WGS of healthy adult gut metagenomes in the 500FG cohort: Subject HV... - SRA

SRX2441909: WGS of healthy adult gut metagenomes in the 500FG cohort: Subject HV473
1 ILLUMINA (Illumina HiSeq 2000) run: 31.6M spots, 6.2G bases, 2.4Gb downloads

Design: DNA extraction from stool carried out using the the AllPrep DNA/RNA Mini Kit (QIAGEN) with the addition of mechanical lysis. DNA samples were subsequently quantified by Quant-iT PicoGreen dsDNA Assay (Life Technologies) and normalized to aconcentration of 50 pg/mL.Whole-genome shotgun sequencing libraries were prepared according to the manufacturer's instructions using the Nextera XT DNA Library Preparation kit (Illumina) with 100-250 pg input DNA. Libraries were pooled by transferring equal volumes of each library using a Labcyte Echo 550 liquid handler. The concentrations and insert size ranges for each pooled library were checked using an Agilent Bioanalyzer DNA 1000 kit (Agilent Technologies). Libraries were subsequently sequenced on the Illumina HiSeq 2000 platform in paired-end mode (2x101bp) targeting $2.5Gb of sequences per sample.

Submitted by: Broad Institutue

Study: Gut microbial interactions with the inflammatory cytokine production capacity

PRJNA319574 • SRP095580 • All experiments • All runs

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As part of the 500 Functional Genomics (500FG) project, stool samples from 471 healthy adults were subjected to metagenomic shotgun sequencing (one time point per individual). Concurrently, blood samples were collected from each individual and the cytokine production was measured in response to bacterial and fungal stimulations. Significant inter-individual variation was observed in the gut microbial profiles as well as the immunological profiles. Subsequent association testing showed that microbiome-host interactions modulate the inflammatory cytokine production capacity in healthy individuals.

Sample:

SAMN06110206 • SRS1876498 • All experiments • All runs

Organism: human gut metagenome

Library:

Name: G88933_pe

Instrument: Illumina HiSeq 2000

Strategy: WGS

Source: METAGENOMIC

Selection: RANDOM

Layout: PAIRED

Runs: 1 run, 31.6M spots, 6.2G bases, 2.4Gb

Run	# of Spots	# of Bases	Size	Published
SRR5127631	31,583,139	6.2G	2.4Gb	2016-12-28

ID:: 3545557

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