Comprehensive analysis of mRNA poly(A) tails by PAIso-seq2

Liu, Yusheng; Nie, Hu; Zhang, Yiwei; Lu, Falong; Wang, Jiaqiang

doi:10.1007/s11427-022-2186-8

Cited by 10 publications

(8 citation statements)

References 15 publications

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“…Therefore, we additionally analyzed human oocytes and embryos with PAIso-seq2 (ref. 41 ), which can detect transcripts with very short or no poly(A) tails, and transcripts with non-A residues at their 3′-ends, although at lower sensitivity. The PAIso-seq2 dataset well-validates our observations four-cell embryos, suggesting global polyadenylation.…”

Section: Dynamics Of Mrna Poly(a) Tail Length During the Human Oocyte...mentioning

confidence: 99%

“…We used PAIso-seq2 (ref. 41 ) to measure transcripts that could not be or were inefficiently captured by PAIso-seq (Fig. 8a), and analyzed oocytes at the germinal vesicle and metaphase II stages as well as embryos at the one-, two-, and four-cell stages using three to five oocytes or embryos per replicate, with two replicates (Extended Data Fig.…”

Section: Paiso-seq2 Analysis Of Human Oocytes and Embryosmentioning

confidence: 99%

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Remodeling of maternal mRNA through poly(A) tail orchestrates human oocyte-to-embryo transition

Liu

Zhao

Shao

et al. 2023

Nat Struct Mol Biol

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Poly(A)-tail-mediated post-transcriptional regulation of maternal mRNAs is vital in the oocyte-to-embryo transition (OET). Nothing is known about poly(A) tail dynamics during the human OET. Here, we show that poly(A) tail length and internal non-A residues are highly dynamic during the human OET, using poly(A)-inclusive RNA isoform sequencing (PAIso-seq). Unexpectedly, maternal mRNAs undergo global remodeling: after deadenylation or partial degradation into 3ʹ-UTRs, they are re-polyadenylated to produce polyadenylated degradation intermediates, coinciding with massive incorporation of non-A residues, particularly internal long consecutive U residues, into the newly synthesized poly(A) tails. Moreover, TUT4 and TUT7 contribute to the incorporation of these U residues, BTG4-mediated deadenylation produces substrates for maternal mRNA re-polyadenylation, and TENT4A and TENT4B incorporate internal G residues. The maternal mRNA remodeling is further confirmed using PAIso-seq2. Importantly, maternal mRNA remodeling is essential for the first cleavage of human embryos. Together, these findings broaden our understanding of the post-transcriptional regulation of maternal mRNAs during the human OET.

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Section: Dynamics Of Mrna Poly(a) Tail Length During the Human Oocyte...mentioning

confidence: 99%

Section: Paiso-seq2 Analysis Of Human Oocytes and Embryosmentioning

confidence: 99%

Remodeling of maternal mRNA through poly(A) tail orchestrates human oocyte-to-embryo transition

Liu

Zhao

Shao

et al. 2023

Nat Struct Mol Biol

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“…In response to Professor Jiang's group's findings, Lu argued that the highly conserved animal miRNA sequences found in plant sRNA indicate a non‐plant origin, which infers that animal sRNA contamination in decoctions 30 . In response, Jiang's group reported the similarity/shared characteristics between plant and animal non‐coding sRNA, revealing some shared RNA sequences, suggesting possible cross‐kingdom sharing between plant and animal genomes 31–33 .…”

Section: Decoctosomes and Bencaosomes Derived From Herbal Preparationsmentioning

confidence: 99%

Nanoparticles derived from herbal preparations May represent a novel nucleic acid therapy

Feng,

Ahmed,

Ahmed

et al. 2024

Interdisciplinary Medicine

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A significant number of nucleic acid therapies have been approved, highlighting the vast potential of nucleic acid therapeutics. Although numerous delivery strategies have been investigated, and progress has been made in nucleic acid delivery systems, the oral delivery route still presents a significant obstacle. Recently, a novel and promising force in oral nucleic acid delivery has emerged, namely Decoctosomes and Bencaosomes, obtained from the decoction of natural herbs, which refers to boiled Chinese herbal medicines. The active components of Decoctosomes include small molecules, peptides, and small RNAs (sRNAs). sRNAs were the first targets of extensive research. Additionally, Bencaosomes have been proven effective in several disease mouse models as artificially enhanced decoctosome products. This perspective summarizes the development and possible future directions of Decoctosomes and Bencaosomes, two varieties of nanoparticles that may open the door to new possibilities in nucleic acid therapy.

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“… 20 , 24 , 26 , 43 – 49 Within the past decade, approaches to capture and accurately determine the length of the homopolymeric poly(A) tail transcriptome wide have been developed and used to examine maternal mRNA tail dynamics across the OET in frogs, zebrafish, and flies. 29 , 50 – 52 More recently, long-read sequencing protocols, which can sequence even very long poly(A) tails with isoform-level resolution, have emerged, 53 – 57 including sensitive approaches that allow tail length determination in the small number of oocytes and embryos that can be obtained in mammals, including humans. 58 – 61 Parallel advances in ribosome profiling allow investigation of the coupling between poly(A) tail regulation and ribosome association.…”

Section: Introductionmentioning

confidence: 99%

An extended wave of global mRNA deadenylation sets up a switch in translation regulation across the mammalian oocyte-to-embryo transition

Lee,

Cho,

Morey

et al. 2024

Cell Reports

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Comprehensive analysis of mRNA poly(A) tails by PAIso-seq2

Cited by 10 publications

References 15 publications

Remodeling of maternal mRNA through poly(A) tail orchestrates human oocyte-to-embryo transition

Remodeling of maternal mRNA through poly(A) tail orchestrates human oocyte-to-embryo transition

Nanoparticles derived from herbal preparations May represent a novel nucleic acid therapy

An extended wave of global mRNA deadenylation sets up a switch in translation regulation across the mammalian oocyte-to-embryo transition

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