Review
Oncology
Sunkyung Choi, Namjoon Cho, Eun-Mi Kim, Kee K. Kim
Summary: Alternative pre-mRNA splicing plays a critical role in generating multiple mRNA and increasing protein diversity. Specific splicing isoforms have been found to be important in cellular processes, particularly in regulating cell numbers. Abnormal expression of splicing isoforms and factors, as well as disruptions in splicing caused by genetic mutations, are implicated in cancer development and progression. Alternative splicing has potential as a therapeutic target for cancer.
CANCER CELL INTERNATIONAL
(2023)
Article
Multidisciplinary Sciences
Yang Pan, John W. Phillips, Beatrice D. Zhang, Miyako Noguchi, Eric Kutschera, Jami McLaughlin, Pavlo A. Nesterenko, Zhiyuan Mao, Nathanael J. Bangayan, Robert Wang, Wendy Tran, Harry T. Yang, Yuanyuan Wang, Yang Xu, Matthew B. Obusan, Donghui Cheng, Alex H. Lee, Kathryn E. Kadash-Edmondson, Ameya Champhekar, Cristina Puig-Saus, Antoni Ribas, Robert M. Prins, Christopher S. Seet, Gay M. Crooks, Owen N. Witte, Yi Xing
Summary: This study describes a computational platform called IRIS that can discover tumor antigens derived from alternative splicing, providing potential targets for TCR and CAR-T immunotherapies. Through the analysis of transcriptomics and immuno-peptidomics data, the study demonstrates that the predicted targets by IRIS can bind with HLA molecules. The study illustrates the contribution of alternative splicing to the repertoire of tumor antigens and demonstrates the utility of IRIS in discovering AS-derived antigens and expanding cancer immunotherapies.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Article
Cell Biology
Yanfei Wang, Cuiqiao Zhang, Wu Peng, Haibo Du, Yuehui Xi, Zhigang Xu
Summary: This study further explored the role of RBM24 in hearing and balance through conditional knockout mice and found that the loss of RBM24 results in severe deficits. It was observed that the development of hair cells was significantly affected, leading to degeneration and disorganization of the hair bundles. RNAseq analysis also identified several genes whose mRNA stability or pre-mRNA alternative splicing is affected by RBM24 knockout.
JOURNAL OF CELLULAR PHYSIOLOGY
(2023)
Article
Immunology
Elena Putscher, Michael Hecker, Brit Fitzner, Nina Boxberger, Margit Schwartz, Dirk Koczan, Peter Lorenz, Uwe Klaus Zettl
Summary: This study found that genetic variants from MS risk loci affect pre-mRNA splicing. These findings substantiate the role of alternative splicing events in the genetics of MS. Further research on how disease-causing genetic variants modify the interactions between splicing regulatory sequence elements and RNA-binding proteins can help deepen our understanding of the genetic susceptibility to MS.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Mingtian Deng, Baobao Chen, Zifei Liu, Yongjie Wan, Dongxu Li, Yingnan Yang, Feng Wang
Summary: YBX1 plays important roles in maternal mRNA decay, alternative splicing, and transcriptional activity during early embryogenesis. These findings broaden our understanding of YBX1 functions.
CELL AND BIOSCIENCE
(2022)
Review
Biochemistry & Molecular Biology
Jingya Lin, Ziqiang Zhu
Summary: This review discusses how plants adapt to high temperatures through pre-mRNA splicing, and the significance of this splicing regulation for plant growth and development.
PLANT MOLECULAR BIOLOGY
(2021)
Review
Genetics & Heredity
Zhongjing Su, Dongyang Huang
Summary: Alternative splicing plays a critical role in the regulation of immune cell development and immune activity, with aberrant splicing leading to abnormal immune responses. This review summarizes recent discoveries on immune-associated alternative splice variants, clinical disorders, and regulatory mechanisms.
