Bathyarchaeotal metagenome from Guaymas Basin - SRA

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SRX1630031: Bathyarchaeotal metagenome from Guaymas Basin
1 ILLUMINA (Illumina HiSeq 2000) run: 69.5M spots, 13.9G bases, 8.2Gb downloads

Design: DNA were initially fragmented by Covaris and then tested by electrophoresis used 1% agarose gel. Fragmented DNA was combined with an end repair mix and incubated at 20°C for 30 min. The end-repaired DNA was then purified with a QIAquick PCR Purification Kit (Qiagen). Subsequently the A-tailing mix was added and the mixture was incubated at 37°C for 30 min. The purified 3' ends adenylate DNA with adapter and ligation mix were incubated for the ligation reaction at 20°C for 15 min. After this process, the adapter-ligated DNA was selected by running a 2% agarose gel to recover the target fragments. The gel was purified with a QIAquick Gel Extraction kit (Qiagen), and several rounds of PCR amplification with a PCR primer cocktail and PCR master mix were performed to enrich the adapter-ligated DNA fragments. The PCR products were then selected by running another 2% aga rose gel to recover the target fragments. Gel purification was achieved using a QIAquick Gel Extraction kit (Qiagen), and the final libraries were validated by the average molecule length using an Agilent 2100 Bioanalyzer instrument (Agilent DNA 1000 Reagents) and by real-time q-PCR (Taq-Man Probe). The qualified libraries (with a 350 bp insert size) were amplified on cBot to generate a cluster on the flowcell (TruSeq PE Cluster Kit V3–cBot–HS, Illumina). Pair-end sequencing of the amplified flowcell was performed using HiSeq 2000 System (TruSeq SBS KIT-HS V3, Illumina, at BGI-Shenzhen).

Submitted by: Shanghai Jiaotong University

Study: Bathyarchaeotal metagenome from Guaymas Basin

PRJNA312413 • SRP071694 • All experiments • All runs

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Genomic reconstruction of Bathyarchaeota genomes from Guaymas Basin sediment

Sample: The sediment sample used in this study was collected by push cores at a deep sea vent site at Guaymas Basin (Gulf of California, Mexico) in October 2007 during cruise AT15-25 on Alvin dive 4358. The sediment was oily and the sediment surface was covered with a white microbial mat. Sediment from the upper 10 cm of the push core was transferred to a Pyrex bottle with a butyl rubber stopper, gassed with an anaerobic N2/CO2 gas mixture, and stored anaerobically until analyses were conducted in 2014.

SAMN04508166 • SRS1337578 • All experiments • All runs

Organism: hydrothermal vent metagenome

Library:

Instrument: Illumina HiSeq 2000

Strategy: WGS

Source: METAGENOMIC

Selection: unspecified

Layout: PAIRED

Spot descriptor:

1 forward101 reverse

Runs: 1 run, 69.5M spots, 13.9G bases, 8.2Gb

Run	# of Spots	# of Bases	Size	Published
SRR3223410	69,537,794	13.9G	8.2Gb	2017-03-13

ID:: 2333433

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