Review
Biology
Showkat Ahmad Ganie, Anireddy S. N. Reddy
Summary: When facing environmental stresses, alternative splicing (AS) plays a crucial role in rice by rapidly regulating gene expression to help the plant adapt to various pressures. Studies have shown that AS is important for rice growth and development, especially under stress conditions. Understanding the impact of AS on rice and its pathogens can provide valuable insights for developing stress-resistant rice varieties in the future.
Review
Biochemistry & Molecular Biology
Koushik Halder, Abira Chaudhuri, Malik Z. Abdin, Asis Datta
Summary: The plant transcriptome contains a large number of non-coding RNAs (ncRNAs) which play a role in regulating gene expression. These ncRNAs have been extensively studied since the 1990s to understand their function in gene regulatory networks and their involvement in plant responses to various stresses. Small ncRNAs, such as siRNAs, miRNAs, and tasiRNAs, are of particular interest to molecular breeders due to their agricultural importance. This review provides an overview of the current knowledge on these small ncRNAs, including their biogenesis, mode of action, and their potential use in improving crop productivity and disease resistance.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Plant Sciences
Yingying Zhang, Ye Zhou, Weimin Zhu, Junzhong Liu, Fang Cheng
Summary: Plants have developed sophisticated genetic and epigenetic regulatory mechanisms to balance growth and abiotic stress tolerance. Non-coding RNAs play important roles in these processes, regulating hormone signaling and stress memory. Understanding these regulatory mechanisms can help optimize crop yield.
FRONTIERS IN PLANT SCIENCE
(2022)
Review
Biochemistry & Molecular Biology
Hukam Chand Rawal, Shakir Ali, Tapan Kumar Mondal
Summary: Salinity imbalance leads to yield loss in salt-sensitive crops like rice. The role of non-coding RNAs (ncRNAs) in regulating gene expression under varying salinity tolerance levels is reviewed in this study. While microRNAs (miRNAs) are well studied, tRNA-derived RNA fragments (tRFs) and circular RNA (circRNA) have limited research in plants, especially in the context of salinity stress in rice. This review also highlights strategies for predicting and analyzing these ncRNAs effectively.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2023)
Article
Plant Sciences
Zhigang Li, Jun Yang, Junbo Peng, Zhihua Cheng, Xinsen Liu, Ziding Zhang, Vijai Bhadauria, Wensheng Zhao, You-Liang Peng
Summary: This study identified 3,374 novel genes through RNA-Seq analysis, with the majority likely transcribing lncRNAs, most of which were located in intergenic regions. Additionally, 2,358 genes were found to undergo alternative splicing events. The results suggest that lncRNA transcripts and alternative splicing events are two important mechanisms for regulating gene expression in the rice blast fungus.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Biochemistry & Molecular Biology
Daniele Lettieri-Barbato, Katia Aquilano, Carolina Punziano, Giuseppina Minopoli, Raffaella Faraonio
Summary: Cell senescence plays critical roles in various aspects of organism life, including tissue development, homeostasis, tumor suppression, and aging-related diseases. Oxidative stress, caused by inadequate detoxification of reactive oxygen/nitrogen species, is a major driver of senescence. Non-coding RNAs, such as microRNAs, long non-coding RNAs, and circular RNAs, are important regulators of cellular processes, including oxidative stress responses and senescence.
Article
Biochemistry & Molecular Biology
Bin Wu, Yanni Li, Jishuang Li, Zhenzhen Xie, Mingbao Luan, Chunsheng Gao, Yuhua Shi, Shilin Chen
Summary: This study established transcriptome, small RNA, and degradome libraries of hemp 'Yunma No.1' and predicted transcripts encoding key enzymes involved in the biosynthesis of cannabinoids, FA, and cellulose, as well as identified numerous miRNAs and lncRNAs. Some miRNAs and lncRNAs were predicted to target key enzymes or transporters involved in the biosynthesis of cannabinoids, cellulose, or FA, indicating their potential roles in post-transcriptional regulation. The study also predicted the crosstalk between AS and miRNAs or lncRNAs involved in cannabinoids and cellulose biosynthesis.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Plant Sciences
Abdulrahman Alhabsi, Haroon Butt, Gwendolyn K. Kirschner, Ikram Blilou, Magdy M. Mahfouz, Ramanjulu Sunkar
Summary: This study identifies a new splicing factor in rice, OsSCR106, which is related to the SC-subfamily of SR proteins. It plays an important role in abiotic stress tolerance by controlling alternative gene splicing in rice.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Article
Microbiology
Jintian Tang, Xiaoyang Chen, Yaqin Yan, Junbin Huang, Chaoxi Luo, Hsiang Tom, Lu Zheng
Summary: By combining microscopic and RNA-seq analyses, this study comprehensively characterized lncRNAs of Ustilaginoidea virens during infection and developmental processes, uncovering a novel lncRNA, UvlncNAT-MFS, and demonstrating the potential of lncRNAs in regulating life processes in fungi.
