Unselected Metatranscriptome from 27Jul15 6am - SRA

SRX3854499: Unselected Metatranscriptome from 27Jul15 6am
1 ILLUMINA (Illumina HiSeq 2000) run: 75.3M spots, 15.2G bases, 5.2Gb downloads

Design: Total RNA was extracted from filters using a Qiagen RNeasy Mini Kit modifying the lysis step with the addition of Biospec zirconia/silica beads. Synthetic standards (Ambion ERCC RNA Spike-in mix) were then added based upon estimated total RNA (using extraction values from prior samples collected in this region, Alexander et al. 2015, PNAS). The rest of the Qiagen RNeasy Mini Kit protocol was then followed according to the manufacturer's instructions, incorporating the on-column DNase digestion step, using a Qiagen RNase-free DNase kit. Resulting total RNA was eluted with RNase-free water and then purified and concentrated with an RNeasy MinElute kit according to the manufacturer s instructions. Extracted samples were split into two equal volumes where one volume was sequenced using the polyA pull-down step (Illumina Truseq library preparation kit) to enrich for eukaryotic mRNA (referred to as selected ) and one volume was sequenced skipping the polyA pull-down step (referred to as unselected ). Libraries were sequenced with an Illumina HiSeq 2000 at the Columbia Genome Center. Samples targeting eukaryotic signals (selected) were sequenced to produce 90 million 100-bp, paired-end reads while samples targeting prokaryotic signals (unselected) were sequenced to produce 60 million 100-bp, paired-end reads.

Submitted by: Columbia University

Study: North Pacific Subtropical Gyre diel marine metatranscriptomes

PRJNA437978 • SRP136571 • All experiments • All runs

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Metatranscriptomic samples from the HOE Legacy 2 expedition. Samples are of microbial communities (>5µm) from the surface mixed layer near Station ALOHA, collected every 4 hours. Each sample was sequenced in two ways, 1) polyA pulldown to target eukaryotic organisms and 2) total RNA sequenced to target rRNA and particle-associated prokaryotic organisms.

Sample: HOE Legacy II diel metatranscriptome Station 16

SAMN08738429 • SRS3098547 • All experiments • All runs

Organism: marine metagenome

Library:

Name: 27Jul15_6am_unselected

Instrument: Illumina HiSeq 2000

Strategy: RNA-Seq

Source: METATRANSCRIPTOMIC

Selection: other

Layout: PAIRED

Runs: 1 run, 75.3M spots, 15.2G bases, 5.2Gb

Run	# of Spots	# of Bases	Size	Published
SRR6905820	75,257,788	15.2G	5.2Gb	2018-08-11

ID:: 5300515

SRA

Sequence Read Archive

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