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SRX2493187: Prony Hydrothermal Field cultivar genomic sequencing
1 ILLUMINA (Illumina HiSeq 1000) run: 28.8M spots, 6.5G bases, 2.3Gb downloads

Design: Genomic shotgun sequencing (Hiseq): We use Picogreen (Invitrogen) to quantitate genomic DNA samples. DNA is sheared using a Covaris and libraries were constructed with the Nugen Ovation Ultralow Library protocol. We aim for an insert size of 175bp to enable read merging. Amplified libraries are visualized on an Agilent DNA1000 chip or Caliper HiSens Bioanalyzer assay, pooled at equimolar concentrations based on these results, and size selected using a Sage PippinPrep 2% cassette. The library pool is quantified using a Kapa Biosystems qPCR library quantification kit, then sequenced on the Illumina HiSeq1000 in a 2x100 paired-end sequencing run using dedicated read indexing. The samples are demultiplexed with CASAVA 1.8.2.
Submitted by: Marine Biological Laboratory
Study: Alkaliphilus Genome sequencing
show Abstracthide Abstract
Comparative genomics of novel Alkaliphilus species isolated from carbonate chimneys a shallow marine serpentinized site, the Prony Hydrothermal Field, New Caledonia.Culture-based approaches of representative isolates, allowing detailed and reproducible physiological and genomic studies constitutes a key step in understanding the ecophysiological properties of these extremophiles, that is how they adapted to such harsh conditions and how their metabolic activities potentially interact with the geochemistries of their environments. The present proposal aims to sequence the genome of the first alkaliphilic bacteria representative of marine serpentinization-driven ecosystem.
SAMN06229905 • SRS1922728 • All experiments • All runs
Name: Alk_3B
Instrument: Illumina HiSeq 1000
Strategy: WGS
Selection: RANDOM
Layout: PAIRED
Runs: 1 run, 28.8M spots, 6.5G bases, 2.3Gb
Run# of Spots# of BasesSizePublished


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