☆ 4.7 Review

Molecular evolution and functional modification of plant miRNAs with CRISPR

TRENDS IN PLANT SCIENCE (2022)

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Review Biochemistry & Molecular Biology

The CRISPR-Cas toolbox and gene editing technologies

Guanwen Liu et al.

Summary: The emergence of CRISPR-Cas systems has greatly advanced gene editing technologies in the field of life sciences. Various CRISPR-Cas tools have been engineered to improve their performance, allowing for a broader range of targets, higher efficiency and specificity, and greater precision. Additionally, functional elements have been introduced to enable precise gene modification, gene expression control, and epigenetic changes. This review provides an overview of different types of CRISPR-Cas tools, discusses current limitations, and explores future prospects for optimizing CRISPR-Cas systems.

MOLECULAR CELL (2022)

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Editorial Material Plant Sciences

Mini CRISPR-Cas12f1: a new genome editing tool

Muhammad Jawad Akbar Awan et al.

Summary: A novel mini CRISPR-Cas12f1 system using viral-based vectors and nanoparticles as carriers has been developed to overcome the challenge of delivering appropriately sized Cas effectors to develop transgene-free edited plants.

TRENDS IN PLANT SCIENCE (2022)

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Article Biotechnology & Applied Microbiology

CRISPR-Cas9 mediated OsMIR168a knockout reveals its pleiotropy in rice

Jianping Zhou et al.

Summary: MicroRNA168 (MIR168) is a crucial miRNA in plants, targeting the RNA-induced silencing complex component Argonaute 1 (AGO1) for regulation of plant growth and environmental stress responses. Through generating clean OsMIR168a deletion mutants using CRISPR-Cas9 strategy, this study found that OsMIR168a plays a significant role in regulating important agronomic traits in rice by targeting genes such as OsAGO1 and OsAGO18. Additionally, differential expression of protein-coding genes and miRNAs in the OsMIR168a mutants suggests a major transcriptional regulatory role for OsMIR168a, particularly through its potential target genes.

PLANT BIOTECHNOLOGY JOURNAL (2022)

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Article Biotechnology & Applied Microbiology

The miR156/SPL module regulates apple salt stress tolerance by activating MdWRKY100 expression

Yue Ma et al.

Summary: Salt stress significantly hinders plant growth and crop yield, leading to reduction of apple production regions. The miR156/SPL regulatory module in apple plays a crucial role in salt tolerance by up-regulating the MdWRKY100 gene.

PLANT BIOTECHNOLOGY JOURNAL (2021)

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Article Biochemistry & Molecular Biology

MiR529a controls plant height, tiller number, panicle architecture and grain size by regulating SPL target genes in rice (Oryza sativa L.)

Yan Yan et al.

Summary: Rice breeding aims to develop high-yield, multi-resistant and high-quality varieties, regulated by genetic and environmental factors. miR529a controls rice growth and development by regulating its SPL target genes, offering a new approach to improving rice yield.

PLANT SCIENCE (2021)

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Review Plant Sciences

Rhizospheric Plant-Microbe Interactions: miRNAs as a Key Mediator

Harriet Middleton et al.

Summary: Through coevolution, plants and microbes co-shape the plant microbiota, with miRNAs playing a crucial role as key mediators.

TRENDS IN PLANT SCIENCE (2021)

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Review Biotechnology & Applied Microbiology

Gene editing to facilitate hybrid crop production

Guimin Chen et al.

Summary: Innovative technologies such as genome editing and apomixis systems play a key role in facilitating hybrid crop production, helping to address technical challenges in harnessing heterosis for increased productivity.

BIOTECHNOLOGY ADVANCES (2021)

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Review Biochemistry & Molecular Biology

Genome editing for plant research and crop improvement

Xiangqiang Zhan et al.

Summary: The CRISPR technology has significantly impacted plant biology and crop improvement, with developments ranging from gene disruption to precise editing techniques like base editing and gene targeting. Advances have also been made in using different CRISPR systems for gene transcription and epigenome control.

JOURNAL OF INTEGRATIVE PLANT BIOLOGY (2021)

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Article Biochemistry & Molecular Biology

HASTY modulates miRNA biogenesis by linking pri-miRNA transcription and processing

Damian A. Cambiagno et al.

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.

MOLECULAR PLANT (2021)

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The miR172/IDS1 signaling module confers salt tolerance through maintaining ROS homeostasis in cereal crops

Xiliu Cheng et al.

