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| Status |
Public on Sep 20, 2019 |
| Title |
henn-1/HEN1 promotes germline immortality in Caenorhabditis elegans |
| Organism |
Caenorhabditis elegans |
| Experiment type |
Other
|
| Summary |
Small RNA and mRNA high-throughput sequencing was done to explore the roles of henn-1 and small RNA methylation in regulating gene expression and small RNA stability in C. elegans. Our results point to a requirement for henn-1 in methylating piRNAs, primary siRNAs, and a subset of miRNAs. In the absence of henn-1, modest changes in gene expression were observed in animals grown under optimal condition.
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| Overall design |
To explore the role of henn-1 on the various classes of small RNAs, RNA was isolated from various mutant animals and from Argonaute co-immunoprecipitates and subjected to small RNA and/or mRNA sequencing. Differential expression in mutants compared to wild type animals was done using a variety of methods, primary DESeq2 when doing genome-wide comparisons. Enrichment in Argonaute co-immunoprecipitates relative to cell lysates was used to assess Argonaute-small RNA interactions. RNA polyphosphatase treatment was used to assess 5' phosphorylation of small RNAs and to enable capture of 22G-RNAs. Sodium periodate treatment was used to asses 3'-2'-O-methylation of small RNAs.
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| Contributor(s) |
Montgomery TA, Svendsen JM, Reed KJ |
| Citation(s) |
31801082, 34879267 |
| NIH grant(s) |
| Grant ID |
Grant title |
Affiliation |
Name |
| R35 GM119775 |
Mechanism and function of C. elegans microRNAs in drug resistance, pathogen defense, and development |
COLORADO STATE UNIVERSITY |
Taiowa Akoni Montgomery |
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| Submission date |
Sep 19, 2019 |
| Last update date |
Jan 11, 2022 |
| Contact name |
Taiowa A Montgomery |
| E-mail(s) |
tai.montgomery@colostate.edu
|
| Organization name |
Colorado State University
|
| Department |
Department of Biology
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| Street address |
1878 Campus Delivery
|
| City |
Fort Collins |
| State/province |
CO |
| ZIP/Postal code |
80523 |
| Country |
USA |
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| Platforms (3) |
| GPL13657 |
Illumina HiSeq 2000 (Caenorhabditis elegans) |
| GPL18245 |
Illumina HiSeq 2500 (Caenorhabditis elegans) |
| GPL19757 |
Illumina NextSeq 500 (Caenorhabditis elegans) |
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| Samples (60)
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| Relations |
| BioProject |
PRJNA566418 |
| SRA |
SRP222554 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE137734_mRNA_setA_DESeq2_counts_table.xlsx |
1.4 Mb |
(ftp)(http) |
XLSX |
| GSE137734_sRNA_setA_DESeq2_counts_table.xlsx |
1.4 Mb |
(ftp)(http) |
XLSX |
| GSE137734_sRNA_setB_counts_table.xlsx |
251.0 Kb |
(ftp)(http) |
XLSX |
| GSE137734_sRNA_setC_counts_table.xlsx |
591.2 Kb |
(ftp)(http) |
XLSX |
| GSE137734_sRNA_setD_counts_table.xlsx |
8.9 Kb |
(ftp)(http) |
XLSX |
| GSE137734_sRNA_setE_counts_table.xlsx |
8.8 Kb |
(ftp)(http) |
XLSX |
| GSE137734_sRNA_setF_rde-1_DESeq2_counts_table.xlsx |
1.5 Mb |
(ftp)(http) |
XLSX |
| GSE137734_sRNA_setF_wt_DESeq2_counts_table.xlsx |
1.5 Mb |
(ftp)(http) |
XLSX |
| GSE137734_sRNA_setG_counts_table.xlsx |
31.1 Kb |
(ftp)(http) |
XLSX |
| GSE137734_sRNA_setH_raw_counts_table.xlsx |
3.5 Mb |
(ftp)(http) |
XLSX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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