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SRX11083719: GSM5362305: FIL_RNA-1 (Filament cells, biological replicate 1); Ustilago maydis; RNA-Seq
1 ILLUMINA (Illumina MiSeq) run: 5.8M spots, 1.7G bases, 887.8Mb downloads

Submitted by: NCBI (GEO)
Study: Comparison of extracellular vesicle and filamentous cell transcriptomes of Ustilago maydis
show Abstracthide Abstract
The coding transcriptomes of filamentous cultures of the maize smut fungus Ustilago maydis and their extracellular vesicles (EVs) were compared. Protein-coding transcripts relatively enriched in EVs versus filament cells were identified and examined to identify potentially functional mRNA cargos of U. maydis EVs. Overall design: Poly(A)-enriched libraries were generated from four biological replicates each of Mock- (PBS) and RNase-treated extracellular vesicle preparations and the corresponding filamentous cells (4 biological replicates x 3 samples each). Sequencing was carried out on Illumina MiSeq platform with v3 chemistry (2x 150 bp paired-end sequencing).
Sample: FIL_RNA-1 (Filament cells, biological replicate 1)
SAMN19594797 • SRS9149381 • All experiments • All runs
Organism: Ustilago maydis
Library:
Instrument: Illumina MiSeq
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: Cells and EVs were snap frozen and stored at -80 degrees Celsius until extraction. RNA was extracted from EVs and filament samples using standard methods for TRI-reagen LS (Sigma) and TRI-reagent (Sigma), respectively. Extracted RNA was treated with DNase I (ThermoFisher) and re-extracted with TRI-reagent LS. Coprecipitant GlycoBlueTM (ThermoFisher) was used for EV RNA samples for the first extraction and for all samples in the re-extraction. Libraries for sequencing were generated with NEBNext® Ultra™ II Directional RNA Library Prep Kit for Illumina together with NEBNext® Poly(A) mRNA Magnetic Isolation Module according to the manufacturer's instructions.
Experiment attributes:
GEO Accession: GSM5362305
Links:
Runs: 1 run, 5.8M spots, 1.7G bases, 887.8Mb
Run# of Spots# of BasesSizePublished
SRR147500215,763,9191.7G887.8Mb2021-06-09

ID:
14752117

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