Summary: The miRNA miR172 acts as a positive regulator of salt tolerance in cereal crops, especially in maintaining ROS homeostasis during salt stress by balancing the expression of a group of ROS-scavenging genes.

NEW PHYTOLOGIST (2021)

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Article Plant Sciences

miR169c-NFYA-C-ENOD40 modulates nitrogen inhibitory effects in soybean nodulation

Hanyu Xu et al.

Summary: The miR169c-NFYA-C-ENOD40 module is a newly discovered regulatory pathway that modulates soybean nodulation in response to nitrogen availability. This pathway involves miR169c inhibiting nodulation by targeting GmNFYA-C, while overexpression of GmNFYA-C promotes nodulation by facilitating rhizobium infection and increasing the expression of symbiotic signaling gene GmENOD40.

NEW PHYTOLOGIST (2021)

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Article Plant Sciences

Editing miR482b and miR482c Simultaneously by CRISPR/Cas9 Enhanced Tomato Resistance to Phytophthora infestans

Yuhui Hong et al.

Summary: The study successfully knocked out miR482b and miR482c simultaneously in tomatoes using the CRISPR/Cas9 system, resulting in transgenic plants with increased resistance to late blight. Simultaneous knockout of miR482b and miR482c was more effective than knocking out miR482b alone, and led to perturbations in the expression of other miRNAs.

PHYTOPATHOLOGY (2021)

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Review Plant Sciences

Base editing in rice: current progress, advances, limitations, and future perspectives

Rajesh Yarra et al.

Summary: Base editing is a promising genome editing tool for generating single-nucleotide changes in the rice genome, which is essential for developing new rice varieties with desirable agronomic traits to sustain global food security. Base editing technology utilizes adenosine or cytidine base editors for precise editing at the target region, making it an efficient and reliable tool for rice crop improvement. This review discusses different adenine and cytosine base editors developed for precise genome editing of rice, addressing the current progress, advances, limitations, and future perspectives of base editing technology for rice crop improvement.

PLANT CELL REPORTS (2021)

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Article Biochemistry & Molecular Biology

Multiplex CRISPR-Cas9 mutagenesis of the phytochrome gene family in Physcomitrium (Physcomitrella) patens

Silvia Trogu et al.

Summary: This study utilized highly-efficient CRISPR-Cas9 procedures to mutate all seven phytochrome genes in the model bryophyte Physcomitrium patens, identifying phy5a as the main phytochrome responsible for inhibiting gravitropism in light. The CRISPR-Cas9 system proved to be a powerful tool for genome editing, with successful targeting of all seven PHY genes in a single transfection. This mutant collection is expected to be valuable for further studies of phytochrome function, and the methods used in this study may be applicable for revealing specific functions in other gene families.

PLANT MOLECULAR BIOLOGY (2021)

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Involvement of the miR156/SPL module in flooding response in Medicago sativa

Biruk A. Feyissa et al.

Summary: The study investigated the involvement and mechanism of action of the miR156/SPL module in flooding tolerance in alfalfa. Results showed that the miR156/SPL module plays a vital role in regulating adaptive responses to flooding in alfalfa.

SCIENTIFIC REPORTS (2021)

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Article Biochemistry & Molecular Biology

Redundant and specific roles of individual MIR172 genes in plant development

Heng Lian et al.

Summary: Evolutionarily conserved microRNAs with high copy numbers in the genome play important roles in regulating plant developmental transitions. Utilizing CRISPR-Cas9 technology, the study investigated the functions of all 5 members of the MIR172 family in Arabidopsis, revealing their distinct expression patterns and functional specificity in various developmental processes. The findings highlight the spatiotemporal changes in gene expression that underlie evolutionary novelties of microRNA gene families in nature.

PLOS BIOLOGY (2021)

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Review Biochemical Research Methods

Molecular Switch Engineering for Precise Genome Editing

Daisuke Matsumoto et al.

Summary: Genome editing technology began in 1996 with the discovery of the first zinc-finger nuclease. The CRISPR-Cas9 technology has greatly facilitated genome editing, but off-target effects remain a challenge. Molecular/protein engineering has allowed for significant improvements in genome editing technology, particularly through the development of novel switching systems for precise editing.

