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SRX9411578: GSM4875443: LP_PAC2_rep1; Lactiplantibacillus plantarum; RNA-Seq
1 ILLUMINA (NextSeq 500) run: 3.6M spots, 539.8M bases, 202.3Mb downloads

Submitted by: NCBI (GEO)
Study: Cranberry proanthocyanidins and dietary oligosaccharides synergistically modulate Lactobacillus plantarum physiology
show Abstracthide Abstract
Plant-based foods contain bioactive compounds such as polyphenols that resist digestion and potentially benefit the host through interactions with their gut microbiome. Based on previous observations, we hypothesized thatprobiotic Lactobacillus plantarum interact with cranberry polyphenols and dietary oligosaccharides to synergistically impact its physiology. In this study, L. plantarum ATCC BAA-793 was grown on dietary oligosaccharides including cranberry xyloglucans, fructooligosaccharides, and human milk oligosaccharidesin conjunction with proanthocyanidins (PACs) extracted from cranberry. As a result, L. plantarum exhibits a differential physiological response to cranberry PACs dependent on the carbohydrate source and polyphenol fraction introduced. Of two extracts evaluated, the PAC1 fraction increased growth regardless of oligosaccharide whereas PAC2 positively modulates growth during xyloglucan metabolism. Interestingly, PAC1 enables ATCC BAA-793 to utilize fructooligosaccharides efficiently as it is unable to ferment this substrate ordinarily. Relative to glucose, oligosaccharide metabolism increases the ratio of secreted acetic acid to lactic acid. The PAC2 fraction differentially increases this ratio during cranberry xyloglucan fermentation compared with PAC1. RNA-seq transcriptomics link expression of putative polyphenol degradation genes, polyphenol degradation profiles, and physiological phenotypes. Overall design: Examination of genes expressed by L. plantarum during fermentations of xyloglucans, human milk oligosaccharides and fructooligosaccharides in combination with two extracts of cranberry proanthocyanidins
Sample: LP_PAC2_rep1
SAMN16617462 • SRS7628165 • All experiments • All runs
Library:
Instrument: NextSeq 500
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: Cells were suspended in lysis buffer in Lysing Matrix E beadbeating tubes to disrupt cell walls with a FastPrep 56624 bead beater. Bead beating was performed twice at 5.5 m/s for 30 seconds with a 1 min incubation on ice. The Ambion RNAqeous protocol was followed and terminated with total RNA elution into 50 μl of EB solution. Then, total RNA were treated for DNA removal. DNA-free extracts were subjected to ribosomal RNA depletion via the Ribo-Zero Magnetic Kit for bacteria and cleaned up with RNeasy MinElute Cleanup Kit. Purified mRNA was used asseses for quality and used for RNA-seq library preparation. mRNA enriched library preparation was performed with the NEBNext Ultra II Directional kit
Experiment attributes:
GEO Accession: GSM4875443
Links:
Runs: 1 run, 3.6M spots, 539.8M bases, 202.3Mb
Run# of Spots# of BasesSizePublished
SRR129588103,598,576539.8M202.3Mb2020-12-01

ID:
12290571

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