<scp>ALYREF</scp>
            links 3′‐end processing to nuclear export of non‐polyadenylated
            <scp>mRNA</scp>
            s

Fan, Jing; Wang, Ke; Du, Xian; Wang, Jianshu; Chen, Suli; Wang, Yimin; Shi, Min; Zhang, Li; Wu, Xudong; Zheng, Dinghai; Wang, Changshou; Wang, Lantian; Tian, Bin; Li, Guohui; Zhou, Yu; Cheng, Hong

doi:10.15252/embj.201899910

Cited by 39 publications

(33 citation statements)

References 53 publications

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“…In particular, histone mRNAs, which are mostly intronless, were the most affected by TPR-depletion (Figure 3E , red data points). Although histone mRNAs undergo unique processing events, these mRNAs require TREX for their export ( 29 , 70 ). Another class of mRNAs that were affected by TPR-depletion were those that encode ribosomal proteins (Figure 3E , yellow data points).…”

Section: Resultsmentioning

confidence: 99%

“…Nonetheless, TREX components have also been shown to be efficiently loaded onto mRNAs even in the absence of splicing ( 22–26 ). TREX may be recruited by RNA polymerase II in a co-transcriptional manner ( 1 ), by the nuclear cap-binding complex ( 27 ), by exon-splicing elements ( 28 ) and by the 3′ cleavage and polyadenylation machinery ( 29 ). As such, TREX components are required for the export of non-spliced mRNAs ( 22–24 , 28 , 30 ).…”

Section: Introductionmentioning

confidence: 99%

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TPR is required for the efficient nuclear export of mRNAs and lncRNAs from short and intron-poor genes

Lee

Wolf

Ihn

et al. 2020

Nucleic Acids Research

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While splicing has been shown to enhance nuclear export, it has remained unclear whether mRNAs generated from intronless genes use specific machinery to promote their export. Here, we investigate the role of the major nuclear pore basket protein, TPR, in regulating mRNA and lncRNA nuclear export in human cells. By sequencing mRNA from the nucleus and cytosol of control and TPR-depleted cells, we provide evidence that TPR is required for the efficient nuclear export of mRNAs and lncRNAs that are generated from short transcripts that tend to have few introns, and we validate this with reporter constructs. Moreover, in TPR-depleted cells reporter mRNAs generated from short transcripts accumulate in nuclear speckles and are bound to Nxf1. These observations suggest that TPR acts downstream of Nxf1 recruitment and may allow mRNAs to leave nuclear speckles and properly dock with the nuclear pore. In summary, our study provides one of the first examples of a factor that is specifically required for the nuclear export of intronless and intron-poor mRNAs and lncRNAs.

show abstract

Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

TPR is required for the efficient nuclear export of mRNAs and lncRNAs from short and intron-poor genes

Lee

Wolf

Ihn

et al. 2020

Nucleic Acids Research

View full text Add to dashboard Cite

show abstract

“…In particular, histone mRNAs, which are mostly intronless, were the most affected by TPR-depletion ( Figure 2E). Although histone mRNAs undergo unique processing events, these mRNAs require TREX for their export (28,68). Another class of mRNAs that were affected by TPR-depletion were those that encode ribosomal proteins ( Figure 2E).…”

Section: Tpr Regulates the Nuclear Export Of A Subset Of Endogenous Mmentioning

confidence: 99%

“…Nonetheless, TREX components have also been shown to be efficiently loaded onto mRNAs even in the absence of splicing (22)(23)(24)(25)(26). TREX may be recruited by RNA polymerase II in a co-transcriptional manner (1), by the nuclear cap-binding complex (27) and by the 3' cleavage and polyadenylation machinery (28). As such, TREX components are required for the export of non-spliced mRNAs (22,23,29).…”

Section: Introductionmentioning

confidence: 99%

TPR is required for the nuclear export of mRNAs and lncRNAs from intronless and intron-poor genes

Lee

Wolf

Smith

et al. 2019

Preprint

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While splicing has been shown to enhance nuclear export, it has remained unclear whether mRNAs generated from intronless genes use specific machinery to promote their export. Here we investigate the role of the major nuclear pore basket protein, TPR, in regulating mRNA and lncRNA nuclear export in human cells. By sequencing mRNA from the nucleus and cytosol of control and TPR-depleted cells, we provide evidence that TPR is required for the nuclear export of mRNAs and lncRNAs that are generated from intronless and intron-poor genes, and we validate this with reporter constructs. Moreover, in TPRdepleted cells reporter mRNAs generated from intronless genes accumulate in nuclear speckles and are bound to Nxf1. These observations suggest that TPR acts downstream of Nxf1 recruitment, and may allow mRNAs to leave nuclear speckles and properly dock with the nuclear pore. In summary, our study provides one of the first examples of a factor that is required for the nuclear export of intronless and intron-poor mRNAs and lncRNAs.

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“…Notably, among negative GIs of DIS3L were genes that are involved in RNA transport from the nucleus (THOC2, ALYREF, NUP133, POP1, POP5, and EIF2S2). THOC2 and ALYREF are a part of the TREX complex (Chi et al, 2013), whereas NUP133 is a part of the nuclear pore (Boehmer et al, 2008), and all are involved in mRNP biogenesis and mRNA export (Vasu et al, 2001;Fan et al, 2019). These steps are subject to robust quality control.…”

Section: Reconstruction Of a Functional Network Revealed Novel Connecmentioning

confidence: 99%

High-throughput siRNA screening reveals functional interactions and redundancies of human processive exoribonucleases

Dziembowski

Szczęsny

Hojka-Osińska

et al. 2020

Preprint

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Processive exoribonucleases, the executors of RNA decay, participate in multiple physical and functional interactions. Unlike physical ones, functional relationships have not been investigated in human cells. Here we have screened cells deficient in DIS3, XRN2, EXOSC10, DIS3L, and DIS3L2 with a custom siRNA library and determined their functional interactions with diverse pathways of RNA metabolism. We uncover a complex network of positive interactions that buffer alterations in RNA degradation. We reveal important reciprocal actions between RNA decay and transcription and explore alleviating interactions between RNA splicing and DIS3 mediated degradation. We also use a large scale library of genes associated with RNA metabolism to determine genetic interactions of nuclear DIS3 and cytoplasmic DIS3L, revealing their unique functions in RNA degradation and uncovering cooperation between the cytoplasmic degradation and nuclear processing of RNA. Finally, genome-wide siRNA screening of DIS3 reveals processes such as microtubule organization and regulation of telomerase activity that are also functionally associated with nuclear exosome-mediated RNA degradation.

show abstract

ALYREF links 3′‐end processing to nuclear export of non‐polyadenylated mRNA s

Cited by 39 publications

References 53 publications

TPR is required for the efficient nuclear export of mRNAs and lncRNAs from short and intron-poor genes

TPR is required for the efficient nuclear export of mRNAs and lncRNAs from short and intron-poor genes

TPR is required for the nuclear export of mRNAs and lncRNAs from intronless and intron-poor genes

High-throughput siRNA screening reveals functional interactions and redundancies of human processive exoribonucleases

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