BIOCONJUGATE CHEMISTRY (2021)

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Article Biochemistry & Molecular Biology

Genome-wide programmable transcriptional memory by CRISPR-based epigenome editing

James K. Nunez et al.

Summary: CRISPRoff is a programmable epigenetic memory writer that can heritably alter gene expression by initiating specific DNA methylation and gene repression. The tool utilizes a single dead Cas9 fusion protein to establish these modifications, which are maintained through cell division and differentiation processes. By pairing CRISPRoff with genome-wide screens and analysis of chromatin marks, rules for heritable gene silencing can be established, with the tool capable of targeting a wide range of genes beyond canonical CpG islands.

CELL (2021)

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Review Plant Sciences

CRISPR/dCas-mediated transcriptional and epigenetic regulation in plants

Changtian Pan et al.

Summary: The precise genome editing mediated by the CRISPR/Cas system has revolutionized genome engineering, with the use of dCas variants expanding its applications to genetic and translational research without inducing DNA double-strand breaks. Fusion of effector domains to dCas proteins empowers the CRISPR/dCas system as a multifunctional platform, enabling gene expression regulation, epigenetic regulation, and sequence-specific imaging. This review highlights recent advances in transcriptional activation and repression, as well as epigenetic modifications, and discusses the future directions and broader applications of the CRISPR/dCas systems in plants.

CURRENT OPINION IN PLANT BIOLOGY (2021)

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MIR172d Is Required for Floral Organ Identity and Number in Tomato

Wanping Lin et al.

Summary: miR172 functions as a central regulator of flowering time and flower development by repressing APETALA2-LIKE transcription factors post-transcriptionally. In tomato, the miR172 family member sly-miR172 is differently expressed during reproductive development, playing a role in floral organ identity and number.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2021)

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Article Biochemistry & Molecular Biology

Genome editing in plants with MAD7 nuclease

Qiupeng Lin et al.

Summary: MAD7 is a novel CRISPR-Cas nuclease that can be used for plant genome editing, recognizing T-rich PAM sequences. By developing variants and additional systems, the targeting range and editing efficiency of MAD7 can be enhanced, and it performs well in multiplex gene editing.

JOURNAL OF GENETICS AND GENOMICS (2021)

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Article Engineering, Environmental

Metalloid hazards: From plant molecular evolution to mitigation strategies

Fenglin Deng et al.

Summary: Plants have developed highly regulated mechanisms to alleviate the toxicity of metalloids and can be used to develop mitigation strategies. Key transporters and regulatory proteins responsive to toxic metalloids have been identified through evolutionary and molecular analyses.

JOURNAL OF HAZARDOUS MATERIALS (2021)

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Article Biochemistry & Molecular Biology

Bract suppression regulated by the miR156/529-SPLs-NL1-PLA1 module is required for the transition from vegetative to reproductive branching in rice

Lei Wang et al.

Summary: This study revealed the importance of bract suppression for reproductive branching in rice, as well as the associated molecular pathway, providing insights into dynamic plant architecture and novel approaches for improving crop yields.

MOLECULAR PLANT (2021)

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Article Plant Sciences

Current status of microRNA-mediated regulation of drought stress responses in cereals

Garima Singroha et al.

Summary: Drought is a major factor affecting crop productivity, and miRNAs have been recognized as new targets for developing stress resistance due to their role as potential regulators of gene expression. miRNAs play important roles in regulating both ABA-dependent and non-ABA-dependent drought pathways, with significant potential to augment plant tolerance to drought stress through gene expression manipulation.

PHYSIOLOGIA PLANTARUM (2021)

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Article Plant Sciences

miR156/157 Targets SPLs to Regulate Flowering Transition, Plant Architecture and Flower Organ Size in Petunia

Qin Zhou et al.

Summary: miR156/157 are highly expressed in Petunia, regulating flowering time and organ growth and development by targeting PhSPL genes. Overexpression or downregulation of PhmiR156/157 levels can modulate plant growth traits such as plant height, branch number, and flowering time.

PLANT AND CELL PHYSIOLOGY (2021)

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Article Multidisciplinary Sciences

Expanding the scope of plant genome engineering with Cas12a orthologs and highly multiplexable editing systems

Yingxiao Zhang et al.

Summary: This study expands the targeting scope of Cas12a in crop genome engineering by screening Cas12a orthologs and developing a highly multiplexable editing system, with Mb2Cas12a showing outstanding editing efficiency and tolerance to low temperature. Additionally, two compact single transcript unit CRISPR-Cas12a interference systems were developed for multi-gene repression in rice and Arabidopsis.

