U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

ERX2112288: Illumina MiSeq sequencing; qiita_ptid_3187:11116.L12A068.1195392
1 ILLUMINA (Illumina MiSeq) run: 75,844 spots, 20.8M bases, 10.4Mb downloads

Design: equimolar mix of pool members for Illumina HiSeq sequencing
Submitted by: University of California San Diego Microbiome Initiative (University of California San Diego Microbiome Init)
Study: Maize root microbiota
Sample: 11116.L12A068.1195392
SAMEA104184872 • ERS1843890 • All experiments • All runs
Library:
Name: 11116.L12A068.1195392
Instrument: Illumina MiSeq
Strategy: OTHER
Source: METAGENOMIC
Selection: PCR
Layout: SINGLE
Construction protocol: Maize roots-associated soil DNA was extracted using MoBio PowerSoil -htp 96 well soil DNA isolation kits. Partial bacterial 16S rRNA genes from maize rhizosphere microbiota were amplified by using an Illumina primer pair. The Illumina primer pair contained a composite forward 515F primer with an Illumina-specific linker sequence, and a reverse 806R primer with unique 12-bp Golay indexes to multiplex the samples, and an Illumina-specific linker sequence. The PCR conditions were as described previously (Caporaso et al., 2011). Each DNA sample was amplified in triplets, and the triplets were pooled on the Eppendorf EpMotion automated pipetting system. The quality of amplification was checked using agarose gel electrophoreses. The pooled amplicons were purified with MagBind E-Z Pure beads, and were quantitated using Quant-iT PicoGreen dsDNA kits. The concentrations of samples were normalized, and the samples were mixed to make an equimolar library.
Experiment attributes: (show all 11 attributes...) (hide...)
barcode: TAGAGCCGTTA
center_name: Maize
linker: GT
pcr_primers: FWD:GTGYCAGCMGCCGCGGTAA; REV:GGACTACNVGGGTWTCTAAT
primer: GTGTGYCAGCMGCCGCGGTAA
run_center: JGI
run_prefix: M1893.7297.1.65270
sample_center: Cornell
sequencing_meth: sequencing by synthesis
target_gene: 16S rRNA
target_subfragment: V4
Runs: 1 run, 75,844 spots, 20.8M bases, 10.4Mb
Run# of Spots# of BasesSizePublished
ERR205317775,84420.8M10.4Mb2018-05-10

ID:
5546772

Supplemental Content

Search details

See more...

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...