Article
Agriculture, Multidisciplinary
Jianwei Cui, Chengping Li, Xiao Cui, Xueyan Liu, Chaoqun Meng, Guoli Zhou
Summary: The study investigates the role of HO1 in preadipocyte differentiation and finds that the HO1 3'UTR short variant, produced by APA, escapes microRNA inhibition and has a stronger inhibitory effect on preadipocyte differentiation.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2021)
Review
Biochemistry & Molecular Biology
Fuwen Yuan, William Hankey, Eric J. Wagner, Wei Li, Qianben Wang
Summary: Alternative polyadenylation (APA) is a molecular process that generates diversity at the 3' end of RNA polymerase II transcripts from over 60% of human genes, mainly occurring within the untranslated region (3'UTR), leading to significant impact on the regulatory potential of mRNA.
Article
Cell Biology
Larry C. Cheng, Dinghai Zheng, Qiang Zhang, Aysegul Guvenek, Hong Cheng, Bin Tian
Summary: Transcripts encoding membrane and secreted proteins can associate with the ER through translation-dependent or translation-independent mechanisms. Certain functional groups of genes, such as those involved in cell signaling, tend to have higher TiERA potentials, indicating the importance of ER association for their mRNA metabolism. Changes in transcript features, such as alternative polyadenylation isoforms and 3' UTR lengthening during cell differentiation, can affect the TiERA potential of transcripts. Competing with translation-dependent ER association, TiERA suggests a limited space on the ER for mRNA association.
Article
Plant Sciences
Taotao Wang, Wenbin Ye, Jiaxiang Zhang, Han Li, Weike Zeng, Sheng Zhu, Guoli Ji, Xiaohui Wu, Liuyin Ma
Summary: High-salt stress induces global alternative polyadenylation (APA) dynamics in Spartina alterniflora, leading to 3'UTR lengthening of transcripts and increased protein synthesis. These alternative 3'UTRs are mainly enriched in salt stress-related ion transporters, such as SaHKT1. Regulatory AU-rich elements in alternative 3'UTRs enhance the protein level of SaHKT1, and the biogenesis of 3'UTR lengthening in SaHKT1 is controlled by SaCPSF30. Over-expression of SaHKT1 with an alternative 3'UTR in rice protoplasts promotes the mRNA accumulation of salt-tolerance genes.
Article
Oncology
Ai Lin, Ping Ji, Xiangjie Niu, Xuan Zhao, Yamei Chen, Weiling Liu, Yachen Liu, Wenyi Fan, Yanxia Sun, Chuanwang Miao, Shaosen Zhang, Wen Tan, Dongxin Lin, Eric J. Wagner, Chen Wu
Summary: High-throughput analysis revealed that the recurrent shortening of the BID 3'UTR is a driver of disease progression in esophageal squamous cell carcinoma.
Article
Biotechnology & Applied Microbiology
Zhenying Peng, Shuang Yu, Jingjing Meng, Kai-Hua Jia, Jialei Zhang, Xinguo Li, Wenwei Gao, Shubo Wan
Summary: The study found widespread alternative polyadenylation in peanut genes, crucial for peanut seed maturation. The AhACCA1 gene has four 3' UTRs, each showing tissue-specific expression patterns. Experimental evidence indicates that UTR2 has a stronger impact on gene expression regulation compared to the other UTRs.
Article
Pharmacology & Pharmacy
Chandra Choudhury, Neville J. Butcher, Rodney F. Minchin
Summary: The NAT1 gene contains multiple polyadenylation sites, one of which is associated with the binding of miR-1290, but the usage of the most distal site is influenced by a single nucleotide polymorphism. The regulation of NAT1 activity by miR-1290 is more complex than previously reported.
BIOCHEMICAL PHARMACOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Weiwei Jin, Qizhao Zhu, Yanbo Yang, Wenqian Yang, Dongyang Wang, Jiajun Yang, Xiaohui Niu, Debing Yu, Jing Gong
Summary: APA is a crucial post-transcriptional regulatory mechanism that impacts various biological processes in different species. A study systematically characterized APA profiles in 18 species using RNA sequencing data and developed a user-friendly database for further research and exploration.
