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| Status |
Public on Jul 23, 2019 |
| Title |
meg-3 meg-4 upregulate endogenous sRNAs targeting RNAi genes and downregulate their mRNAs |
| Organism |
Caenorhabditis elegans |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
Expression profiling by high throughput sequencing
|
| Summary |
sRNAseq was conducted on four independently generated meg-3 meg-4 lines, and upregulation of sRNAs targeting several RNAi genes was found. mRNAseq found that the transcript levels for several of these genes was also down. meg-3 meg-4 mutants also showed a similar pattern of sRNA misregulation as the rde-11 mutant.
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| Overall design |
Mixed-staged populations of independently generated meg-3 meg-4 lines (meg-3 meg-4 #1, #2, #3, #4) and N2 worms (grown on NA22) were collected and subject to sRNAseq. mRNAseq was additionally conducted on young mother-staged populations of meg-3 meg-4 #1 and N2 grown on HT115 with the L4440 plasmid. sRNAseq was also conducted on young mother-staged N2 and rde-11 mutants.
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| Contributor(s) |
Ouyang JT, Seydoux G |
| Citation(s) |
31402283 |
| Submission date |
Jul 22, 2019 |
| Last update date |
Oct 22, 2019 |
| Contact name |
Geraldine Seydoux |
| E-mail(s) |
gseydoux@jhmi.edu
|
| Organization name |
JHU School of Medicine
|
| Department |
Molecular Biology and Genetics
|
| Street address |
725 North Wolfe Street, PCTB 706
|
| City |
Baltimore |
| State/province |
MD |
| ZIP/Postal code |
21205 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL18245 |
Illumina HiSeq 2500 (Caenorhabditis elegans) |
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| Samples (18)
|
| GSM3959479 |
rde-11(hj37) fed HT115-L4440 young mother replicate 1-sRNAseq |
| GSM3959480 |
rde-11(hj37) fed HT115-L4440 young mother replicate 2-sRNAseq |
| GSM3959481 |
N2 fed HT115-L4440 young mother replicate 1-sRNAseq |
| GSM3959482 |
N2 fed HT115-L4440 young mother replicate 2-sRNAseq |
| GSM3959483 |
N2 mixed population on NA22 bacteria replicate 1-sRNAseq |
| GSM3959484 |
N2 mixed population on NA22 bacteria replicate 2-sRNAseq |
| GSM3959485 |
meg-3(ax3055) meg-4(ax3052) mixed population on NA22 bacteria replicate 1-sRNAseq |
| GSM3959486 |
meg-3(ax3055) meg-4(ax3052) mixed population on NA22 bacteria replicate 2-sRNAseq |
| GSM3959487 |
N2 young mother on HT115-L4440 bacteria replicate 1-mRNAseq |
| GSM3959488 |
N2 young mother on HT115-L4440 bacteria replicate 2-mRNAseq |
| GSM3959489 |
meg-3(ax3055) meg-4(ax3052) JH3475 young mother on HT115-L4440 bacteria replicate 1-mRNAseq |
| GSM3959490 |
meg-3(ax3055) meg-4(ax3052) JH3475 young mother on HT115-L4440 bacteria replicate 2-mRNAseq |
| GSM3959491 |
meg-3(ax3055) meg-4(ax4310) JH3672 mixed population on NA22 bacteria replicate 1-sRNAseq |
| GSM3959492 |
meg-3(ax3055) meg-4(ax4310) JH3672 mixed population on NA22 bacteria replicate 2-sRNAseq |
| GSM3959493 |
meg-3(ax3055) meg-4(ax4311) JH3673 mixed population on NA22 bacteria replicate 1-sRNAseq |
| GSM3959494 |
meg-3(ax3055) meg-4(ax4311) JH3673 mixed population on NA22 bacteria replicate 2-sRNAseq |
| GSM3959495 |
meg-3(ax3055) meg-4(ax4312) JH3674 mixed population on NA22 bacteria replicate 1-sRNAseq |
| GSM3959496 |
meg-3(ax3055) meg-4(ax4312) JH3674 mixed population on NA22 bacteria replicate 2-sRNAseq |
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| This SubSeries is part of SuperSeries: |
| GSE134638 |
P granules protect RNA interference genes from silencing by piRNAs |
|
| Relations |
| BioProject |
PRJNA555888 |
| SRA |
SRP215886 |
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