ENVIRONMENTAL MICROBIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Yiqian Ding, Long-Hai Zou, Jiajun Wu, Muthusamy Ramakrishnan, Yubang Gao, Liangzhen Zhao, Mingbing Zhou
Summary: This study firstly reports the abiotic stress-responsive DNA methylation pattern and its involvement in the expression of coding RNAs and non-coding RNAs in Moso bamboo. The results show that DNA methylation in different contexts is associated with gene expression in the promoter region and gene body region. Moreover, the methylation levels of different contexts in the genic regions are correlated with the transcript abundance of non-coding RNAs.
Review
Biochemistry & Molecular Biology
Xue Yang, Zichang Jia, Qiong Pu, Yuan Tian, Fuyuan Zhu, Yinggao Liu
Summary: This paper briefly introduces the mechanism of ABA-induced alternative splicing and the role of ABA mediating AS in plant response to the environment and its own growth.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Review
Oncology
Mohammad Roshani, Ghazaleh Baniebrahimi, Mahboubeh Mousavi, Noushid Zare, Reza Sadeghi, Reza Salarinia, Amirhossein Sheida, Danial Molavizadeh, Sara Sadeghi, Farzaneh Moammer, Mohammad Reza Zolfaghari, Hamed Mirzaei
Summary: Exosomal lncRNAs play a crucial role in the biology of gastrointestinal cancer and can be utilized as biomarkers for diagnosis, prognosis, and potential treatment targets.
FRONTIERS IN ONCOLOGY
(2022)
Review
Plant Sciences
Tao Fan, Mehtab Muhammad Aslam, Jian-Li Zhou, Mo-Xian Chen, Jianhua Zhang, Shenxiu Du, Kai-Lu Zhang, Yun-Sheng Chen
Summary: The circadian clock is an important internal regulatory mechanism that helps organisms adapt to their environment by adjusting environmental constraints. Alternative splicing is a key transcriptional regulator that is involved in the circadian clock and adaptation to abiotic stress. However, there is still limited research on the regulatory mechanism between the circadian clock and alternative splicing.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Cell Biology
Haroon Butt, Jeremie Bazin, Kasavajhala V. S. K. Prasad, Nourelislam Awad, Martin Crespi, Anireddy S. N. Reddy, Magdy M. Mahfouz
Summary: Abiotic stresses have significant impacts on plant growth, development, and crop productivity. The plant-specific splicing factor RS33 plays an important role in regulating pre-mRNA splicing and abiotic stress responses in rice.
Review
Biochemistry & Molecular Biology
Zhennan Zhao, Shoujian Zang, Wenhui Zou, Yong-Bao Pan, Wei Yao, Cuihuai You, Youxiong Que
Summary: This article provides a comprehensive review on the types, roles, and mechanisms of lncRNAs in plants, particularly in coping with environmental stress during growth and development. The article also discusses the coordination between lncRNAs and miRNAs in plant immune responses, as well as the latest research progress on lncRNAs in plant growth, development, and response to biotic and abiotic stresses.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Review
Biotechnology & Applied Microbiology
Pingchuan Deng, Sajid Muhammad, Min Cao, Liang Wu
PLANT BIOTECHNOLOGY JOURNAL
(2018)
Article
Multidisciplinary Sciences
Zhengrui Qin, Yuxue Bai, Sajid Muhammad, Xia Wu, Pingchuan Deng, Jiajie Wu, Hailong An, Liang Wu
NATURE COMMUNICATIONS
(2019)
Article
Biochemistry & Molecular Biology
Md Mosfeq-Ul Hasan, Fanglu Ma, Faisal Islam, Muhammad Sajid, Zakaria H. Prodhan, Feng Li, Hao Shen, Yadong Chen, Xuede Wang
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2019)
Article
Materials Science, Paper & Wood
Ali Muhammad, Huanhuan Hao, Yali Xue, Aftab Alam, Shuming Bai, Weicheng Hu, Muhammad Sajid, Zhen Hu, Rana Abdul Samad, Zihui Li, Peiyao Liu, Zhiqiang Gong, Lingqiang Wang
Article
Plant Sciences
Ameena A. Al-Surhanee, Muhammad Afzal, Nahla Alsayed Bouqellah, Salama A. Ouf, Sajid Muhammad, Mehmood Jan, Sidra Kaleem, Mohamed Hashem, Saad Alamri, Arafat Abdel Hamed Abdel Latef, Omar M. Ali, Mona H. Soliman
Summary: Pathogenic infestations pose significant threats to vegetable yield, with Rhizoctonia solani being a major culprit in reducing tomato crops. While plants have their own defenses, the use of exogenous nanoparticles shows promise in improving plant health and productivity, with silver nanoparticles and chitosan nanoparticles demonstrating antifungal activity against R. solani. Further research is needed to assess the potential secondary impacts of these nanoparticles on human health and the environment.
Review
Cell Biology
Sajid Muhammad, Xiaoli Xu, Weijun Zhou, Liang Wu
Summary: Alternative splicing is a gene regulatory mechanism in plants that modulates gene expression through generating alternative isoforms. This review discusses the modulation of alternative splicing, from its interaction with noncoding RNAs to the roles of splicing factors in response to different stimuli. It emphasizes the importance of considering the dynamic changes in alternative splicing in plant research.
WILEY INTERDISCIPLINARY REVIEWS-RNA
(2023)