Review
Immunology
Frank Fang Yao Lee, Scott Alper
Summary: While TLR signaling is necessary to combat infection, persistent inflammation can cause damage and contribute to various inflammatory disorders. Alternative pre-mRNA splicing plays a role in terminating TLR signaling by producing dominant negative inhibitors that limit inflammation. Understanding the production and function of these alternative isoforms may provide insights into inflammatory disease.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Agronomy
Lei Liu, Ying Zhou, Feng Mao, Yujuan Gu, Ziwei Tang, Yi Xin, Fuxia Liu, Tang Tang, Hui Gao, Xiangxiang Zhao
Summary: This study reveals the molecular mechanism underlying grain size regulation in rice. GS3 produces two isoforms, GS3.1 and GS3.2, through alternative splicing, with GS3.1 encoding a full-length protein and GS3.2 generating a truncated protein due to intronic sequence retention. Overexpression of GS3.1 reduces grain size, while GS3.2 has no significant effect on grain size. Furthermore, GS3.2 disrupts the signaling of GS3.1 by competitively occupying RGB1. This mechanism is conserved in cereals.
Article
Biochemistry & Molecular Biology
Wing-Keung Chu, Li-Man Hung, Chun-Wei Hou, Jan-Kan Chen
Summary: The Yes-associated protein (YAP) is a transcriptional co-activator crucial for organ development and tumorigenesis, inhibited by the Hippo signaling pathway. In human cancer cells, alternative splicing of YAP 3' UTR generates a shorter mRNA with potential impact on YAP expression. PKC inhibitor affects the ratio of different YAP mRNA forms, implicating PKC in the regulation of YAP expression through alternative splicing.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Review
Plant Sciences
Praveen Kumar Kathare, Enamul Huq
Summary: The article summarizes the role of phytochromes in regulating plant growth and development, particularly in the regulation of pre-mRNA splicing process.
CURRENT OPINION IN PLANT BIOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Baohua Tan, Jiekang Zeng, Fanming Meng, Shanshan Wang, Liyao Xiao, Xinming Zhao, Linjun Hong, Enqin Zheng, Zhenfang Wu, Zicong Li, Ting Gu
Summary: This study suggests that m6A modification plays an important role in mediating the phenotypic differences between oxidative and glycolytic muscles through the regulation of alternative splicing (AS), providing novel insights into the mechanisms underlying muscle fiber conversion.
Article
Biochemistry & Molecular Biology
Jialiang Li, Guangyue Li, Yige Qi, Yao Lu, Hao Wang, Ke Shi, Dangdang Li, Jinming Shi, Daniel B. Stovall, Guangchao Sui
Summary: In this study, SRSF5 was identified as a key regulator promoting the splicing of DMTF1 beta and gamma, while reducing DMTF1 alpha splicing. The expression of SRSF5 was positively correlated with the DMTF1 beta/alpha ratio in breast cancer samples.
Article
Biochemistry & Molecular Biology
Rosario Prados-Carvajal, Guillermo Rodriguez-Real, Gabriel Gutierrez-Pozo, Pablo Huertas
Summary: Cells activate a complex response to DNA damaging agents, coordinating cellular metabolism, cell cycle progression, and DNA repair, resulting in global changes in mRNA splicing. SF3B2 and CtIP play key roles in influencing cell splicing patterns, while timely expression of vPIF1 is crucial for cell survival upon exposure to DNA damaging agents.
Review
Biochemistry & Molecular Biology
James D. D. Fackenthal
Summary: Cancer is a leading cause of death worldwide. Alternative mRNA splicing has recently been recognized as a major contributor to cancer initiation and progression. Cancer cells exhibit different distribution of splicing variants compared to non-cancer cells, and they are more sensitive to drugs targeting the splicing regulatory network. Certain recurring splicing variants have been shown to contribute to tumor progression, while some disruption events result from mutations in splicing regulatory sequences or shifts in balance among naturally occurring splicing variants of mRNAs involved in cell cycle progression and apoptosis regulation. This review explores cancer-related alternative splicing events and potential therapies.
