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SRX10122055: GSM5090455: S. mutans UA159 grown to OD600 = 0.4 in FMC complete Replicate 1; Streptococcus mutans UA159; RNA-Seq
4 ILLUMINA (NextSeq 500) runs: 17.7M spots, 1.3G bases, 490.5Mb downloads

Submitted by: NCBI (GEO)
Study: The impact of exposure to excess zinc on the transcriptome of Streptococcus mutans
show Abstracthide Abstract
Zinc is a micronutrientient that serves as an important co-factor necessary for enzymatic function. In the host environment, access to metals can be highy restricted. As excess metals can be toxic to the bacterial cell, the host immune system can utilize zinc intoxication as a defense mechanism against bacterial infection. Here, we wanted to identify the transcriptomic response when S. mutans UA159 is exposed to an excess of zinc. Overall design: Streptococcus mutans UA159 was grown in the chemically defined medium FMC. Cultures were grown to mid-exponential phase (OD600 = 0.4). At this point, control samples were harvested for transcriptional profiling. To the remaining samples, 4mM ZnSO4 was added. The incubation of cells was continued to allow for exposure to the excess zinc for 15 or for 90 minutes, at which point these samples were harvested.
Sample: S. mutans UA159 grown to OD600 = 0.4 in FMC complete Replicate 1
SAMN17974835 • SRS8276686 • All experiments • All runs
Library:
Instrument: NextSeq 500
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: SINGLE
Construction protocol: Harvested cells were resuspended in 1mL of RNA Protect Bacteria Reagent (Qiagen). Total RNA was isolated from homogenized S. mutans cell lysates by acid-phenol:chloroform extractions. The nucleic acid was subjected to DNase I digestion (Ambion). The RNA was then purified using the Qiagen RNeasy colum purification kit, including an additional on-column DNase digest. Total RNA was subjected to two rounds of mRNA enrichment using the MICROBExpress Bacterial mRNA Purification kit (ThermoFisher). cDNA libraries with unique barcodes were generated from 100ng enriched mRNA using the NEB Next UltraII Directional RNA Library Prep kit for Illumina (New England Biolabs). Pooled libraries were subjected to RNA deep sequencing at the University of Florida Interdisciplinary Center for Biotechnology Research using the Illumina NextSeq500 platform.
Experiment attributes:
GEO Accession: GSM5090455
Links:
Runs: 4 runs, 17.7M spots, 1.3G bases, 490.5Mb
Run# of Spots# of BasesSizePublished
SRR137345024,452,213336.4M123.1Mb2021-02-19
SRR137345034,368,212330.1M120.9Mb2021-02-19
SRR137345044,505,787340.5M125.9Mb2021-02-19
SRR137345054,371,313330.3M120.7Mb2021-02-19

ID:
13249631

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