Genetic spell-checking: gene editing using single-stranded DNA oligonucleotides.

Abstract:

:Single-stranded oligonucleotides (ssODNs) can be used to direct the exchange of a single nucleotide or the repair of a single base within the coding region of a gene in a process that is known, generically, as gene editing. These molecules are composed of either all DNA residues or a mixture of RNA and DNA bases and utilize inherent metabolic functions to execute the genetic alteration within the context of a chromosome. The mechanism of action of gene editing is now being elucidated as well as an understanding of its regulatory circuitry, work that has been particularly important in establishing a foundation for designing effective gene editing strategies in plants. Double-strand DNA breakage and the activation of the DNA damage response pathway play key roles in determining the frequency with which gene editing activity takes place. Cellular regulators respond to such damage and their action impacts the success or failure of a particular nucleotide exchange reaction. A consequence of such activation is the natural slowing of replication fork progression, which naturally creates a more open chromatin configuration, thereby increasing access of the oligonucleotide to the DNA template. Herein, how critical reaction parameters influence the effectiveness of gene editing is discussed. Functional interrelationships between DNA damage, the activation of DNA response pathways and the stalling of replication forks are presented in detail as potential targets for increasing the frequency of gene editing by ssODNs in plants and plant cells.

journal_name

Plant Biotechnol J

authors

Rivera-Torres N,Kmiec EB

doi

10.1111/pbi.12473

subject

Has Abstract

pub_date

2016-02-01 00:00:00

pages

463-70

issue

2

eissn

1467-7644

issn

1467-7652

journal_volume

14

pub_type

杂志文章,评审
  • High-Spatiotemporal-Resolution Transcriptomes Provide Insights into Fruit Development and Ripening in Citrus sinensis.

    abstract::Citrus fruit has a unique structure with soft leathery peel and pulp containing vascular bundles and several segments with many juice sacs. The function and morphology of each fruit tissue are different. Therefore, analysis at the organ-wide or mixed-tissue level inevitably obscures many tissue-specific phenomena. Hig...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/pbi.13549

    authors: Feng G,Wu J,Xu Y,Lu L,Yi H

    更新日期:2021-01-20 00:00:00

  • Light-dependent regulation of ascorbate in tomato by a monodehydroascorbate reductase localized in peroxisomes and the cytosol.

    abstract::Ascorbate is a powerful antioxidant in plants, and its levels are an important quality criteria in commercial species. Factors influencing these levels include environmental variations, particularly light, and the genetic control of its biosynthesis, recycling and degradation. One of the genes involved in the recyclin...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/pbi.12020

    authors: Gest N,Garchery C,Gautier H,Jiménez A,Stevens R

    更新日期:2013-04-01 00:00:00

  • Plant artificial chromosome technology and its potential application in genetic engineering.

    abstract::Genetic engineering with just a few genes has changed agriculture in the last 20 years. The most frequently used transgenes are the herbicide resistance genes for efficient weed control and the Bt toxin genes for insect resistance. The adoption of the first-generation genetically engineered crops has been very success...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章,评审

    doi:10.1111/pbi.12466

    authors: Yu W,Yau YY,Birchler JA

    更新日期:2016-05-01 00:00:00

  • Resistance and biomass in Arabidopsis: a new model for salicylic acid perception.

    abstract::Salicylic acid (SA) is an essential hormone for plant defence and development. SA perception is usually measured by counting the number of pathogens that grow in planta upon an exogenous application of the hormone. A biological SA perception model based on plant fresh weight reduction caused by disease resistance in A...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/j.1467-7652.2009.00468.x

    authors: Canet JV,Dobón A,Ibáñez F,Perales L,Tornero P

    更新日期:2010-02-01 00:00:00

  • Enhanced levels of methionine and cysteine in transgenic alfalfa (Medicago sativa L.) plants over-expressing the Arabidopsis cystathionine gamma-synthase gene.

    abstract::With the aim of increasing the methionine level in alfalfa (Medicago sativa L.) and thus improving its nutritional quality, we produced transgenic alfalfa plants that expressed the Arabidopsis cystathionine gamma-synthase (AtCGS), the enzyme that controls the synthesis of the first intermediate metabolite in the methi...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/j.1467-7652.2004.00102.x

    authors: Avraham T,Badani H,Galili S,Amir R

    更新日期:2005-01-01 00:00:00

  • Three AtCesA6-like members enhance biomass production by distinctively promoting cell growth in Arabidopsis.

    abstract::Cellulose is an abundant biopolymer and a prominent constituent of plant cell walls. Cellulose is also a central component to plant morphogenesis and contributes the bulk of a plant's biomass. While cellulose synthase (CesA) genes were identified over two decades ago, genetic manipulation of this family to enhance cel...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/pbi.12842

    authors: Hu H,Zhang R,Feng S,Wang Y,Wang Y,Fan C,Li Y,Liu Z,Schneider R,Xia T,Ding SY,Persson S,Peng L

    更新日期:2018-05-01 00:00:00

  • Molecular analysis of menadione-induced resistance against biotic stress in Arabidopsis.

    abstract::Menadione sodium bisulphite (MSB) is a water-soluble derivative of vitamin K3, or menadione, and has been previously demonstrated to function as a plant defence activator against several pathogens in several plant species. However, there are no reports of the role of this vitamin in the induction of resistance in the ...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/j.1467-7652.2009.00439.x

    authors: Borges AA,Dobon A,Expósito-Rodríguez M,Jiménez-Arias D,Borges-Pérez A,Casañas-Sánchez V,Pérez JA,Luis JC,Tornero P

    更新日期:2009-10-01 00:00:00

  • Whole-genome re-sequencing reveals the impact of the interaction of copy number variants of the rhg1 and Rhg4 genes on broad-based resistance to soybean cyst nematode.

