Bifidobacterium population analysis in the infant gut by direct mapping of genomic hybridization patterns: potential for monitoring temporal development and effects of dietary regimens

被引:22
作者
Boesten, Rolf [1 ,2 ]
Schuren, Frank [1 ]
Ben Amor, Kaouther [3 ]
Haarman, Monique [3 ]
Knol, Jan [3 ]
de Vos, Willem M. [2 ,4 ]
机构
[1] TNO Qual Life, Dept Microbiol, Zeist, Netherlands
[2] Wageningen Univ, Microbiol Lab, Wageningen, Netherlands
[3] Danone Res, Ctr Specialised Nutr, Wageningen, Netherlands
[4] Univ Helsinki, Dept Vet Biosci, Helsinki, Finland
来源
MICROBIAL BIOTECHNOLOGY | 2011年 / 4卷 / 03期
关键词
16S RIBOSOMAL-RNA; FORMULA-FED INFANTS; REAL-TIME PCR; INTESTINAL MICROFLORA; BREAST-MILK; RAPID IDENTIFICATION; MUCOSAL ADHESION; FECAL SAMPLES; BACTERIAL; MICROBIOTA;
D O I
10.1111/j.1751-7915.2010.00216.x
中图分类号
Q81 [生物工程学(生物技术)]; Q93 [微生物学];
学科分类号
071005 ; 0836 ; 090102 ; 100705 ;
摘要
P>A bifidobacterial mixed-species microarray platform was used in a proof-of-principle study to address the composition and development of bifidobacteria in DNA extracted from faecal samples. These were collected in a time-course of 2 years since birth and derived from human infants that were breastfed, standard formula-fed or received a prebiotic formula during their weaning period. A set of over 50 samples was analysed, testifying for the throughput of the designed platform for multiple genome hybridizations. The generated data revealed that faecal samples of breastfed infants contained a high abundance of genomic DNA homologous to Bifidobacterium breve. In contrast, faecal samples from standard formula-fed infants lacked detectable amounts of this B. breve DNA but contained genes with high similarity to B. longum. Remarkably, infants that received breastmilk and later a prebiotic formula consisting of a standard formula milk containing a mixture of specific galacto- and fructo-oligosaccharides, continued to harbour a B. breve-dominant faecal population. One infant that received standard formula in combination with the additional B. lactis Bb12 culture, contained significant amounts of faecal DNA belonging to Bb12 but only during the period of ingestion. The microarray platform showed sufficient sensitivity to analyse the B. breve group at the strain level. Overall, the B. breve populations observed in the faecal samples of the studied infants showed a stable composition over time and were unique per infant. In conclusion, our results show the applicability of comparative genome hybridization to study bifidobacterial populations in infant faecal samples without the use of any amplification step.
引用
收藏
页码:417 / 427
页数:11
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