Article
Biochemistry & Molecular Biology
Dairong Feng, Ruey-Chyi Su, Liping Zou, Barbara Triggs-Raine, Shangzhi Huang, Jiuyong Xie
BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS
(2015)
Article
Biochemistry & Molecular Biology
Geremy A. Koumbadinga, Niaz Mahmood, Lei Lei, Yunchao Kan, Wenguang Cao, Vincent G. Lobo, Xiaojian Yao, Shetuan Zhang, Jiuyong Xie
BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS
(2015)
Article
Biochemistry & Molecular Biology
Muhammad Sohail, Manli Zhang, David Litchfield, Lisheng Wang, Sam Kung, Jiuyong Xie
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH
(2015)
Review
Biochemistry & Molecular Biology
Muhammad Sohail, Jiuyong Xie
CELLULAR AND MOLECULAR LIFE SCIENCES
(2015)
Article
Genetics & Heredity
Hai Nguyen, Urmi Das, Benjamin Wang, Jiuyong Xie
Article
Biochemistry & Molecular Biology
Lei Lei, Wenguang Cao, Ling Liu, Urmi Das, Yujia Wu, Guodong Liu, Muhammad Sohail, Yangjun Chen, Jiuyong Xie
MOLECULAR AND CELLULAR BIOLOGY
(2018)
Article
Multidisciplinary Sciences
Anne A. Blanchard, Teresa Zelinski, Jiuyong Xie, Steven Cooper, Carla Penner, Etienne Leygue, Yvonne Myal
Article
Biochemistry & Molecular Biology
Urmi Das, Hai Nguyen, Jiuyong Xie
Article
Genetics & Heredity
Hai Nguyen, Jiuyong Xie
FRONTIERS IN GENETICS
(2019)
Article
Biochemistry & Molecular Biology
Hai Nguyen, Urmi Das, Jiuyong Xie
Article
Oncology
Jiuyong Xie, Ralf Weiskirchen
FRONTIERS IN ONCOLOGY
(2020)
Article
Oncology
Ling Liu, Jinghua Feng, Julian Polimeni, Manli Zhang, Hai Nguyen, Urmi Das, Xu Zhang, Harminder Singh, Xiao-Jian Yao, Etienne Leygue, Sam K. P. Kung, Jiuyong Xie
Summary: The study utilized whole-genome bisulfite sequencing of circulating cell-free DNA from mice xenografted with human tumors and early stage cancer patients to identify potential cancer markers. Specific differentially methylated regions (DMRs) were found to be associated with tumourigenesis and could be used to distinguish different types of cancer and healthy controls, providing a threshold for precise diagnosis of early stage cancers.
FRONTIERS IN ONCOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Lusong Tian, Xiufeng Xie, Urmi Das, Yuling Chen, Yulin Sun, Fang Liu, Haizhen Lu, Peng Nan, Ying Zhu, Xinglu Gu, Haiteng Deng, Jiuyong Xie, Xiaohang Zhao
Summary: This study identifies cytoplasmic PUR alpha as a modulator of IGFBP3 in ESCC, affecting protein expression by suppressing mRNA translation initiation and significantly impacting patient prognosis. This suggests that cytoplasmic PUR alpha may serve as a promising therapeutic target for ESCC treatment.
Editorial Material
Genetics & Heredity
Jiuyong Xie, Robert Friedman
FRONTIERS IN GENETICS
(2023)
Article
Biochemistry & Molecular Biology
Ling Liu, Urmi Das, Samuel Ogunsola, Jiuyong Xie
Summary: This study focuses on the pairing of splice sites across introns or exons in rat GH3 pituitary cells, revealing correlations between RISE indexes at specific introns or exons and inversely correlated with adjacent exons usage. The modulation of paired indexes by depolarization and disruptible by 5-aza-Cytidine was also observed. The nucleotide matrices of RISE-positive splice sites deviated significantly from rat consensus.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Damien Marchese, Florent Guislain, Tamara Pringels, Laure Bridoux
Summary: Homopolymeric amino acid repeats are common in human proteins, particularly in transcription factors and kinases. This study focuses on homopolymeric histidine repeats (polyH) and their role in regulating embryonic development. Through bioinformatic analysis, the study identifies that polyH-containing proteins interact with cysteine-rich proteins and proteins containing cysteine repeats. The study further investigates the HOXA1 protein, a transcription factor with a long polyH motif, and finds that the polyH motif is necessary for its interaction with cysteine-rich proteins. Additionally, the study discovers that metal ions are required for the HOXA1-MDFI interaction and identifies three polyH interactors that down-regulate the transcriptional activity of HOXA1.
BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS
(2024)
