|
| Status |
Public on Sep 18, 2023 |
| Title |
Lm planktonic cells in cantaloupe juice, biolog rep 2, technical rep1 |
| Sample type |
SRA |
| |
|
| Source name |
planktonic cell
|
| Organism |
Listeria monocytogenes |
| Characteristics |
agent: cantaloupe juice
cell type: planktonic cell
genotype: WT
|
| Treatment protocol |
Planktonic cells were collected after 48h incubation and biofilm cells were harvested from stainless steel coupons after 3 days incubation via sonication.
|
| Growth protocol |
Listeria monocytogenes FS2025 (serotype 1/2b, ST5, CC5) was grown in cantaloupe juice or TSB at 24C statically.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Invitrogen RiboPure™ Bacteria Kit (ThermoFisher Scientific).
RNA libraries for RNA Seq were prepared using Illumina Stranded Total RNA Prep, Ligation with Ribo-Zero™ Plus kit following manufacturer's instructions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
FastQC was used to check the quality of the sequence reads.
Read counts were generated using Salmon v1.9.0.
Supplementary files format and content: tab-delimited .sf files including raw counts and tpm values for each sample
|
| |
|
| Submission date |
Sep 18, 2023 |
| Last update date |
Sep 19, 2023 |
| Contact name |
Jie Zheng |
| E-mail(s) |
jie.zheng@fda.hhs.gov
|
| Phone |
4106246216
|
| Organization name |
FDA
|
| Street address |
5001 Campus Drive
|
| City |
College Park |
| State/province |
MD |
| ZIP/Postal code |
20740 |
| Country |
USA |
| |
|
| Platform ID |
GPL26477 |
| Series (1) |
| GSE243459 |
Microscopic and transcriptomic characterization of Listeria monocytogenes aggregation and biofilm formation on stainless steel surfaces in the presence of cantaloupe juice extract |
|
| Relations |
| BioSample |
SAMN37443343 |
| SRA |
SRX21817558 |
