Diversity of the human intestinal microbial flora, Science, vol.308, pp.1635-1638, 2005. ,
Comparison of bacterial diversity along the human intestinal tract by direct cloning and sequencing of 16S rRNA genes, FEMS Microbiol Ecol, vol.54, pp.219-231, 2005. ,
Microbial communities in the human small intestine: coupling diversity to metagenomics, Future Microbiol, vol.2, pp.285-295, 2007. ,
Diversity of the human gastrointestinal tract microbiota revisited, Environ Microbiol, vol.9, pp.2125-2136, 2007. ,
A human gut microbial gene catalogue established by metagenomic sequencing, Nature, vol.464, pp.59-65, 2010. ,
URL : https://hal.archives-ouvertes.fr/cea-00908974
Metagenomic approaches to unravel the composition and function of the human small intestine microbiota, Intestinal microbiomics: novel indicators of health and disease. Old Herborn University, pp.27-42, 2010. ,
The human small intestinal microbiota is driven by rapid uptake and conversion of simple carbohydrates, ISME J, vol.6, pp.1415-1426, 2012. ,
A metagenomic insight into our gut's microbiome, Gut, vol.62, pp.146-158, 2013. ,
The function of our microbiota: who is out there and what do they do?, Front Cell Infect Microbiol, vol.2, 2012. ,
Metagenomic analysis of the human distal gut microbiome, Science, vol.312, pp.1355-1359, 2006. ,
Polysaccharide utilization by gut bacteria: Potential for new insights from genomic analysis, Nat Rev Microbiol, vol.6, pp.121-131, 2008. ,
DOI : 10.1038/nrmicro1817
The control and consequences of bacterial fermentation in the human colon, J Appl Bacteriol, vol.70, pp.443-459, 1991. ,
Low-digestible carbohydrates in practice, J Am Diet Assoc, vol.108, pp.1677-1681, 2008. ,
DOI : 10.1016/j.jada.2008.07.010
Prebiotics: the concept revisited, J Nutr, vol.137, pp.830-837, 2007. ,
DOI : 10.1093/jn/137.3.830s
URL : https://academic.oup.com/jn/article-pdf/137/3/830S/23505021/830s.pdf
The benefits of probiotics on human health, J Microbial Biochem Technol, vol.1, p.3, 2011. ,
Resistant starch, large bowel fermentation and a broader perspective of prebiotics and probiotics, Benef Microbes, vol.1, pp.423-431, 2010. ,
Oat beta-glucan and xylan hydrolysates as selective substrates for Bifidobacterium and Lactobacillus strains, Appl Microbiol Biotechnol, vol.49, pp.175-181, 1998. ,
DOI : 10.1007/s002530051155
Degradation and fermentation of alpha-gluco-oligosaccharides by bacterial strains from human colon: in vitro and in vivo studies in gnotobiotic rats, J Appl Bacteriol, vol.79, pp.117-127, 1995. ,
In vitro fermentation of linear and alpha-1,2-branched dextrans by the human fecal microbiota, Appl Environ Microbiol, vol.77, pp.5307-5315, 2011. ,
Polydextrose enrichment of infant formula demonstrates prebiotic characteristics by altering intestinal microbiota, organic acid concentrations, and cytokine expression in suckling piglets, J Nutr, vol.141, pp.2139-2145, 2011. ,
Long-term ingestion of lactosucrose increases Bifidobacterium sp. in human fecal flora, Digestion, vol.56, pp.415-420, 1995. ,
DOI : 10.1159/000201269
Prebiotic potential of a refined product containing pectic oligosaccharides, LWT-Food Sci Technol, vol.44, pp.1687-1696, 2011. ,
Inter-species differences in maximum specific growth rates and cell yields of bifidobacteria cultured on oligosaccharides and other simple carbohydrate sources, J Appl Bacteriol, vol.85, pp.381-386, 1998. ,
Prebiotics for prevention of gut infections, Trends in Food Science & Technology, vol.23, pp.70-82, 2012. ,
DOI : 10.1016/j.tifs.2011.08.011
Review article: prebiotics in the gastrointestinal tract, Aliment Pharmacol Ther, vol.24, pp.701-714, 2006. ,
Expression of four bgalactosidases from Bifidobacterium bifidum NCIMB41171 and their contribution on the hydrolysis and synthesis of galactooligosaccharides, Appl Microbiol Biotechnol, vol.84, issue.5, pp.899-907, 2009. ,