NATURE COMMUNICATIONS (2021)

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Article Biology

Genome-wide analyses across Viridiplantae reveal the origin and diversification of small RNA pathway-related genes

Sibo Wang et al.

Summary: The study reveals that streptophyte algae progressively adapted to a subaerial environment through the evolution of plant-like miRNA biosynthesis and degradation pathways. Two major evolutionary transitions in small RNA metabolism in streptophyte algae were identified, linked to abiotic stress responses, evolution of multicellularity, pathogen defense, and antibacterial immunity. The origin and diversification of DICER and AGO genes among streptophyte algae reflected progressive adaptations during evolution.

COMMUNICATIONS BIOLOGY (2021)

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Article Plant Sciences

Derepression of specific miRNA-target genes in rice using CRISPR/Cas9

Yarong Lin et al.

Summary: MicroRNAs target specific mRNA molecules based on sequence complementarity for their degradation or repression of translation. Using target mimicry (MIM) and short tandem target mimicry (STTM) can block miRNAs activity and eliminate the inhibition of their target genes, resulting in phenotypic changes. CRISPR/Cas9-mediated disruption of miRNA target sites can effectively derepress particular target genes in plants for trait improvement.

JOURNAL OF EXPERIMENTAL BOTANY (2021)

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Review Biotechnology & Applied Microbiology

In vivo somatic cell base editing and prime editing

Gregory A. Newby et al.

Summary: Recent advances in genome editing technologies have made single-dose cures for genetic diseases more promising. Base editors and prime editors offer greater precision and efficiency compared to nuclease-dependent editing approaches, with less unwanted byproducts. Delivery of these editors in animal models has shown promise for in vivo therapeutic genome editing.

MOLECULAR THERAPY (2021)

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Article Biochemistry & Molecular Biology

Programmed genome editing by a miniature CRISPR-Cas12f nuclease

Zhaowei Wu et al.

Summary: Miniature CRISPR-AsCas12f1 has been biochemically characterized and engineered as an effective genome-editing tool for bacteria and human cells. Its small size allows for advantageous cellular delivery, offering more therapeutic options and functionality for this field. AsCas12f1 functions as an effective genome-editing tool in both bacteria and human cells using various delivery methods.

NATURE CHEMICAL BIOLOGY (2021)

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Letter Biotechnology & Applied Microbiology

CRISPR-Cereal: a guide RNA design tool integrating regulome and genomic variation for wheat, maize and rice

Chao He et al.

PLANT BIOTECHNOLOGY JOURNAL (2021)

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Article Biotechnology & Applied Microbiology

Expanding the range of editable targets in the wheat genome using the variants of the Cas12a and Cas9 nucleases

Wei Wang et al.

Summary: The development of CRISPR-based editors with distinct PAM recognition and different spacer requirements expands genomic applications. Engineered variant LbCas12a showed increased gene editing efficiency, especially when guided by ribozymes and subjected to high-temperature treatment. Engineered variants of Cas12a and Cas9 further expand editable loci in the wheat genome, with Cas9-NG demonstrating higher editing efficiency on atypical PAM targets compared to xCas9.

PLANT BIOTECHNOLOGY JOURNAL (2021)

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LPA2 protein is involved in photosystem II assembly in Chlamydomonas reinhardtii

Michela Cecchin et al.

Summary: This study generated lpa2 knockout mutants in Chlamydomonas reinhardtii using the CRISPR-Cas9 system and found that the absence of LPA2 protein resulted in impaired PSII assembly and function, leading to compromised photoautotrophic growth.

PLANT JOURNAL (2021)

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Plant PIEZO homologs modulate vacuole morphology during tip growth

Ivan Radin et al.

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SCIENCE (2021)

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Construct design for CRISPR/Cas-based genome editing in plants

Md Mahmudul Hassan et al.

Summary: CRISPR construct design is essential for genome editing, involving selection of Cas proteins, gRNAs, and regulatory elements. This review covers different options for CRISPR-based genome editors in plant editing, gRNA design, multiplex construct strategies, and challenges in construct optimization.

TRENDS IN PLANT SCIENCE (2021)

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A donor-DNA-free CRISPR/Cas-based approach to gene knock-up in rice

Yu Lu et al.

