CRISPR–Cas-mediated transcriptional control and epi-mutagenesis

Gardiner, Jason; Ghoshal, Basudev; Wang, Ming; Jacobsen, Steven E.

doi:10.1093/plphys/kiac033

Cited by 26 publications

(18 citation statements)

References 177 publications

(259 reference statements)

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“…It was later shown that ZF fusions with many other RdDM-related proteins also caused FWA silencing and methylation [12][13][14] . However, it is largely unknown whether ZF fusions with non-DNA-methylation-related chromatin proteins can also trigger target gene silencing 15 .…”

Section: The Heritability Of Target Gene Silencing In Zf Fusionsmentioning

confidence: 99%

A gene silencing screen uncovers diverse tools for targeted gene repression in Arabidopsis

et al. 2023

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DNA methylation has been utilized for target gene silencing in plants. However, it is not well understood whether other silencing pathways can be also used to manipulate gene expression. Here we performed a gain-of-function screen for proteins that could silence a target gene when fused to an artificial zinc finger. We uncovered many proteins that suppressed gene expression through DNA methylation, histone H3K27me3 deposition, H3K4me3 demethylation, histone deacetylation, inhibition of RNA polymerase II transcription elongation or Ser-5 dephosphorylation. These proteins also silenced many other genes with different efficacies, and a machine learning model could accurately predict the efficacy of each silencer on the basis of various chromatin features of the target loci. Furthermore, some proteins were also able to target gene silencing when used in a dCas9-SunTag system. These results provide a more comprehensive understanding of epigenetic regulatory pathways in plants and provide an armament of tools for targeted gene manipulation.

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Section: The Heritability Of Target Gene Silencing In Zf Fusionsmentioning

confidence: 99%

A gene silencing screen uncovers diverse tools for targeted gene repression in Arabidopsis

et al. 2023

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“…Both prokaryotes and eukaryotes have made significant use of the Cas9-CRISPR system for genome editing by extensive base pairing between the target DNA and a single guide RNA (sgRNA). The target region must also be surrounded by a short protospacer adjacent motif (PAM) sequence before the Cas9 recognizes and cleaves the target DNA ( Chen et al., 2022 ; Chen S et al., 2021 , Chen M et al., 2021 ; Hajian et al., 2019 ; Ganie et al., 2021 ; Gardiner et al., 2022 ; Gehrke et al., 2022 ). A sgRNA may cause unanticipated, off-target changes in the cell when it recognizes a non-target region that is almost identical to the target region and has few base mismatches.…”

Section: Why Crispr-cas Ge Better Than Zfns and Talens Genome Editing?mentioning

confidence: 99%

“…Such genes typically become separated during inheritance if they are dispersed throughout a chromosome, which causes the loss of a desired trait during breeding. The perfect agricultural plant has a high yield, is palatable, and is pest- and disease-resistant ( Chen M et al., 2021 , Chen S et al., 2021 ; Ganie et al., 2021 ; Gardiner et al., 2022 ; Gehrke et al., 2022 )…”

Section: What Benefits Might Crispr/cas-based Gene Editing Offermentioning

confidence: 99%

Plant breeding advancements with “CRISPR-Cas” genome editing technologies will assist future food security

Ahmad

2023

Front. Plant Sci.

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Genome editing techniques are being used to modify plant breeding, which might increase food production sustainably by 2050. A product made feasible by genome editing is becoming better known, because of looser regulation and widespread acceptance. The world’s population and food supply would never have increased proportionally under current farming practices. The development of plants and food production has been greatly impacted by global warming and climate change. Therefore, minimizing these effects is crucial for agricultural production that is sustainable. Crops are becoming more resilient to abiotic stress because of sophisticated agricultural practices and a better understanding of the abiotic stress response mechanism. Both conventional and molecular breeding techniques have been used to create viable crop types both processes are time-consuming. Recently, plant breeders have shown an interest in genome editing approaches for genetic manipulation that use clustered regularly interspaced short palindromic repeats (CRISPR/Cas9). To ensure the security of the food supply in the future, plant kinds with desired traits must be developed. A completely new era in plant breeding has begun because of the revolution in genome editing techniques based on the CRISPR/CRISPR-associated nuclease (Cas9) systems. All plants may effectively target a particular gene or group of loci using Cas9 and single-guide RNA (sgRNA). CRISPR/Cas9 can thereby save time and labor compared to conventional breeding methods. An easy, quick, and efficient method for directly altering the genetic sequences in cells is with the CRISPR and Cas9 systems. The CRISPR-Cas9 system, which was developed from components of the earliest known bacterial immune system, allows for targeted gene breakage and gene editing in a variety of cells/RNA sequences to guide endonuclease cleavage specificity in the CRISPR-Cas9 system. Editing can be directed to practically any genomic site by altering the guide RNA (gRNA) sequence and delivering it to a target cell along with the Cas9 endonuclease. We summarize recent CRISPR/Cas9 plant research findings, investigate potential applications in plant breeding, and make predictions about likely future breakthroughs and approaches to food security through 2050.

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“…CRISPR/Cas was first described as an immune system of archaea and bacteria for defense against viruses by specific interaction of short-viral sequences based on complementarity ( Labrie et al, 2010 ). The system consists of an RNA sequence complementary to the target sequence known as the spacer or CRISPR RNA (crRNA), and a scaffold sequence followed by the CAS protein known as the trans-activating crRNA (tracrRNA; Deltcheva et al, 2011 ; Gardiner et al, 2022 ). The most used system is the CRISPR/Cas9 ( Figure 1 ).…”

Section: Molecular Editing Tools To Improve Plant Immunity Against Vi...mentioning

confidence: 99%

Clustered Regularly Interspaced Short Palindromic Repeats-Associated Protein System for Resistance Against Plant Viruses: Applications and Perspectives

Silva

Fontes

2022

Front. Plant Sci.

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Different genome editing approaches have been used to engineer resistance against plant viruses. The clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated protein (Cas; CRISPR/Cas) systems to create pinpoint genetic mutations have emerged as a powerful tool for molecular engineering of plant immunity and increasing resistance against plant viruses. This review presents (i) recent advances in engineering resistance against plant viruses by CRISPR/Cas and (ii) an overview of the potential host factors as targets for the CRISPR/Cas system-mediated broad-range resistance and immunity. Applications, challenges, and perspectives in enabling the CRISPR/Cas system for crop protection are also outlined.

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CRISPR–Cas-mediated transcriptional control and epi-mutagenesis

Cited by 26 publications

References 177 publications

A gene silencing screen uncovers diverse tools for targeted gene repression in Arabidopsis

A gene silencing screen uncovers diverse tools for targeted gene repression in Arabidopsis

Plant breeding advancements with “CRISPR-Cas” genome editing technologies will assist future food security

Clustered Regularly Interspaced Short Palindromic Repeats-Associated Protein System for Resistance Against Plant Viruses: Applications and Perspectives

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