Birth of a poly(A) tail: mechanisms and control of <scp>mRNA</scp> polyadenylation

Rodríguez-Molina, Juan B; Turtola, Matti

doi:10.1002/2211-5463.13528

Cited by 19 publications

(20 citation statements)

References 142 publications

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“…PAP catalyzes the synthesis of poly-A at the 3′ end of RNA, and it is closely related to the development of diseases. Besides, it has been reported that PAP mRNA is overexpressed in breast, pancreatic, colon, and many other cancer cells. − Therefore, the analysis of poly-A and the evaluation of PAP’s activity could offer robust biological evidence and work as promising molecular tools for the early diagnosis of cancers.…”

Section: Results and Discussionmentioning

confidence: 99%

Toward Minute-Level DNA Computing: An Ultrafast, Cost-Effective, and Universal System for Lighting Up Various Concurrent DNA Logic Nanodevices (CDLNs) and Concatenated Circuits

Han,

Lv,

Zhang

et al. 2023

Anal. Chem.

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DNA logic nanodevices are powerful tools for both molecular computing tasks and smart bioanalytical applications. Nevertheless, the hour-level operation time and high cost caused by the frequent redesign/reconstruction of gates, tedious strand-displacement reaction, and expensive labeled probes (or tool enzymes) in previous works are ineluctable drawbacks. Herein, we report an ultrafast and costeffective system for engineering concurrent DNA logic nanodevices (CDLNs) by combining polythymine CuNCs with SYBR Green I (SG I) as universal dual-output producers. Particularly, benefiting from the concomitant minute-level quick response of both unlabeled illuminators and the exquisite strand-displacement-free design, all CDLNs including contrary logic pairs (YES ∧ NOT, OR ∧ NOR, and Even ∧ Odd number classifier), noncontrary ones (IDE ∧ IMP, OR ∧ NAND), and concatenated circuits are implemented in just 10 min via a "one-stone-two-birds" method, resulting in only 1/12 the operation time and 1/4 the cost needed in previous works, respectively. Moreover, all of them share the same threshold value, and the dual output can be easily visualized by the naked eye under a portable UV lamp, indicating the universality and practicality of this system. Furthermore, by exploiting the "positive/negative cross-verification" advantages of concurrent contrary logic, the smart in vitro analysis of the polyadenine strand and its polymerase is realized, providing novel molecular tools for the early diagnosis of cancer-related diseases.

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Section: Results and Discussionmentioning

confidence: 99%

Toward Minute-Level DNA Computing: An Ultrafast, Cost-Effective, and Universal System for Lighting Up Various Concurrent DNA Logic Nanodevices (CDLNs) and Concatenated Circuits

Han,

Lv,

Zhang

et al. 2023

Anal. Chem.

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“…Since the PABPN1 protein controls the poly(A) tail synthesis and length (25), we also investigated if the ZC3H11A protein has an impact on poly(A) tail status using HAdV-5 as a model. Since reliable detection of the poly(A) tails is challenging, we used the PCR-based ePAT detection method, which can detect qualitative changes in the poly(A) tail (38).…”

Section: Discussionmentioning

confidence: 99%

“…In addition, PABPN1 can also define the poly(A) tail length as it mediates interactions between the PAP protein and the cleavage and specificity factor 1 (CPSF1) (22,23). Historically, the PABPN1 protein binding to poly(A) tails was suggested to increase mRNA stability, nuclear mRNA export, and translation (24,25). Surprisingly, PABPN1 also has an opposite role as it can promote the turnover of some of the non-coding snoRNA host gene (SNHG) transcripts (26)(27)(28).…”

