|
| Status |
Public on Nov 16, 2022 |
| Title |
Acinetobacter baumannii NCCP 16007 |
| Sample type |
SRA |
| |
|
| Source name |
Mid-exponential phase (OD=0.4-0.5)
|
| Organism |
Acinetobacter baumannii |
| Characteristics |
cell type: Bacterial cells
strain: NCCP 16007
cell type: Mid-exponential phase (OD=0.4-0.5)
genotype: WT
|
| Growth protocol |
Exponential phase on LB (Luria-Berani) media
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from the mid-exponentially grown both WT and EAB strains (OD600~0.5) using the RNeasy Mini Kit (Qiagen, Germany) according to the manufacturer’s instructions.
Illumina sequencing library was constructed by the TruSeq Stranded Total RNA with Ribo-Zero Plus (Illumina, San Diego, CA, USA) following the manufacturer's protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
RNA sequencing was performed on an Illumina Novaseq 6000 platform.
The reference genome sequence was retrieved from the NCBI database.
Quality-filtered reads were aligned to the reference genome sequence using Bowtie2.
The relative abundance of transcripts is presented as FPKM (Fragments Per Kilobase of transcript per Million).
Assembly: PRJNA800215
Supplementary files format and content: tab-delimited text files include FPKM values for each Sample
|
| |
|
| Submission date |
Nov 12, 2022 |
| Last update date |
Nov 16, 2022 |
| Contact name |
sohyeon yun |
| E-mail(s) |
[email protected]
|
| Phone |
01048466830
|
| Organization name |
laboratory of molecular environmental microbiology
|
| Street address |
Anam-ro 145
|
| City |
Seongbuk-gu |
| ZIP/Postal code |
02841 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL28641 |
| Series (1) |
| GSE217840 |
RNA-seq of evolved strains from Acinetobacter baumannii NCCP 16007 |
|
| Relations |
| BioSample |
SAMN31700847 |
| SRA |
SRX18242989 |
