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| Status |
Public on Apr 07, 2024 |
| Title |
Transcriptome profiling of Pseudomonas syringae pv. syringae 9644 in rich media and hrp-inducing minimum media |
| Organism |
Pseudomonas syringae pv. syringae |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Pseudomonas syringae pv. syringae 9644 (Pss9644) is a causal agent of bacterial cherry canker causing necrotic symptoms on leaves, fruits, gummosis and canker in woody tissues of sweet cherry (Prunus avium). To understand which virulent factor genes were expressed in vitro, Pss9644 was grown in rich media (King's B Broth) and minimum media (hrp-inducing minimum media). The latter mimics the in planta environment.
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| Overall design |
Pss9644 was grown in King's B broth overnight. Later, it was diluted (OD= 0.1) until grown to log phase (OD=0.6). Cells were washed and shaking incubated in King's B broth and hrp-inducing minimum media Cells were harvested after 5 hours post incubation. Total RNA was extracted. RNA samples underwent ribosomal depletion before sequencing.
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| Contributor(s) |
Vadillo-Dieguez A, Hulin MT, Connell J |
| Citation(s) |
38590135 |
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| Submission date |
Feb 05, 2024 |
| Last update date |
Jul 08, 2024 |
| Contact name |
Andrea Vadillo Dieguez |
| E-mail(s) |
axv352@student.bham.ac.uk
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| Phone |
07851339299
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| Organization name |
University of Birmingham
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| Street address |
Edgbaston
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| City |
Birmingham |
| ZIP/Postal code |
B15 2TT |
| Country |
United Kingdom |
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| Platforms (1) |
| GPL34164 |
Illumina NovaSeq 6000 (Pseudomonas syringae pv. syringae) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA1073518 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE255102_Pss_RawCount_table.txt.gz |
122.5 Kb |
(ftp)(http) |
TXT |
| GSE255102_Pss_TPM_table.txt.gz |
189.6 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
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