Section: Introductionmentioning

confidence: 99%

ZC3H11A interacts with PABPN1 and alters polyadenylation of viral transcripts

Kases

Schubert

Hajikhezri

et al. 2023

Preprint

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Nuclear mRNA metabolism is regulated by multiple proteins, which either directly bind to RNA or form multi-protein complexes. The RNA-binding protein ZC3H11A is involved in nuclear mRNA export, and NF-kB signaling and is essential during mouse embryo development. Furthermore, previous studies have shown that ZC3H11A is important for nuclear-replicating viruses. However, detailed biochemical characterization of the ZC3H11A protein has been lacking. In this study, we established the ZC3H11A protein interactome in human and mouse cells. We demonstrate that the nuclear poly(A)-binding protein PABPN1 interacts specifically with the ZC3H11A protein and controls ZC3H11A localization into nuclear speckles. We report that ZC3H11A specifically interacts with the human adenovirus type 5 (HAdV-5) capsid mRNA in a PABPN1-dependent manner. Notably, ZC3H11A uses the same zinc finger motifs to interact with PABPN1 and mRNA, with a single zinc finger motif responsible for these functions. Further, we demonstrate that the lack of ZC3H11A alters the polyadenylation of HAdV-5 capsid mRNA. Taken together, our results suggest that the ZC3H11A protein acts as a novel regulator of polyadenylation of nuclear mRNA.

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“…The selection of the polyadenylation site involves a complex interplay between polyadenylation signal sequences surrounding the CPA site, as well as pre-mRNA 3’ end processing protein complexes which recognize these motifs [Zhang et al . 2021, Rodríguez-Molina and Turtola 2023]. The plant polyadenylation signal consists of three weakly conserved sequence regions: Far Upstream Element (FUE), Near Upstream Element (NUE), and Cleavage Element (CE) [Hunt 2008, Xing and Li 2011].…”

Section: Introductionmentioning

confidence: 99%

Plant Cleavage Factor I complex is essential for precise cleavage and polyadenylation site determination

Szewc,

Zhang,

Bajczyk

et al. 2024

Preprint

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Cleavage factor I (CFI) is a four-subunit protein complex of the pre-mRNA 3' end processing machinery in eukaryotes. In Arabidopsis, AtCFI25a, AtCFI25b, AtCFI59, and AtCFI68 have been identified as potential components of AtCFI, in silico. Here, we show that the AtCFI25a, AtCFI59, and AtCFI68 proteins each pulled down all components of the CFI, confirming that these subunits form the plant CFI complex. Furthermore, either AtCFI59 or AtCFI68 was essential for nuclear localization of the smallest subunit, AtCFI25a. Mutants with single loss-of-function for AtCFI59 or AtCFI68 showed no obvious morphological defects compared to wild-type plants, while the double mutant displayed pleiotropic morphological defects, identical to those previously reported for AtCFI25a loss-of-function plants. Moreover, these morphological defects correlated with alterations in the usage of 3' UTR cleavage and polyadenylation sites. atcfi25a, atcfi25a atcfi25b and atcfi59 atcfi68 double mutants showed widespread changes in the choice of cleavage and polyadenylation sites. In most cases, more proximal cleavage and polyadenylation sites were used, leading to shorter 3' UTRs. In particular, genes involved in light intensity, light harvesting, photosynthesis and cold responses showed significant dependence on AtCFI function. Furthermore, transcripts coding for AtCFI subunits showed altered 3' end processing in these mutants, suggesting self-regulation function of AtCFI in plants.

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Birth of a poly(A) tail: mechanisms and control of mRNA polyadenylation

Cited by 19 publications

References 142 publications

Toward Minute-Level DNA Computing: An Ultrafast, Cost-Effective, and Universal System for Lighting Up Various Concurrent DNA Logic Nanodevices (CDLNs) and Concatenated Circuits

Toward Minute-Level DNA Computing: An Ultrafast, Cost-Effective, and Universal System for Lighting Up Various Concurrent DNA Logic Nanodevices (CDLNs) and Concatenated Circuits

ZC3H11A interacts with PABPN1 and alters polyadenylation of viral transcripts

Plant Cleavage Factor I complex is essential for precise cleavage and polyadenylation site determination

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