A comparative in vitro evaluation of the fermentation properties of prebiotic oligosaccharides, J Appl Microbiol, vol.91, pp.878-887, 2001. ,
In vitro kinetic analysis of oligofructose consumption by Bacteroides and Bifidobacterium spp. indicates different degradation mechanisms, Appl Environ Microbiol, vol.72, pp.1006-1012, 2006. ,
Effect of inulin on the human gut microbiota: stimulation of Bifidobacterium adolescentis and Faecalibacterium prausnitzii, Brit J Nutr, vol.101, pp.541-550, 2009. ,
Oligofructose and long-chain inulin: influence on the gut microbial ecology of rats associated with a human faecal flora, Brit J Nutr, vol.86, pp.291-300, 2001. ,
Prebiotic carbohydrates modify the mucosa-associated microflora of the human large bowel, Gut, vol.53, pp.1610-1616, 2004. ,
Growth requirements and fermentation products of Fusobacterium prausnitzii, and a proposal to reclassify it as Faecalibacterium prausnitzii gen. nov., comb. nov, Int J Syst Evol Microbiol, vol.52, pp.2141-2146, 2002. ,
The genome sequence of Bifidobacterium longum reflects its adaptation to the human gastrointestinal tract, PNAS, vol.99, pp.14422-14427, 2002. ,
Functional and comparative genomic analyses of an operon involved in fructooligosaccharide utilization by Lactobacillus acidophilus, PNAS, vol.100, pp.8957-8962, 2003. ,
Identification of a putative operon involved in fructooligosaccharide utilization by Lactobacillus paracasei, Appl Environ Microbiol, vol.72, pp.7518-7530, 2006. ,
Transcriptional regulation and characterization of a novel beta-fructofuranosidase-encoding gene from Bifidobacterium breve UCC2003, Appl Environ Microbiol, vol.71, pp.3475-3482, 2005. ,
Substrate-driven gene expression in Roseburia inulinivorans: Importance of inducible enzymes in the utilization of inulin and starch, PNAS, vol.108, pp.4672-4679, 2011. ,
Proteome reference map of Lactobacillus acidophilus NCFM and quantitative proteomics towards understanding the prebiotic action of lactitol, Proteomics, vol.11, pp.3470-3481, 2011. ,
Purification and characterization of beta-fructofuranosidase from Bifidobacterium infantis, Biol Pharm Bull, vol.17, pp.596-602, 1994. ,
Transglycosidase activity of Bifidobacterium adolescentis DSM 20083 a-galactosidase, Appl Microbiol Biotechnol, vol.52, pp.681-688, 1999. ,
Secificity of polysaccharide use in intestinal Bacteroides species determines diet-induced microbiota alterations, Cell, vol.141, pp.1241-1252, 2010. ,
Characterization of two b-xylosidases from Bifidobacterium adolescentis and their contribution to the hydrolysis of prebiotic xylooligosaccharides, Appl Microbiol Biotechnol, vol.92, pp.1179-1185, 2011. ,
Human gut microbiome viewed across age and geography, Nature, vol.486, pp.222-228, 2012. ,
Functional metagenomics to mine the human gut microbiome for dietary fiber catabolic enzymes, Genome Res, vol.20, pp.1605-1612, 2010. ,
URL : https://hal.archives-ouvertes.fr/hal-01204274
Isomerization of lactose and lactulose production: review, Trends Food Sci Tech, vol.18, pp.356-364, 2007. ,
Oligosaccharides in human milk: structural, functional, and metabolic aspects, Annu Rev Nutr, vol.20, pp.699-722, 2000. ,
Oligosaccharides of milk and colostrum in non-human mammals, Glycoconjugate J, vol.18, pp.357-371, 2001. ,
Comparative metagenomics revealed commonly enriched gene sets in human gut microbiomes, DNA Res, vol.14, pp.169-181, 2007. ,
The core gut microbiome, energy balance and obesity, J Physiol, vol.587, pp.4153-4158, 2009. ,
A functional analysis of the Bifidobacterium longum cscA and scrP genes in sucrose utilization, Appl Microbiol Biotechnol, vol.72, pp.975-981, 2006. ,
