Review
Plant Sciences
Mateusz Bajczyk, Artur Jarmolowski, Monika Jozwiak, Andrzej Pacak, Halina Pietrykowska, Izabela Sierocka, Aleksandra Swida-Barteczka, Lukasz Szewc, Zofia Szweykowska-Kulinska
Summary: MicroRNAs are small RNAs, 20-22 nt long, that downregulate gene expression at the level of mRNAs. They play a fundamental role in plant growth and development in response to internal and external signals. The levels of miRNAs are controlled by various processes, including transcription, processing, stability, formation of RNA-induced silencing complex (RISC), and export from the nucleus and plant cell.
Article
Biochemistry & Molecular Biology
Shaohua Li, Thi Nhu-Y Le, Trung Duc Nguyen, Tam Anh Trinh, Tuan Anh Nguyen
Summary: Research shows that bulges in pri-miRNAs can modulate the cleavage efficiency and accuracy of miRNA processing by influencing the activity and orientation of the Microprocessor complex, suggesting their potential roles in regulating miRNA biogenesis.
Article
Biochemistry & Molecular Biology
Geng Chen, Yang Yang, Qi-Jia Wu, Liu Cao, Wen Ruan, Changwei Shao, Li Jiang, Peng Tang, Suping Ma, Ao Jiang, Zhen Wang, Kai Wu, Qiangfeng Cliff Zhang, Xiang-Dong Fu, Yu Zhou
Summary: ILF3 plays a negative regulatory role in miRNA biogenesis by directly repressing miRNAs through binding to A/U-enriched motifs, particularly targeting miR-582-3p, which is crucial in the antiviral response.
JOURNAL OF MOLECULAR BIOLOGY
(2022)
Review
Plant Sciences
Halina Pietrykowska, Izabela Sierocka, Andrzej Zielezinski, Alisha Alisha, Juan Carlo Carrasco-Sanchez, Artur Jarmolowski, Wojciech M. Karlowski, Zofia Szweykowska-Kulinska
Summary: This review examines the MIR gene structure, biogenesis, and function of miRNAs in liverwort species. It highlights the presence of miRNA biogenesis factors in liverworts, suggesting their early emergence during land plant evolution.
JOURNAL OF EXPERIMENTAL BOTANY
(2022)
Editorial Material
Biochemistry & Molecular Biology
Marc Graille
Summary: This study presents the crystal structure of the complex formed by eukaryotic ERH protein and a short peptide of its partner, providing valuable insights into the different biological functions governed by this highly conserved protein family.
Article
Biochemistry & Molecular Biology
Hongbo Li, Tingting Li, Yingzhu Li, Haiyan Bai, Yanghuan Dai, Yanglan Liao, Juan Wei, Wenjin Shen, Binglian Zheng, Zhonghui Zhang, Caiji Gao
Summary: The FYVE domain protein FREE1 is shown to have a negative regulatory role in plant miRNA biogenesis by interacting with the core microprocessor component in the nucleus.
Article
Biochemistry & Molecular Biology
Lia Rodrigues, Sule Canberk, Sofia Macedo, Paula Soares, Joao Vinagre
Summary: This study characterized the miRNA biogenesis component DGCR8, particularly the p.(E518K) mutation and DGCR8 expression, in a series of thyroid lesions. The study found deregulation of DGCR8 expression at the mRNA level in follicular-patterned tumors and reported the p.(E518K) mutation in a case of poorly differentiated thyroid carcinoma.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Kijun Kim, S. Chan Baek, Young-Yoon Lee, Carolien Bastiaanssen, Jeesoo Kim, Haedong Kim, V. Narry Kim
Summary: Only 758 pri-miRNAs are confidently processed by DROSHA, while the majority may be non-canonical or false entries. Analyses of the DROSHA-dependent pri-miRNAs show key cis-elements for processing, and widespread alternative processing and unproductive cleavage events were observed.