NUCLEIC ACIDS RESEARCH
(2021)
Article
Genetics & Heredity
Xinglong Shi, Keshuo Ding, Qiang Zhao, Pengxiao Li, Yani Kang, Sheng Tan, Jielin Sun
Summary: The study characterized the role of CPSF6 in gastric cancer, showing that its upregulation promotes cell proliferation and inhibits apoptosis by regulating APA process affecting VHL and cell growth.
FRONTIERS IN GENETICS
(2021)
Review
Medicine, Research & Experimental
Yu-Long Lan, Jianmin Zhang
Summary: RNA modification is a crucial form of regulation in cancer biology, with untranslated region-alternative polyadenylation (UTR-APA) potentially playing a key role in the pathogenesis of glioma. Less targeted strategies, such as inhibitors of UTR-APA regulators, may have superior therapeutic effects in glioma treatment.
BIOMEDICINE & PHARMACOTHERAPY
(2021)
Article
Environmental Sciences
Sheril June Ankasha, Mohamad Nasir Shafiee, Norhazlina Abdul Wahab, Raja Affendi Raja Ali, Norfilza Mohd Mokhtar
Summary: The study found that miR-200c-3p is upregulated in high-grade serous ovarian cancer (HGSC) and may affect the progression and metastasis of HGSC by regulating the expression of the DLC1 gene and its direct binding to DLC1.
INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH
(2021)
Review
Oncology
Shan Xiao, Huan Gu, Li Deng, Xiongtao Yang, Dan Qiao, Xudong Zhang, Tian Zhang, Tao Yu
Summary: APA is a molecular process that generates diversity in the 3' end of RNA transcripts from a majority of human genes. It plays a role in post-transcriptional gene regulation, as does microRNA. NUDT21 is a crucial mediator of APA and has been found to have dual roles in cancer. This review focuses on the functions of APA, microRNA, and their interactions in tumor development.
FRONTIERS IN ONCOLOGY
(2023)
Article
Pharmacology & Pharmacy
Chuandong Zhu, Yufeng Xie, Qiang Li, Zhiwei Zhang, Juan Chen, Kai Zhang, Xuefeng Xia, Danlei Yu, Dongqin Chen, Zhengyuan Yu, Jing Chen
Summary: In this study, we discovered a novel XBP1 transcript with a longer 3' untranslated region (UTR) and found that its expression was decreased in lung adenocarcinoma (LUAD) patients and in cells after DDP treatment. Additionally, the usage of distal polyadenylation site (PAS) in the 3'UTR was reduced under DDP treatment, leading to a further decrease in the expression of the novel XBP1 transcript. Moreover, we found that XBP1 transcripts with shorter 3'UTR were more stable and enhanced DDP resistance.
DRUG RESISTANCE UPDATES
(2023)
Article
Neurosciences
Yana Pang, Tingting Li, Qi Wang, Wei Qin, Ying Li, Yiping Wei, Longfei Jia
Summary: Rare variations in the 3' untranslated region of PSEN2 may contribute to the development of familial Alzheimer's disease by suppressing miR-183-5p binding to PSEN2 and increasing the A beta 42/40 ratio.
MOLECULAR NEUROBIOLOGY
(2021)
Article
Biochemical Research Methods
Xiaohui Wu, Tao Liu, Congting Ye, Wenbin Ye, Guoli Ji
Summary: APA plays a crucial role in transcriptome diversity and gene expression regulation. The newly developed tool scAPAtrap can accurately identify poly(A) sites at the whole genome level in individual cells, even for sites with low read coverage, without relying on priori genome annotation. Compared to existing methods, scAPAtrap shows higher accuracy and sensitivity in identifying poly(A) sites, making it a valuable tool for exploring APA dynamics and heterogeneous APA isoform expression at the single-cell level.
BRIEFINGS IN BIOINFORMATICS
(2021)