Crystal structures of the apo form of b-fructofuranosidase from Bifidobacterium longum and its complex with fructose, FEBS J, vol.278, pp.1728-1744, 2011. ,
Biosynthesis, purification and characterization of b-fructofuranosidase from Bifidobacterium longum KN29.1, Process Biochem, vol.46, pp.1963-1972, 2011. ,
Recombinant expression and characterization of a reducing-end xylose-releasing exo-oligoxylanase from Bifidobacterium adolescentis, Appl Environ Microbiol, vol.73, pp.5374-5377, 2007. ,
Substrate specificity of three recombinant a-L-arabinofuranosidases from Bifidobacterium adolescentis and their divergent action on arabinoxylan and arabinoxylan oligosaccharides, Biochem Bioph Res Co, vol.402, pp.644-650, 2010. ,
Differential transcriptional response of Bifidobacterium longum to human milk, formula milk, and galactooligosaccharide, Appl Environ Microbiol, vol.74, pp.4686-4694, 2008. ,
Two routes of metabolic cross-feeding between Bifidobacterium adolescentis and butyrateproducing anaerobes from the human gut, Appl Environ Microbiol, vol.72, pp.3593-3599, 2006. ,
Fermentation of fructooligosaccharides and inulin by Bifidobacteria: A comparative study of pure and fecal cultures, Appl Environ Microbiol, vol.71, pp.6150-6158, 2005. ,
Gutassociated bacterial microbiota in paediatric patients with inflammatory bowel disease, Gut, vol.55, pp.1760-1767, 2006. ,
Streptococcus thermophilus strains: Multifunctional lactic acid bacteria, Int Dairy J, vol.20, pp.133-141, 2010. ,
Efficient bioconversion of lactose in milk and whey: immobilization and biochemical characterization of a beta-galactosidase from the dairy Streptococcus thermophilus LMD9 strain, Res Microbiol, vol.161, pp.515-525, 2010. ,
B12 and nutrition. In: Barnejee R editor. Chemistry and biochemistry of B12, pp.343-365, 1999. ,
B12 trafficking in mammals: A for coenzyme escort service, ACS Chem Biol, vol.1, pp.149-159, 2006. ,
The complete coenzyme B12 biosynthesis gene cluster of Lactobacillus reuteri CRL1098, Microbiology, vol.154, pp.81-93, 2008. ,
Impact of microbial transformation of food on health-from fermented foods to fermentation in the gastro-intestinal tract, Curr Opin Biotechnol, vol.22, pp.211-219, 2011. ,
Bias in assessments of marine microbial biodiversity in fosmid libraries as evaluated by pyrosequencing, Isme J, vol.3, pp.792-796, 2009. ,
Quantifying the accessibility of the metagenome by random expression cloning techniques, Environ Microbiol, vol.6, pp.879-886, 2004. ,
Reclassification of Eubacterium formicigenerans Holdeman and Moore 1974 as Dorea formicigenerans gen. nov., comb. nov., and description of Dorea longicatena sp. nov., isolated from human faeces, Int J Syst and Evol Microbiol, vol.52, pp.423-428, 2002. ,
Ecology drives a global network of gene exchange connecting the human microbiome, Nature, vol.480, pp.241-244, 2011. ,
Enterotypes of the human gut microbiome, Nature, vol.473, pp.174-180, 2011. ,
URL : https://hal.archives-ouvertes.fr/cea-00903625
The NIH Human Microbiome Project, Genome Res, vol.19, pp.2317-2323, 2009. ,
A metagenomic b-glucuronidase uncovers a core adaptive function of the human intestinal microbiome, PNAS, vol.108, pp.4539-4546, 2011. ,
CAP3: A DNA sequence assembly program, Genome Res, vol.9, pp.868-877, 1999. ,
DOI : 10.1101/gr.9.9.868
URL : http://genome.cshlp.org/content/9/9/868.full.pdf
MetaGene: prokaryotic gene finding from environmental genome shotgun sequences, Nucleic Acids Res, vol.34, pp.5623-5630, 2006. ,
DOI : 10.1093/nar/gkl723
URL : https://academic.oup.com/nar/article-pdf/34/19/5623/16761555/gkl723.pdf
MEGAN analysis of metagenomic data, Genome Res, vol.17, pp.377-386, 2007. ,
DOI : 10.1101/gr.5969107
URL : http://genome.cshlp.org/content/17/3/377.full.pdf