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| Status |
Public on Aug 11, 2021 |
| Title |
RNA-seq analysis of pathogen and host in the early stages of Plague pulmonary infection using a novel dual RNA extraction method |
| Organisms |
Yersinia pestis; Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
The goal of this study is to determine the host and pathogen transcriptomic response during pneumonic plague infection. Mice were infected intranasally with high dose of 800,000 cfu/mouse (1500 LD50). Mice were sacrificed at 1, 24 and 48 hours post infection and dual RNA was extracted. In order to isolate high quantities of superior quality mRNA from bacteria and mice we used a novel technique, that employed infusion of an RNA preserving reagent (RNAlater) into the lungs of the animals through the trachea under deep anesthesia prior to the collection of the organs. Unprecedently, this method enables isolation of stable dual mRNA from lungs of mice infected with Y. pestis, as early as 24 hours post infection. RNA-seq libraries were generated and sequencing of 100bp paired-end was performed on the Illumina NovaSeq 6000 system. The RNA was used for transcriptomic analyses which provided a comprehensive gene-expression profile of both the host and pathogen at 24 and 48 hours post infection.
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| Overall design |
Examination of dual RNA extracted from lungs of mice infected with Y. pestis + samples collected from uninfected mice (naïve) and samples of Y. pestis grown in liquid culture (=17 samples).
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| Contributor(s) |
Israeli O, Cohen-Gihon I, Aftalion M, Gur D, Vagima Y, Zauberman A, Levy Y, Zvi A, Chitlaru T, Mamroud E, Tidhar A |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Aug 09, 2021 |
| Last update date |
Aug 11, 2021 |
| Contact name |
Inbar Cohen Gihon |
| E-mail(s) |
inbarg@iibr.gov.il
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| Organization name |
Israel Institute For Biological Research
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| Department |
Biochemistry
|
| Street address |
Reuven 24
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| City |
Ness Ziona |
| ZIP/Postal code |
14100 |
| Country |
Israel |
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| Platforms (3) |
| GPL21103 |
Illumina HiSeq 4000 (Mus musculus) |
| GPL24209 |
Illumina HiSeq 2000 (Yersinia pestis) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (17)
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| Relations |
| BioProject |
PRJNA753014 |
| SRA |
SRP331619 |
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