Article
Biochemistry & Molecular Biology
Susanta Chatterjee, Ishita Mukherjee, Shreya Bhattacharjee, Mainak Bose, Saikat Chakrabarti, Suvendra N. Bhattacharyya
Summary: In activated macrophages, miR-146a-5p acts as a primary miRNA that coordinates the biogenesis of secondary miRNAs, such as miR-125b, miR-21, or miR-142-3p, to balance immune responses. The coordinated biogenesis of miRNAs is also observed in different cell types.
MOLECULAR AND CELLULAR BIOLOGY
(2022)
Review
Food Science & Technology
Sehee Park, Igojo Kang, Chanseok Shin
Summary: Most microRNAs are processed by two ribonuclease III enzymes, but some that are structurally suboptimal are expressed at levels similar to or higher than their structurally optimal neighbors, possibly due to their clustered orientation.
APPLIED BIOLOGICAL CHEMISTRY
(2021)
Article
Plant Sciences
Chi Xu, Zhanhui Zhang, Juan He, Yongsheng Bai, Jie Cui, Lin Liu, Jihua Tang, Guiliang Tang, Xuemei Chen, Beixin Mo
Summary: RCF1 is shown to play a role in pri-miRNA processing and splicing, as well as pre-mRNA splicing in Arabidopsis thaliana. A mutant with miRNA biogenesis defects was identified, and it was found to be caused by a recessive point mutation in RCF1 (rcf1-4). RCF1 promotes D-body formation and facilitates the interaction between pri-miRNAs and HYL1, and rcf1-4 exhibits a global splicing defect in intron-containing pri-miRNAs and pre-mRNAs. This study uncovers the importance of RCF1 in miRNA biogenesis and RNA splicing in Arabidopsis.
Editorial Material
Biochemistry & Molecular Biology
Balagopal Pai
Summary: Maintaining cellular homeostasis requires precise control of gene expression, with miRNAs playing a crucial role. While our understanding of miRNA biogenesis and function has advanced, different cell types in diverse organisms may have evolved distinct mechanisms for regulating miRNAs. In this issue, Oikawa and colleagues explore the molecular dynamics of miRNAs in adult skeletal muscles, raising intriguing questions for further investigation into alternative mechanisms of miRNA biogenesis.
Article
Biochemistry & Molecular Biology
Damian A. Cambiagno, Axel J. Giudicatti, Agustin L. Arce, Delfina Gagliardi, Lei Li, Wei Yuan, Derek S. Lundberg, Detlef Weigel, Pablo A. Manavella
Summary: Studies have shown that HST plays a crucial role in the miRNA pathway in Arabidopsis by facilitating the stability of the DCL1-MED37 complex, thereby regulating the transcription and processing of primary miRNAs.
Article
Multidisciplinary Sciences
Yingzi Cui, Xuehui Lyu, Li Ding, Lan Ke, Dechang Yang, Mehdi Pirouz, Ye Qi, Jennie Ong, Ge Gao, Peng Du, Richard Gregory
Summary: microRNAs play essential roles in embryonic development, with dysregulation potentially leading to cancer. Alterations in global miRNA abundance can affect lipid metabolic pathways. Imbalance in the Microprocessor protein complex can reduce miRNA processing and interfere with embryonic development.
Review
Biochemistry & Molecular Biology
Mu Li, Bin Yu
Summary: miRNAs are crucial non-coding riboregulators of gene expression in plants and animals, guiding AGO to target RNAs for gene silencing. In plants, miRNAs are derived from pri-miRNA transcripts and processed by DICER-LIKE1-containing complex. Plants employ various mechanisms to control miRNA accumulation, including regulation of pri-miRNA levels and DCL1 complex activities.
