Venkataramanan et al. 2021 (PRJNA749053)
General Details
| Title | Ribosome profiling in DDX3X degron cell lines and complementation with sex-linked paralogs |
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| Organism | |
| Number of Samples | 8 |
| Release Date | 2021/07/22 00:00 |
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| Protocol Details |
Study Links
| GWIPS-viz | Trips-Viz |
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Repository Details
| SRA | SRP329509 |
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| ENA | SRP329509 |
| GEO | GSE180669 |
| BioProject | PRJNA749053 |
Publication
| Title | |
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| Authors | Venkataramanan S, Gadek M, Calviello L, Wilkins K, Floor SN |
| Journal | RNA (New York, N.Y.) |
| Publication Date | 2021 Dec |
| Abstract | DDX3 is a DEAD-box RNA helicase that regulates translation and is encoded by the X- and Y-linked paralogs DDX3X and DDX3Y While DDX3X is ubiquitously expressed in human tissues and essential for viability, DDX3Y is male-specific and shows lower and more variable expression than DDX3X in somatic tissues. Heterozygous genetic lesions in DDX3X mediate a class of developmental disorders called DDX3X syndrome, while loss of DDX3Y is implicated in male infertility. One possible explanation for female-bias in DDX3X syndrome is that DDX3Y encodes a polypeptide with different biochemical activity. In this study, we use ribosome profiling and in vitro translation to demonstrate that the X- and Y-linked paralogs of DDX3 play functionally redundant roles in translation. We find that transcripts that are sensitive to DDX3X depletion or mutation are rescued by complementation with DDX3Y. Our data indicate that DDX3X and DDX3Y proteins can functionally complement each other in the context of mRNA translation in human cells. DDX3Y is not expressed in a large fraction of the central nervous system. These findings suggest that expression differences, not differences in paralog-dependent protein synthesis, underlie the sex-bias of DDX3X-associated diseases. © 2021 Venkataramanan et al.; Published by Cold Spring Harbor Laboratory Press for the RNA Society. |
| PMC | PMC8594478 |
| PMID | 34535544 |
| DOI |
| Run Accession | Study Accession | Scientific Name | Cell Line | Library Type | Treatment | GWIPS-viz | Trips-Viz | Reads | BAM | BigWig (F) | BigWig (R) | ||
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| SRR15217936 | PRJNA749053 | Homo sapiens | HCT116 | Ribo-Seq | 0.0 |  |
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| SRR15217938 | PRJNA749053 | Homo sapiens | HCT116 | Ribo-Seq | 0.0 | |
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| SRR15217940 | PRJNA749053 | Homo sapiens | HCT116 | Ribo-Seq | 0.0 | |
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| SRR15217942 | PRJNA749053 | Homo sapiens | HCT116 | Ribo-Seq | 0.0 | |
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| SRR15217944 | PRJNA749053 | Homo sapiens | HCT116 | Ribo-Seq | 0.0 | |
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| SRR15217946 | PRJNA749053 | Homo sapiens | HCT116 | Ribo-Seq | 0.0 | |
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| SRR15217948 | PRJNA749053 | Homo sapiens | HCT116 | Ribo-Seq | 0.0 | |
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| SRR15217950 | PRJNA749053 | Homo sapiens | HCT116 | Ribo-Seq | 0.0 | |
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| Run Accession | Study Accession | Scientific Name | Cell Line | Library Type | Treatment | GWIPS-viz | Trips-Viz | Reads | BAM | BigWig (F) | BigWig (R) |
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