|
| Status |
Public on Jun 20, 2018 |
| Title |
bg |
| Sample type |
SRA |
| |
|
| Source name |
bacterial culture
|
| Organism |
Staphylococcus aureus |
| Characteristics |
strain: T23
age: 4 h
condition: without V12CBD
|
| Growth protocol |
S. aureus T23 was cultured in the presence and absence of 25 μg/ml V12CBD for 4 h at 37°C
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using RNeasy Protect Bacteria Midi Kit (Qiagen) following the manufacturer’s instructions. RNA integrity and quantity were checked using an Agilent 2100 Bioanalyzer (Agilent Technologies) and NanoDrop 2000 spectrophotometer (Thermo Scientific). The cDNA libraries were constructed using Illumina TruSeqTM RNA Sample Prep Kit (Illumina) according to the manufacturer’s instructions.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Primary data analysis, including base calling and quality scoring is, performed by real-time analysis or RTA on the instrument.
Raw sequenced reads were quality filtered and trimmed for Illumina-adapter contamination using fastq-mcf. Remaining reads were aligned to the genome of the S. aureus NCTC 8325. Minimal sequence matches of 30 nucleotides with a minimal sequence homology of 93.33% were included. Mapped reads were aligned and counted using Rockhopper.
Raw mapped read counts were normalized to reads per Kilo bases per Million (RPKM).
Genome_build: S. aureus NCTC 8325
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample
|
| |
|
| Submission date |
Jun 19, 2018 |
| Last update date |
Jun 20, 2018 |
| Contact name |
Hang Yang |
| E-mail(s) |
yangh@wh.iov.cn
|
| Organization name |
Wuhan Institute of Virology, Chinese Academy of Sciences
|
| Street address |
44 Xiaohongshan
|
| City |
Wuhan |
| State/province |
Hubei |
| ZIP/Postal code |
430071 |
| Country |
China |
| |
|
| Platform ID |
GPL24034 |
| Series (1) |
| GSE115993 |
Next Generation Sequencing Analysis of S. aureus cultured in the presence/absence of V12CBD |
|
| Relations |
| BioSample |
SAMN09456464 |
| SRA |
SRX4240209 |
