pediatr 2019;19:361. DOI PubMed PMC
46. Rycroft CE, Jones MR, Gibson GR, Rastall RA. Fermentation properties of gentio-oligosaccharides. Lett Appl Microbiol 2001;32:156-
61. DOI PubMed
47. Yu X, Gurry T, Nguyen LTT, Richardson HS, Alm EJ. Prebiotics and community composition influence gas production of the human
gut microbiota. mBio 2020;11:e00217-20. DOI PubMed PMC
48. Roager HM, Stanton C, Hall LJ. Microbial metabolites as modulators of the infant gut microbiome and host-microbial interactions in
early life. Gut Microbes 2023;15:2192151. DOI PubMed PMC
49. Pham VT, Lacroix C, Braegger CP, Chassard C. Early colonization of functional groups of microbes in the infant gut. Environ
Microbiol 2016;18:2246-58. DOI PubMed
50. Asnicar F, Manara S, Zolfo M, et al. Studying vertical microbiome transmission from mothers to infants by strain-level metagenomic
profiling. mSystems 2017;2:e00164-16. DOI PubMed PMC
51. Campana R, van Hemert S, Baffone W. Strain-specific probiotic properties of lactic acid bacteria and their interference with human
intestinal pathogens invasion. Gut Pathog 2017;9:12. DOI PubMed PMC
52. Vatanen T, Plichta DR, Somani J, et al. Genomic variation and strain-specific functional adaptation in the human gut microbiome
during early life. Nat Microbiol 2019;4:470-9. DOI PubMed PMC
53. Goussarov G, Claesen J, Mysara M, et al. Accurate prediction of metagenome-assembled genome completeness by MAGISTA, a
random forest model built on alignment-free intra-bin statistics. Environ Microbiome 2022;17:9. DOI PubMed PMC
54. Chan YH, Shek LPC, Aw M, Quak SH, Lee BW. Use of hypoallergenic formula in the prevention of atopic disease among Asian
children. J Paediatr Child Health 2002;38:84-8. DOI PubMed
55. Nentwich I, Pazdírková A, Lokaj J, Szepfalusi Z, Hrstková H. [Early feeding in infancy and atopic dermatitis - a prospective
observational study]. Klin Padiatr 2009;221:78-82. DOI PubMed
56. Vandenplas Y, Latiff AHA, Fleischer DM, et al. Partially hydrolyzed formula in non-exclusively breastfed infants: a systematic review
and expert consensus. Nutrition 2019;57:268-74. DOI PubMed
57. Kok CR, Brabec B, Chichlowski M, et al. Stool microbiome, pH and short/branched chain fatty acids in infants receiving extensively
hydrolyzed formula, amino acid formula, or human milk through two months of age. BMC Microbiol 2020;20:337. DOI PubMed
PMC
58. von Wright A. Regulating the safety of probiotics - the European approach. Curr Pharm Des 2005;11:17-23. DOI PubMed
59. Salminen S, Stahl B, Vinderola G, Szajewska H. Infant formula supplemented with biotics: current knowledge and future perspectives.
Nutrients 2020;12:1952. DOI PubMed PMC
60. Almeida CC, Mendonça Pereira BF, Leandro KC, Costa MP, Spisso BF, Conte-Junior CA. Bioactive compounds in infant formula and
their effects on infant nutrition and health: a systematic literature review. Int J Food Sci 2021;2021:8850080. DOI PubMed PMC
61. Heppner N, Reitmeier S, Heddes M, et al. Diurnal rhythmicity of fecal microbiota and metabolite profiles in the first year of life: a
randomized controlled interventional trial with infant formula. bioRxiv. [Preprint] Oct 19, 2023. [accessed on 2024 Jun 26]. Available
from: https://www.biorxiv.org/content/10.1101/2023.10.19.563092v1.