MiRNA fine tuning for crop improvement: using advance computational models and biotechnological tools

被引:15
作者
Abbas, Asad [1 ]
Shah, Adnan Noor [2 ]
Tanveer, Mohsin [3 ]
Ahmed, Waseem [4 ]
Shah, Anis Ali [5 ]
Fiaz, Sajid [6 ]
Waqas, Muhammad Mohsin [2 ]
Ullah, Sami [7 ]
机构
[1] Anhui Agr Univ, Sch Hort, Hefei 230036, Peoples R China
[2] Khwaja Fareed Univ Engn & Informat Technol, Dept Agr Engn, Rahim Yar Khan 64200, Punjab, Pakistan
[3] Univ Tasmania, Tasmanian Inst Agr, Hobart, Tas, Australia
[4] Univ Haripur, Dept Hort, Hatatr Rd, Haripur 22620, Pakistan
[5] Univ Educ, Dept Bot, Div Sci & Technol, Lahore, Pakistan
[6] Univ Haripur, Dept Plant Breeding & Genet, Haripur, Pakistan
[7] King Khalid Univ, Coll Sci, Dept Chem, Abha 61413, Saudi Arabia
关键词
MiRNA; Fine tuning; Crop stress tolerance; Computational models; Biotechnological tools; SMALL RNAS; TARGET INTERACTIONS; GENE-REGULATION; MICRORNA GENES; PLANT; IDENTIFICATION; TRANSCRIPTOME; INSIGHTS; RECOGNITION; MECHANISMS;
D O I
10.1007/s11033-022-07231-5
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
MiRNAs modulate target genes expression at post-transcriptional levels, by reducing spatial abundance of mRNAs. MiRNAs regulats plant metabolism, and emerged as regulators of plant stress responses. Which make miRNAs promising candidates for fine tuning to affectively alter crop stress tolerance and other important traits. With recent advancements in the computational biology and biotechnology miRNAs structure and target prediction is possible resulting in pin point editing; miRNA modulation can be done by up or down regulating miRNAs using recently available biotechnological tools (CRISPR Cas9, TALENS and RNAi). In this review we have focused on miRNA biogenesis, miRNA roles in plant development, plant stress responses and roles in signaling pathways. Additionally we have discussed latest computational prediction models for miRNA to target gene interaction and biotechnological systems used recently for miRNA modulation. We have also highlighted setbacks and limitations in the way of miRNA modulation; providing entirely a new direction for improvement in plant genomics primarily focusing miRNAs.
引用
收藏
页码:5437 / 5450
页数:14
相关论文
共 128 条
[61]   MicroRNA-Mediated Gene Silencing in Plant Defense and Viral Counter-Defense [J].
Liu, Sheng-Rui ;
Zhou, Jing-Jing ;
Hu, Chun-Gen ;
Wei, Chao-Ling ;
Zhang, Jin-Zhi .
FRONTIERS IN MICROBIOLOGY, 2017, 8
[62]   Learning to Predict miRNA-mRNA Interactions from AGO CLIP Sequencing and CLASH Data [J].
Lu, Yuheng ;
Leslie, Christina S. .
PLOS COMPUTATIONAL BIOLOGY, 2016, 12 (07)
[63]   Regulation of flowering time by the histone deacetylase HDA5 in Arabidopsis [J].
Luo, Ming ;
Tai, Ready ;
Yu, Chun-Wei ;
Yang, Songguang ;
Chen, Chia-Yang ;
Lin, Wen-Dar ;
Schmidt, Wolfgang ;
Wu, Keqiang .
PLANT JOURNAL, 2015, 82 (06) :925-936
[64]   Plant gene editing through de novo induction of meristems [J].
Maher, Michael F. ;
Nasti, Ryan A. ;
Vollbrecht, Macy ;
Starker, Colby G. ;
Clark, Matthew D. ;
Voytas, Daniel F. .
NATURE BIOTECHNOLOGY, 2020, 38 (01) :84-+
[65]   MicroRNA target site identification by integrating sequence and binding information [J].
Majoros, William H. ;
Lekprasert, Parawee ;
Mukherjee, Neelanjan ;
Skalsky, Rebecca L. ;
Corcoran, David L. ;
Cullen, Bryan R. ;
Ohler, Uwe .
NATURE METHODS, 2013, 10 (07) :630-+
[66]   CRISPR/Cas Systems in Genome Editing: Methodologies and Tools for sgRNA Design, Off-Target Evaluation, and Strategies to Mitigate Off-Target Effects [J].
Manghwar, Hakim ;
Li, Bo ;
Ding, Xiao ;
Hussain, Amjad ;
Lindsey, Keith ;
Zhang, Xianlong ;
Jin, Shuangxia .
ADVANCED SCIENCE, 2020, 7 (06)
[67]   Cross talk between spliceosome and microprocessor defines the fate of pre-mRNA [J].
Mattioli, Chiara ;
Pianigiani, Giulia ;
Pagani, Franco .
WILEY INTERDISCIPLINARY REVIEWS-RNA, 2014, 5 (05) :647-658
[68]   Regulation of MIR165/166 by class II and class III homeodomain leucine zipper proteins establishes leaf polarity [J].
Merelo, Paz ;
Ram, Hathi ;
Caggiano, Monica Pia ;
Ohno, Carolyn ;
Ott, Felix ;
Straub, Daniel ;
Graeff, Moritz ;
Cho, Seok Keun ;
Yang, Seong Wook ;
Wenkel, Stephan ;
Heisler, Marcus G. .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2016, 113 (42) :11973-11978
[69]   CRISPR-Cas12b enables efficient plant genome engineering [J].
Ming, Meiling ;
Ren, Qiurong ;
Pan, Changtian ;
He, Yao ;
Zhang, Yingxiao ;
Liu, Shishi ;
Zhong, Zhaohui ;
Wang, Jiaheng ;
Malzahn, Aimee A. ;
Wu, Jun ;
Zheng, Xuelian ;
Zhang, Yong ;
Qi, Yiping .
NATURE PLANTS, 2020, 6 (03) :202-208
[70]   Seq and CLIP through the miRNA world [J].
Mittal, Nitish ;
Zavolan, Mihaela .
GENOME BIOLOGY, 2014, 15 (01)