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SRX1583668: Metagenome of undisturbed sulfate reducing bioreactor - Con-1
1 ION_TORRENT (Ion Torrent PGM) run: 2.2M spots, 635.5M bases, 1.5Gb downloads

Design: DNA was extracted from a 10 ml sample of all six cultures (Zhou et al., 1996). For metagenome shotgun sequencing, 1.5 μg of the extracted DNA per sample were mechanically fragmentend using Nebulizers (Roche) with 32 psi applied for 3 min, in 500μl nebulization buffer (Roche). The fragmented DNA was purified using MinElute PCR purification columns (Qiagen) and eluted in 50μl low TE (Life Technologies). The entire eluate was used for the preparation of barcoded PGM sequencing libraries with the Ion XpressTM Plus gDNA Fragment Library Preparation kit (manual Pub. No 4471989, Rev. M, May 2013; Life Technologies). Library insert size was between 350 and 400 bp. Libraries were sequenced with the Personal Genome Sequencer (PGM) on 318 Chips (pooled with other samples), using the chemistry for 400 bp libraries. Base calling was performed with the Torrent Suite v3.6 software, with default settings.
Submitted by: CEBITEC BIELEFELD
Study: Transient exposure to oxygen and nitrate reveals ecophysiology of intertidal microbial populations
show Abstracthide Abstract
Microbial communities of intertidal sediments play an important role inglobal chemical cycles. However, little is known about the majority ofmicrobial populations in this dynamic ecosystem, their metabolisms andfunctions, or their response to diurnal disturbances. We used bioreactorsto enrich for sulfate-reducers and fermenters, key players in thesesediments. We then mimicked tidal cycles and investigated the impacts ofoxygen and nitrate on the anaerobic communities. This approach enabled usto gain insights into the ecophysiology of key functional organisms, aswell as into so far uncultivated bacterial clades.
Sample:
SAMN04331586 • SRS1295563 • All experiments • All runs
Library:
Name: Zainab_DNA5_Con-1
Instrument: Ion Torrent PGM
Strategy: WGS
Source: METAGENOMIC
Selection: RANDOM
Layout: SINGLE
Spot descriptor:
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Runs: 1 run, 2.2M spots, 635.5M bases, 1.5Gb
Run# of Spots# of BasesSizePublished
SRR31664602,203,064635.5M1.5Gb2018-01-10

ID:
2237029

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