Summary: Structural variations (SVs) play a crucial role in important agronomic traits in crops, and using CRISPR/Cas9 designed large-scale genomic inversion or duplication can create new genes and traits in rice.

NATURE PLANTS (2021)

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Exogenous miRNAs induce post-transcriptional gene silencing in plants

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Summary: Plants can uptake exogenous RNA to affect gene expression in nearby plants via RNAi mechanism, indicating a role of miRNA as signaling molecules for plant-to-plant communication. This communication mechanism requires the production of secondary siRNAs.

NATURE PLANTS (2021)

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OsmiR396/growth regulating factor modulate rice grain size through direct regulation of embryo-specific miR408

Xiaofang Yang et al.

Summary: Research findings show that sequestering OsmiR396 through target mimicry substantially increases rice grain size, with OsGRF8 potentially functioning as a major mediator in OsmiR396 regulation of grain size, and OsmiR408 also positively regulating grain size.

PLANT PHYSIOLOGY (2021)

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Review Plant Sciences

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Review Plant Sciences

CRISPR/Cas Genome Editing and Precision Plant Breeding in Agriculture

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ANNUAL REVIEW OF PLANT BIOLOGY, VOL 70 (2019)

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Review Plant Sciences

MicroRNAs and Their Regulatory Roles in Plant-Environment Interactions

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ANNUAL REVIEW OF PLANT BIOLOGY, VOL 70 (2019)

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Article Biochemistry & Molecular Biology

Development of a Haploid-Inducer Mediated Genome Editing System for Accelerating Maize Breeding

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MOLECULAR PLANT (2019)

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Article Biochemistry & Molecular Biology

Improving Plant Genome Editing with High-Fidelity xCas9 and Non-canonical PAM-Targeting Cas9-NG

Zhaohui Zhong et al.

MOLECULAR PLANT (2019)

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Article Biotechnology & Applied Microbiology

One-step genome editing of elite crop germplasm during haploid induction

Timothy Kelliher et al.

NATURE BIOTECHNOLOGY (2019)

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Article Multidisciplinary Sciences

Evolution of chloroplast retrograde signaling facilitates green plant adaptation to land

Chenchen Zhao et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2019)

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Article Multidisciplinary Sciences

Site-specific manipulation of Arabidopsis loci using CRISPR-Cas9 SunTag systems

Ashot Papikian et al.

NATURE COMMUNICATIONS (2019)

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Review Biotechnology & Applied Microbiology

Recent advances in small RNA mediated plant-virus interactions

Ashish Prasad et al.

CRITICAL REVIEWS IN BIOTECHNOLOGY (2019)

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Review Cell Biology

The next generation of CRISPR-Cas technologies and applications

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NATURE REVIEWS MOLECULAR CELL BIOLOGY (2019)

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Review Biotechnology & Applied Microbiology

MicroRNAs and new biotechnological tools for its modulation and improving stress tolerance in plants

Marcos Fernando Basso et al.

PLANT BIOTECHNOLOGY JOURNAL (2019)

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Letter Biotechnology & Applied Microbiology

Robust CRISPR/Cpf1 (Cas12a)-mediated genome editing in allotetraploid cotton (Gossypium hirsutum)

Bo Li et al.

PLANT BIOTECHNOLOGY JOURNAL (2019)

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Article Multidisciplinary Sciences

Role for the shoot apical meristem in the specification of juvenile leaf identity in Arabidopsis

Jim P. Fouracre et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2019)

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Review Biotechnology & Applied Microbiology

CRISPR/Cas-Mediated Base Editing: Technical Considerations and Practical Applications

Kutubuddin A. Molla et al.

TRENDS IN BIOTECHNOLOGY (2019)

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Article Agronomy

miR156f integrates panicle architecture through genetic modulation of branch number and pedicel length pathways

Xiaofang Yang et al.

RICE (2019)

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Article Plant Sciences

TEMPRANILLO is a direct repressor of the microRNA miR172

Andrea E. Aguilar-Jaramillo et al.

PLANT JOURNAL (2019)

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Article Biochemistry & Molecular Biology

CRISPR-TSKO: A Technique for Efficient Mutagenesis in Specific Cell Types, Tissues, or Organs in Arabidopsis

Ward Decaestecker et al.

PLANT CELL (2019)

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Article Biochemistry & Molecular Biology

MicroRNA Dynamics and Functions During Arabidopsis Embryogenesis

Alexandra Plotnikova et al.

