Comparative transcriptomics reveals key differences in the response to milk oligosaccharides of infant gut-associated bifidobacteria

Scientific Reports
Daniel GarridoD A Mills

Abstract

Breast milk enhances the predominance of Bifidobacterium species in the infant gut, probably due to its large concentration of human milk oligosaccharides (HMO). Here we screened infant-gut isolates of Bifidobacterium longum subsp. infantis and Bifidobacterium bifidum using individual HMO, and compared the global transcriptomes of representative isolates on major HMO by RNA-seq. While B. infantis displayed homogeneous HMO-utilization patterns, B. bifidum were more diverse and some strains did not use fucosyllactose (FL) or sialyllactose (SL). Transcriptomes of B. bifidum SC555 and B. infantis ATCC 15697 showed that utilization of pooled HMO is similar to neutral HMO, while transcriptomes for growth on FL were more similar to lactose than HMO in B. bifidum. Genes linked to HMO-utilization were upregulated by neutral HMO and SL, but not by FL in both species. In contrast, FL induced the expression of alternative gene clusters in B. infantis. Results also suggest that B. bifidum SC555 does not utilize fucose or sialic acid from HMO. Surprisingly, expression of orthologous genes differed between both bifidobacteria even when grown on identical substrates. This study highlights two major strategies found in Bifidobacterium species t...Continue Reading

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Citations

Aug 19, 2016·Frontiers in Microbiology·Lorena RuizBorja Sánchez
Nov 12, 2016·Seminars in Perinatology·Mark A Underwood
Oct 5, 2017·International Journal of Molecular Sciences·Daniel A MedinaDaniel Garrido
Jul 8, 2016·Nature·Mark R CharbonneauJeffrey I Gordon
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Oct 30, 2016·Applied and Environmental Microbiology·Muireann EganDouwe van Sinderen
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Oct 7, 2017·Cellular and Molecular Life Sciences : CMLS·Francesca TurroniMarco Ventura
May 28, 2019·Molecular Nutrition & Food Research·Sabine KuntzSilvia Rudloff
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Nov 14, 2020·Environmental Microbiology·Jonathon A BriggsHarry Brumer
Nov 24, 2020·Frontiers in Microbiology·Kevin J González-MoreloDaniel Garrido

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Datasets Mentioned

BETA
GSE58773

Methods Mentioned

BETA
PCA
RNA-Seq
phosphotransferase
PCR
Electrophoresis
Assay
Illumina sequencing
RNA Assay
Chip
ChIP-Seq

Software Mentioned

DnaSP
CLUSTAL W
IMG
BioEdit
R package “ DESeq
Molecular Evolutionary Genetic Analysis ( MEGA )
SPSS
Bio Genomics Workbench
SRI Pathway Tools
IMG Expert

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