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Seryl-tRNA synthetase promotes translational readthrough by mRNA binding and involvement of the selenocysteine incorporation machinery.

Ze Liu, Justin Wang, Yi Shi, Brian A Yee, Markus Terrey, Qian Zhang, Jenq-Chang Lee, Kuo-I Lin, Andrew H-J Wang, Susan L Ackerman, Gene W Yeo, Haissi Cui, Xiang-Lei Yang

Nucleic acids research · 2023 · Vol. 51 (19) · pp. 10768-10781

Abstract

Translational readthrough of UGA stop codons by selenocysteine-specific tRNA (tRNASec) enables the synthesis of selenoproteins. Seryl-tRNA synthetase (SerRS) charges tRNASec with serine, which is modified into selenocysteine and delivered to the ribosome by a designated elongation factor (eEFSec in eukaryotes). Here we found that components of the human selenocysteine incorporation machinery (SerRS, tRNASec, and eEFSec) also increased translational readthrough of non-selenocysteine genes, including VEGFA, to create C-terminally extended isoforms. SerRS recognizes target mRNAs through a stem-loop structure that resembles the variable loop of its cognate tRNAs. This function of SerRS depends on both its enzymatic activity and a vertebrate-specific domain. Through eCLIP-seq, we identified additional SerRS-interacting mRNAs as potential readthrough genes. Moreover, SerRS overexpression was sufficient to reverse premature termination caused by a pathogenic nonsense mutation. Our findings expand the repertoire of selenoprotein biosynthesis machinery and suggest an avenue for therapeutic targeting of nonsense mutations using endogenous factors.

Linked datasets 2

GSE230349 GSE · via ncbi_elink
GEO ↗

Seryl-tRNA synthetase promotes translational readthrough via mRNA binding by involving the selenocysteine incorporation machinery

Homo sapiens

12 data files
FileTypeSize
SLA_101.fastq.gz OTHER 1.7 GB
SLA_102.fastq.gz OTHER 1.5 GB
SLA_89.fastq.gz OTHER 1.5 GB
SLA_95.fastq.gz OTHER 1.9 GB
SLA_97.fastq.gz OTHER 1.7 GB
SLA_99.fastq.gz OTHER 1.8 GB
SRR24267132_GSM7220275 OTHER 1.5 GB
SRR24267133_GSM7220274 OTHER 1.7 GB
SRR24267134_GSM7220273 OTHER 1.8 GB
SRR24267135_GSM7220272 OTHER 1.7 GB
SRR24267136_GSM7220271 OTHER 1.9 GB
SRR24267137_GSM7220270 OTHER 1.5 GB
GSE206674 GSE · via ncbi_elink
GEO ↗

SerRS mediates translational readthrough of through engagement of the selenocysteine incorporation machinery

Homo sapiens

6 data files
FileTypeSize
SRR19783291_GSM6260348 RIP-Seq 1.1 GB
SRR19783292_GSM6260347 RIP-Seq 944.0 MB
SRR19783293_GSM6260346 RIP-Seq 1020.0 MB
SRR19783294_GSM6260345 RIP-Seq 1.1 GB
SRR19783295_GSM6260344 RIP-Seq 1.7 GB
SRR19783296_GSM6260343 RIP-Seq 1003.0 MB

Potentially related datasets 2

These accessions were text-mined from the PMC full text. They may be referenced for comparison, cited from other studies, or otherwise mentioned without being primary data for this paper.

Accession Source Title
GSE206674 GSE · GEO GEO ↗ SerRS mediates translational readthrough of through engagement of the selenocysteine incorporation machinery
GSE230349 GSE · GEO GEO ↗ Seryl-tRNA synthetase promotes translational readthrough via mRNA binding by involving the selenocysteine incorporation machinery

Analysis pipelines 2

Pipeline Assay Steps Dataset
GSE206674 eCLIP Data Processing geo_data_processing eCLIP 10 GSE206674
GSE230349 Ribo-seq Data Processing geo_data_processing Ribo-seq 8 GSE230349
Funding 5 grants
Grant Funder
U24 HG009889 NHGRI NIH HHS (United States)
R01 HG004659 NHGRI NIH HHS (United States)
U41 HG009889 NHGRI NIH HHS (United States)
R35 GM139627 NIH HHS (United States)
R35 GM139627 NIGMS NIH HHS (United States)