|
| Status |
Public on Apr 28, 2021 |
| Title |
abaR_1 |
| Sample type |
SRA |
| |
|
| Source name |
ΔabaR
|
| Organism |
Acinetobacter baumannii ATCC 17978 |
| Characteristics |
strain: ATCC 17978
genotype: markerless deletion of abaR gene
|
| Growth protocol |
A. baumannii strains were grown in lysogeny broth (LB)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from three biological replicates of each strain with a GeneMark Total RNA Purification Kit.
RNA libraries were prepared and sequenced with Illumina HiSeq2000 at the Beijing Genomics Institute (BGI).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
ΔabaR_1
|
| Data processing |
Sequences were mapped to the ATCC 17978 genome (accession No.cp018664.1) using Bowtie2.
Differentially expressed genes were identified using the DESeq2 package (Bioconductor)
Genes were deemed as differentially expressed if they presented a log2-fold change greater than 1 or less than −1 and P value (P-adj) was less than 0.05 in mutant strain compared to WT strain.
Genome_build: ATCC 17978
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample
|
| |
|
| Submission date |
Apr 27, 2021 |
| Last update date |
Apr 28, 2021 |
| Contact name |
Xiaoyu Sun |
| E-mail(s) |
[email protected]
|
| Phone |
+8618843014809
|
| Organization name |
Jilin university
|
| Street address |
Xinmin street
|
| City |
Changchun |
| ZIP/Postal code |
130021 |
| Country |
China |
| |
|
| Platform ID |
GPL23922 |
| Series (1) |
| GSE173396 |
The abaI/abaR quorum sensing system effects pathogenicity in Acinetobacter baumannii |
|
| Relations |
| BioSample |
SAMN18879468 |
| SRA |
SRX10687257 |