PLANT CELL (2019)

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Review Cell Biology

Plant Noncoding RNAs: Hidden Players in Development and Stress Responses

Yu Yu et al.

ANNUAL REVIEW OF CELL AND DEVELOPMENTAL BIOLOGY, VOL 35 (2019)

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Article Biochemistry & Molecular Biology

An Early Arising Role of the MicroRNA156/529-SPL Module in Reproductive Development Revealed by the Liverwort Marchantia polymorpha

Masayuki Tsuzuki et al.

CURRENT BIOLOGY (2019)

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Article Multidisciplinary Sciences

The grain yield modulator miR156 regulates seed dormancy through the gibberellin pathway in rice

Chunbo Miao et al.

NATURE COMMUNICATIONS (2019)

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Article Multidisciplinary Sciences

High efficacy full allelic CRISPR/Cas9 gene editing in tetraploid potato

Ida Elisabeth Johansen et al.

SCIENTIFIC REPORTS (2019)

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Review Biochemistry & Molecular Biology

A Regulatory Network for miR156-SPL Module in Arabidopsis thaliana

Chenfei Zheng et al.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2019)

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Article Biochemistry & Molecular Biology

MicroRNA156 amplifies transcription factor-associated cold stress tolerance in plant cells

Mingqin Zhou et al.

MOLECULAR GENETICS AND GENOMICS (2019)

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Article Biochemistry & Molecular Biology

miRBase: from microRNA sequences to function

Ana Kozomara et al.

NUCLEIC ACIDS RESEARCH (2019)

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Article Plant Sciences

CRISPR/Cas9 mutagenesis in Volvox carteri

Jose A. Ortega-Escalante et al.

PLANT JOURNAL (2019)

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Article Plant Sciences

Archetypal Roles of an Abscisic Acid Receptor in Drought and Sugar Responses in Liverworts

Akida Jahan et al.

PLANT PHYSIOLOGY (2019)

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Review Plant Sciences

CRISPR/Cas System: Recent Advances and Future Prospects for Genome Editing

Hakim Manghwar et al.

TRENDS IN PLANT SCIENCE (2019)

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Article Biotechnology & Applied Microbiology

High efficient multisites genome editing in allotetraploid cotton (Gossypium hirsutum) using CRISPR/Cas9 system

Pengcheng Wang et al.

PLANT BIOTECHNOLOGY JOURNAL (2018)

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Review Plant Sciences

Regulation of low temperature stress in plants by microRNAs

Swati Megha et al.

PLANT CELL AND ENVIRONMENT (2018)

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Review Biochemistry & Molecular Biology

CRISPR base editors: genome editing without double-stranded breaks

Ayman Eid et al.

BIOCHEMICAL JOURNAL (2018)

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Review Biochemistry & Molecular Biology

Harnessing natural DNA modifying activities for editing of the genome and epigenome

Jamie E. DeNizio et al.

CURRENT OPINION IN CHEMICAL BIOLOGY (2018)

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Review Plant Sciences

Despacito: the slow evolutionary changes in plant microRNAs

Patricia Baldrich et al.

CURRENT OPINION IN PLANT BIOLOGY (2018)

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Article Biochemistry & Molecular Biology

Nucleo-cytosolic Shuttling of ARGONAUTE1 Prompts a Revised Model of the Plant MicroRNA Pathway

Nicolas G. Bologna et al.

MOLECULAR CELL (2018)

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Review Biochemistry & Molecular Biology

Advances in CLIP Technologies for Studies of Protein-RNA Interactions

Flora C. Y. Lee et al.

MOLECULAR CELL (2018)

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Article Biochemistry & Molecular Biology

Robust Transcriptional Activation in Plants Using Multiplexed CRISPR-Act2.0 and mTALE-Act Systems

Levi G. Lowder et al.

MOLECULAR PLANT (2018)

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Review Biochemistry & Molecular Biology

cis-trans Engineering: Advances and Perspectives on Customized Transcriptional Regulation in Plants

Ankita Shrestha et al.

MOLECULAR PLANT (2018)

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Article Plant Sciences

Class C ARFs evolved before the origin of land plants and antagonize differentiation and developmental transitions in Marchantia polymorpha

Eduardo Flores-Sandoval et al.

NEW PHYTOLOGIST (2018)

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Review Plant Sciences

MicroRNAs in Marchantia polymorpha

Shih-Shun Lin et al.

