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| Status |
Public on Jun 23, 2022 |
| Title |
RNA-seq reveals important sRNAs in E.coli O157:H7 |
| Organism |
Escherichia coli O157:H7 |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We report the different expression level of in vivo transcriptome and DMEM cultured bacteria E.coli O157:H7 samples. After obtaining RNA from mice colon and LB cultured free living cells, RNA samples were purified using an RNeasy Mini Kit (Qiagen) and bacterial rRNAs were depleted using the Ribo-Zero rRNA Removal Kit (Epicentre; #RZNB1056). Library construction of RNA samples was carried out using a NEBNext R UltraTM Directional RNA Library Prep Kit for Illumina R (NEB, USA), following the manufacturer’s recommendations. After cluster generation, library preparations were sequenced on an Illumina Hiseq platform to generate paired-end reads.We find that a novel sRNA s77 significantly upregulated compared in vivo samples and LB-cultured sample. This study provides a novel sRNA for further identifications.
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| Overall design |
In this study, we intend to verify the expression of small RNA s77 in mice and LB medium. Meanwhile, we want to see genes being regulated by s77 by comparison mRNA expression levels between o157 and △s77 strains.
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| Contributor(s) |
Jia T, Liu B |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Jun 24, 2019 |
| Last update date |
Jun 23, 2022 |
| Contact name |
Bin Liu |
| E-mail(s) |
lexylexylexy@163.com
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| Phone |
86-18810235415
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| Organization name |
Tsinghua University
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| Department |
School of Life Sciences
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| Street address |
Hai Dian
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| City |
Beijing |
| State/province |
Beijing |
| ZIP/Postal code |
100083 |
| Country |
China |
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| Platforms (1) |
| GPL26831 |
Illumina Genome Analyzer (Escherichia coli O157:H7) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA550337 |
| SRA |
SRP211794 |
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