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SRX10045410: sRNA-Seq of mesocosm
1 ILLUMINA (Illumina MiSeq) run: 7.2M spots, 359.2M bases, 124.4Mb downloads

Design: To eliminate RNA molecules that are not packed into vesicles, we subjected vesicle samples to RNase treatment prior to RNA extraction. Total RNA from vesicles was extracted using the miRNeasy kit (Qiagen). Libraries were prepared using the TruSeq Small RNA Library kit (Illumina). After 15 cycles of PCR amplification, libraries were cleaned with the QIAquick PCR Purification Kit (Qiagen). All the kits were used according to the manufacturers instructions.
Submitted by: Weizmann Institute of Science
Study: Aquacosm VIMS-Ehux Variation
show Abstracthide Abstract
The cosmopolitan coccolithophore Emiliania huxleyi is a unicellular alga that forms massive oceanic blooms covering thousands of square kilometers (Tyrrell and Merico 2004). The intricate calcite exoskeleton of E. huxleyi accounts for 1/3 of total marine CaCO3 production (Monteiro et al. 2016). E. huxleyi blooms are an important source of DMS, which is, by far, the most abundant volatile sulfur compound in the surface ocean and the best studied aerosol precursor (Simo 2001) with a significant climate-regulating role that enhances cloud formation (Alcolombri et al. 2015; Simo 2001). Biotic interactions that regulate the fate of these blooms play a profound role in determining carbon and nutrient cycling in the ocean and feedback to the atmosphere. Annual E. huxleyi spring blooms are frequently terminated following infection by a specific large dsDNA virus (EhV) that belongs to the Coccolithovirus group (Schroeder et al. 2002). Despite the huge ecological importance of host-virus interactions, the ability to assess their ecological impact is limited to questions that focus mainly on quantification of viral abundance and diversity in a reductionist manner.The project in which this dataset was collected is a holistic approach to untangle the complexity in alga-virus-bacterium interactions during an E. huxleyi bloom, their effect on the metabolome of the phycosphere, and their possible implications to C and S cycles. The project took place for 24 days, including daily sampling for various biological and physiochemical parameters. Flow cytometry was used to monitor different populations of phytoplankton, bacteria and virus-like particles (VLP). Additionally, physiochemical properties of the water such as salinity, temperature and nutrient concentrations were acquired. These data compose the contextual data for various scientific papers currently under preparation, coupled to sequencing efforts.
Sample: Extracellular vesicles from bags 1-4 (concentrate of 100 L total)
SAMN17827889 • SRS8209805 • All experiments • All runs
Library:
Name: Mes-Ves_2
Instrument: Illumina MiSeq
Strategy: miRNA-Seq
Source: METATRANSCRIPTOMIC
Selection: size fractionation
Layout: SINGLE
Runs: 1 run, 7.2M spots, 359.2M bases, 124.4Mb
Run# of Spots# of BasesSizePublished
SRR136484427,183,026359.2M124.4Mb2022-02-01

ID:
13172986

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