NEW PHYTOLOGIST (2018)

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Review Biology

microRNA-mediated R gene regulation: molecular scabbards for double-edged swords

Yingtian Deng et al.

SCIENCE CHINA-LIFE SCIENCES (2018)

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Review Multidisciplinary Sciences

The CRISPR tool kit for genome editing and beyond

Mazhar Adli

NATURE COMMUNICATIONS (2018)

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Article Biochemical Research Methods

miRAW: A deep learning-based approach to predict microRNA targets by analyzing whole microRNA transcripts

Albert Pla et al.

PLOS COMPUTATIONAL BIOLOGY (2018)

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Article Plant Sciences

Tuning of SlARF10A dosage by sly-miR160a is critical for auxin-mediated compound leaf and flower development

Subha Damodharan et al.

PLANT JOURNAL (2018)

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Article Biotechnology & Applied Microbiology

Expanded base editing in rice and wheat using a Cas9-adenosine deaminase fusion

Chao Li et al.

GENOME BIOLOGY (2018)

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Letter Biochemistry & Molecular Biology

CRISPR-P 2.0: An Improved CRISPR-Cas9 Tool for Genome Editing in Plants

Hao Liu et al.

MOLECULAR PLANT (2017)

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Letter Biochemistry & Molecular Biology

Precise Editing of a Target Base in the Rice Genome Using a Modified CRISPR/Cas9 System

Yuming Lu et al.

MOLECULAR PLANT (2017)

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Article Biochemistry & Molecular Biology

A Multipurpose Toolkit to Enable Advanced Genome Engineering in Plants

Tomas Cermak et al.

PLANT CELL (2017)

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Article Plant Sciences

Roles of miR319 and TCP Transcription Factors in Leaf Development

Tomotsugu Koyama et al.

PLANT PHYSIOLOGY (2017)

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Article Multidisciplinary Sciences

Short tandem target mimic rice lines uncover functions of miRNAs in regulating important agronomic traits

Hui Zhang et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2017)

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Article Plant Sciences

CRISPR-Cas9 Based Genome Editing Reveals New Insights into MicroRNA Function and Regulation in Rice

Jianping Zhou et al.

FRONTIERS IN PLANT SCIENCE (2017)

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Article Plant Sciences

A potent Cas9-derived gene activator for plant and mammalian cells

Zhenxiang Li et al.

NATURE PLANTS (2017)

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Article Plant Sciences

Profiling and Characterization of Small RNAs in the Liverwort, Marchantia polymorpha, Belonging to the First Diverged Land Plants

Masayuki Tsuzuki et al.

PLANT AND CELL PHYSIOLOGY (2016)

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Article Multidisciplinary Sciences

Programmable editing of a target base in genomic DNA without double-stranded DNA cleavage

Alexis C. Komor et al.

NATURE (2016)

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Review Plant Sciences

miRNA Biogenesis: A Dynamic Pathway

Natalia P. Achkar et al.

TRENDS IN PLANT SCIENCE (2016)

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Article Biochemical Research Methods

Learning to Predict miRNA-mRNA Interactions from AGO CLIP Sequencing and CLASH Data

Yuheng Lu et al.

PLOS COMPUTATIONAL BIOLOGY (2016)

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Article Biotechnology & Applied Microbiology

Targeted genome modifications in soybean with CRISPR/Cas9

Thomas B. Jacobs et al.

BMC BIOTECHNOLOGY (2015)

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Article Plant Sciences

A CRISPR/Cas9 Toolbox for Multiplexed Plant Genome Editing and Transcriptional Regulation

Levi G. Lowder et al.

PLANT PHYSIOLOGY (2015)

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Article Biochemical Research Methods

Mapping the miRNA interactome by cross-linking ligation and sequencing of hybrids (CLASH)

Aleksandra Helwak et al.

NATURE PROTOCOLS (2014)

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Review Plant Sciences

Targeted genome modification technologies and their applications in crop improvements

Kunling Chen et al.

PLANT CELL REPORTS (2014)

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Article Biochemical Research Methods

MicroRNA target site identification by integrating sequence and binding information

William H. Majoros et al.

NATURE METHODS (2013)

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Review Multidisciplinary Sciences

Analysis of the genome sequence of the flowering plant Arabidopsis thaliana

S Kaul et al.

NATURE (2000)

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