|
| Status |
Public on Jan 01, 2021 |
| Title |
bumS+Butyrate1 |
| Sample type |
SRA |
| |
|
| Source name |
Bacterial
|
| Organism |
Campylobacter jejuni |
| Characteristics |
strain: 81-176
genotype/variation: bumS
treatment: 12.5 mM butyrate
molecule: rRNA-depleted RNA
|
| Treatment protocol |
Treatment included growth in the presence or absence of 12.5 mM butyrate
|
| Growth protocol |
Cultures were grown in Campylobacter defined medium as outlined in the manuscript.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
PureLink Mini RNA (Invitrogen)
Strand-Specific RNAseq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
Grown in presence of 12.5 mM butyrate
|
| Data processing |
Reads were trimmed at the 5' and 3' ends to remove ambiguous nucleotides using CLC Genomics Software
Reads were then mapped to Campylobacter jejuni 81-176 using CLC Genomics Software
RPKM values were calculated using CLC Genomics Software
Comparisons were made between relevant genotypes and considered significant if different by a log2 value > |2| with an FDR p-value < 0.05
Genome_build: Campylobacter jejuni 81-176
|
| |
|
| Submission date |
Jan 02, 2020 |
| Last update date |
Jan 01, 2021 |
| Contact name |
Matthew Powers |
| E-mail(s) |
powersmj@uga.edu
|
| Organization name |
University of Georgia
|
| Street address |
501 DW Brooks Dr
|
| City |
Athens |
| State/province |
GA |
| ZIP/Postal code |
30602 |
| Country |
USA |
| |
|
| Platform ID |
GPL27965 |
| Series (1) |
| GSE142852 |
Campylobacter jejuni butyrate resopnse |
|
| Relations |
| BioSample |
SAMN13710040 |
| SRA |
SRX7493835 |