Article
Chemistry, Analytical
Pratik Shah, Suk Won Choi, Ho-jin Kim, Seok Keun Cho, Peter Waaben Thulstrup, Morten Jannik Bjerrum, Yong-Joo Bhang, Jong Cheol Ahn, Seong Wook Yang
Article
Biochemistry & Molecular Biology
Pratik Shah, Suk Won Choi, Ho-jin Kim, Seok Keun Cho, Yong-Joo Bhang, Moon Young Ryu, Peter Waaben Thulstrup, Morten Jannik Bjerrum, Seong Wook Yang
NUCLEIC ACIDS RESEARCH
(2016)
Article
Biochemistry & Molecular Biology
Seok Keun Cho, Moon Young Ryu, Christian Poulsen, Jong Hum Kim, Tae Rin Oh, Suk Won Choi, Mijung Kim, Jun-Yi Yang, Kyung Hwan Boo, Naomi Geshi, Woo Taek Kim, Seong Wook Yang
Article
Cell Biology
Natalia P. Achkar, Seok Keun Cho, Christian Poulsen, Agustin L. Arce, Delfina A. Re, Axel J. Giudicatti, Elizabeth Karayekov, Moon Young Ryu, Suk Won Choi, Jesper Harholt, Jorge J. Casal, Seong Wook Yang, Pablo A. Manavella
DEVELOPMENTAL CELL
(2018)
Article
Plant Sciences
Ulla Dolde, Vandasue Rodrigues, Daniel Straub, Kaushal Kumar Bhati, Sukwon Choi, Seong Wook Yang, Stephan Wenkel
Article
Chemistry, Analytical
Pratik Shah, Peter Waaben Thulstrup, Seok Keun Cho, Yong-Joo Bhang, Jong Cheol Ahn, Suk Won Choi, Morten Jannik Bjerrum, Seong Wook Yang
Article
Nanoscience & Nanotechnology
Pratik Shah, Seok Keun Cho, Peter Waaben Thulstrup, Yong-Joo Bhang, Jong Cheol Ahn, Suk Won Choi, Andreas Rorvig-Lund, Seong Wook Yang
Article
Biochemistry & Molecular Biology
Suk Won Choi, Moon Young Ryu, Andras Viczian, Hyun Ju Jung, Gu Min Kim, Agustin L. Arce, Natalia P. Achkar, Pablo Manavella, Ulla Dolde, Stephan Wenkel, Attila Molnar, Ferenc Nagy, Seok Keun Cho, Seong Wook Yang
Article
Multidisciplinary Sciences
Hyun Ju Jung, Suk Won Choi, Kyung-Hwan Boo, Jee-Eun Kim, Young Kyoung Oh, Min Kyun Han, Moon Young Ryu, Chang Woo Lee, Christian Moller, Pratik Shah, Gu Min Kim, Woorim Yang, Seok Keun Cho, Seong Wook Yang
Summary: The protein HCS1 is identified as a cytoplasmic protease that degrades HYL1, which is important for miRNA biogenesis. The activity of HCS1 is regulated by light and darkness, with COP1 suppressing its activity in light and promoting its activity in darkness.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Multidisciplinary Sciences
Lin Wang, Xingxing Yan, Yanjun Li, Zhiye Wang, Shweta Chhajed, Baoshuan Shang, Zhen Wang, Suk Won Choi, Hongwei Zhao, Sixue Chen, Xiuren Zhang
Summary: Phosphorylation can regulate miRNA metabolism by controlling the accumulation balance of SE and quickly clearing excessive SE.
Article
Environmental Sciences
Youngjae Pyo, Gu Min Kim, Suk Won Choi, Chang Yeob Song, Seong Wook Yang, Il Lae Jung
ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY
(2020)
Article
Chemistry, Multidisciplinary
Pratik Shah, Suk Won Choi, Riddhi Nagda, Reka Geczy, Seok Keun Cho, Yong Joo Bhang, Tae-Hwan Kim, Tae Yang Song, Phil Hyu Lee, Ju-Hee Kang, Peter Waaben Thulstrup, Morten Jannik Bjerrum, Il Lae Jung, Seong Wook Yang