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5’ half of specific tRNAs feeds back to promote corresponding tRNA gene transcription in vertebrate embryos [small RNA-Seq, ssDRIP-seq]

ABSTRACT: 5’ half of specific tRNAs feeds back to promote corresponding tRNA gene transcription in vertebrate embryos [small RNA-Seq, ssDRIP-seq]

PROVIDER: PRJNA613601 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR11356217_1.fastq.gz	Fastqsanger.gz
	SRR11356217_2.fastq.gz	Fastqsanger.gz
	SRR11356218_1.fastq.gz	Fastqsanger.gz
	SRR11356218_2.fastq.gz	Fastqsanger.gz
	SRR11356219_1.fastq.gz	Fastqsanger.gz

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5’ half of specific tRNAs feeds back to promote corresponding tRNA gene transcription in vertebrate embryos [small RNA-Seq, ssDRIP-seq]

Project description:5’tRFls are small tRNA fragments derived from 5’ half of mature tRNAs. However, it is unknown whether 5’tRFls could feed back to regulate tRNA biogenesis. Here we show that 5’tRFlGly/GCC and 5’tRFlGlu/CTC function to promote transcription of corresponding tRNA genes and are essential for vertebrate early embryogenesis. During zebrafish embryogenesis, dynamics of 5’tRFlGly/GCC and 5’tRFlGlu/CTC levels correlates with that of tRNAGly/GCC and tRNAGlu/CTC levels. Morpholino-mediated knockdown of 5’tRFlGly/GCC or 5’tRFlGlu/CTC down-regulates tRNAGly/GCC or tRNAGlu/CTC levels respectively, and causes embryonic lethality that is efficiently rescued by co-injection of properly refolded corresponding tRNA. In zebrafish embryos, tRNA:DNA and 5’tRFl:DNA hybrids commonly exist on the template strand of tRNA genes. Mechanistically, unstable 5’tRFl:DNA hybrid may prevent the formation of transcriptionally inhibitory stable tRNA:DNA hybrids on the same tRNA loci so as to facilitate tRNA genes transcription. The uncovered mechanism may be implicated in other physiological and pathological processes.

2021-08-25 | GSE147253 | GEO

5’ half of specific tRNAs feeds back to promote corresponding tRNA gene transcription in vertebrate embryos

Project description:5’ half of specific tRNAs feeds back to promote corresponding tRNA gene transcription in vertebrate embryos

| PRJNA753013 | ENA

5’ half of specific tRNAs feeds back to promote corresponding tRNA gene transcription in vertebrate embryos [tRNA-seq]

Project description:5’ half of specific tRNAs feeds back to promote corresponding tRNA gene transcription in vertebrate embryos [tRNA-seq]

| PRJNA753019 | ENA

5’ half of specific tRNAs feeds back to promote corresponding tRNA gene transcription in vertebrate embryos [tRNA-seq]

2021-08-25 | GSE181683 | GEO

5' Half of specific tRNAs feeds back to promote corresponding tRNA gene transcription in vertebrate embryos.

Project description:5′tRFls are small transfer RNA (tRNA) fragments derived from 5′ half of mature tRNAs. However, it is unknown whether 5′tRFls could feed back to regulate tRNA biogenesis. Here, we show that 5′tRFlGly/GCC and 5′tRFlGlu/CTC function to promote transcription of corresponding tRNA genes and are essential for vertebrate early embryogenesis. During zebrafish embryogenesis, dynamics of 5′tRFlGly/GCC and 5′tRFlGlu/CTC levels correlates with that of tRNAGly/GCC and tRNAGlu/CTC levels. Morpholino-mediated knockdown of 5′tRFlGly/GCC or 5′tRFlGlu/CTC down-regulates tRNAGly/GCC or tRNAGlu/CTC levels, respectively, and causes embryonic lethality that is efficiently rescued by coinjection of properly refolded corresponding tRNA. In zebrafish embryos, tRNA:DNA and 5′tRFl:DNA hybrids commonly exist on the template strand of tRNA genes. Mechanistically, unstable 5′tRFl:DNA hybrid may prevent the formation of transcriptionally inhibitory stable tRNA:DNA hybrids on the same tRNA loci so as to facilitate tRNA gene transcription. The uncovered mechanism may be implicated in other physiological and pathological processes.

| S-EPMC8604414 | biostudies-literature

5’ half of specific tRNAs feeds back to promote corresponding tRNA gene transcription in vertebrate embryos

Project description:This SuperSeries is composed of the SubSeries listed below.

2021-08-25 | GSE181684 | GEO

Nutrigenomics and nutritional analysis of juvenile Asian seabass (Lates Calcarifer) fed five different commercial feeds

Project description:In this study, the relative effect of consuming five different commercial feeds (Feed B-F) and and frozen fish (control; Feed A) for two months on our selected juvenile Asian seabass (77.3g ± 22.4g) were investigated. The growth performance, the biochemical analysis of their flesh, the histology of their midgut and the transcriptome of their midgut and liver were compared to each other and controls. Our customised agilent microarray platform (GPL17855), were used to investigate the liver transcriptomic expression of the different Groups fed with different Feeds. No differential expression were detected between commerical Feeds (B, C, E and F). A total of 397 differentially expressed transcripts (Foldchange cutoff: -1.5≤ or ≥1.5, Pvalue with FDR (<0.05) were detected between Feed D and control Feed A.

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tRNAs marked with CCACCA are targeted for degradation

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2011-11-17 | E-GEOD-33756 | biostudies-arrayexpress

Nutrigenomics and nutritional analysis of juvenile Asian seabass (Lates Calcarifer) fed five different commercial feeds

Project description:In this study, the relative effect of consuming five different commercial feeds (Feed B-F) and and frozen fish (control; Feed A) for two months on our selected juvenile Asian seabass (77.3g Â± 22.4g) were investigated. The growth performance, the biochemical analysis of their flesh, the histology of their midgut and the transcriptome of their midgut and liver were compared to each other and controls. Our customised agilent microarray platform (GPL17855), were used to investigate the liver transcriptomic expression of the different Groups fed with different Feeds. No differential expression were detected between commerical Feeds (B, C, E and F). A total of 397 differentially expressed transcripts (Foldchange cutoff: -1.5â¤ or â¥1.5, Pvalue with FDR (<0.05) were detected between Feed D and control Feed A. Total: 24 samples (4 biological samples per Group; 6 Different Groups in total). Groups (A-F) were fed with Feeds (A-F) respectively for 61 days.

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Small RNA sequencing of in vitro Angiogenin-hydrolyzed tRNAs

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2022-04-05 | GSE187021 | GEO

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