    abstract::Soybean cyst nematode (SCN) is the most devastating plant-parasitic nematode. Most commercial soybean varieties with SCN resistance are derived from PI88788. Resistance derived from PI88788 is breaking down due to narrow genetic background and SCN population shift. PI88788 requires mainly the rhg1-b locus, while 'Peki...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/pbi.13086

    authors: Patil GB,Lakhssassi N,Wan J,Song L,Zhou Z,Klepadlo M,Vuong TD,Stec AO,Kahil SS,Colantonio V,Valliyodan B,Rice JH,Piya S,Hewezi T,Stupar RM,Meksem K,Nguyen HT

    更新日期:2019-08-01 00:00:00

  • Forcing single-chain variable fragment production in tobacco seeds by fusion to elastin-like polypeptides.

    abstract::Single-chain variable fragments (scFvs), as well as other recombinant antibodies, have become powerful tools for therapy and analysis in both human and veterinary medicine. Transgenic plants have been developed as an efficient production system for these recombinant proteins, achieving high yields at moderate cost. Se...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/j.1467-7652.2005.00176.x

    authors: Scheller J,Leps M,Conrad U

    更新日期:2006-03-01 00:00:00

  • Production of cecropin A in transgenic rice plants has an impact on host gene expression.

    abstract::Expression of the cecropin A gene in rice confers resistance to the rice blast fungus Magnaporthe oryzae. In this study, a polymerase chain reaction-based suppression subtractive hybridization approach was used to generate a cDNA macroarray from the elite japonica rice (Oryza sativa L.) cultivar 'Senia'. Gene expressi...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/j.1467-7652.2008.00339.x

    authors: Campo S,Manrique S,García-Martínez J,San Segundo B

    更新日期:2008-08-01 00:00:00

  • Engineering linear, branched-chain triterpene metabolism in monocots.

    abstract::Triterpenes are thirty-carbon compounds derived from the universal five-carbon prenyl precursors isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). Normally, triterpenes are synthesized via the mevalonate (MVA) pathway operating in the cytoplasm of eukaryotes where DMAPP is condensed with two IPPs to...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/pbi.12983

    authors: Kempinski C,Jiang Z,Zinck G,Sato SJ,Ge Z,Clemente TE,Chappell J

    更新日期:2019-02-01 00:00:00

  • Pinellia ternata agglutinin expression in chloroplasts confers broad spectrum resistance against aphid, whitefly, Lepidopteran insects, bacterial and viral pathogens.

    abstract::Broad spectrum protection against different insects and pathogens requires multigene engineering. However, such broad spectrum protection against biotic stress is provided by a single protein in some medicinal plants. Therefore, tobacco chloroplasts were transformed with the agglutinin gene from Pinellia ternata (pta)...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/j.1467-7652.2011.00663.x

    authors: Jin S,Zhang X,Daniell H

    更新日期:2012-04-01 00:00:00

  • Synthesis of bacteriophage lytic proteins against Streptococcus pneumoniae in the chloroplast of Chlamydomonas reinhardtii.

    abstract::There is a pressing need to develop novel antibacterial agents given the widespread antibiotic resistance among pathogenic bacteria and the low specificity of the drugs available. Endolysins are antibacterial proteins that are produced by bacteriophage-infected cells to digest the bacterial cell wall for phage progeny...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/pbi.12703

    authors: Stoffels L,Taunt HN,Charalambous B,Purton S

    更新日期:2017-09-01 00:00:00

  • Divergent improvement of two cultivated allotetraploid cotton species.

    abstract::Interspecific genomic variation can provide a genetic basis for local adaptation and domestication. A series of studies have presented its role of interspecific haplotypes and introgressions in adaptive traits, but few studies have addressed their role in improving agronomic character. Two allotetraploid Gossypium spe...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/pbi.13547

    authors: Fang L,Zhao T,Hu Y,Si Z,Zhu X,Han Z,Liu G,Wang S,Ju L,Guo M,Mei H,Wang L,Qi B,Wang H,Guan X,Zhang T

    更新日期:2021-01-14 00:00:00

  • Induction, rapid fixation and retention of mutations in vegetatively propagated banana.

    abstract::Mutation discovery technologies have enabled the development of reverse genetics for many plant species and allowed sophisticated evaluation of the consequences of mutagenesis. Such methods are relatively straightforward for seed-propagated plants. To develop a platform suitable for vegetatively propagated species, we...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/j.1467-7652.2012.00733.x

    authors: Jankowicz-Cieslak J,Huynh OA,Brozynska M,Nakitandwe J,Till BJ

    更新日期:2012-12-01 00:00:00

  • Using CRISPR/Cas9 genome editing in tomato to create a gibberellin-responsive dominant dwarf DELLA allele.

    abstract::The tomato PROCERA gene encodes a DELLA protein, and loss-of-function mutations derepress growth. We used CRISPR/Cas9 and a single guide RNAs (sgRNA) to target mutations to the PROCERA DELLA domain, and recovered several loss-of-function mutations and a dominant dwarf mutation that carries a deletion of one amino acid...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/pbi.12952

    authors: Tomlinson L,Yang Y,Emenecker R,Smoker M,Taylor J,Perkins S,Smith J,MacLean D,Olszewski NE,Jones JDG

    更新日期:2019-01-01 00:00:00

  • FLP recombinase-mediated site-specific recombination in rice.

    abstract::The feasibility of using the FLP/FRT site-specific recombination system in rice for genome engineering was evaluated. Transgenic rice plants expressing the FLP recombinase were crossed with plants harbouring the kanamycin resistance gene (neomycin phosphotransferase II, nptII) flanked by FRT sites, which also served t...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/j.1467-7652.2007.00310.x

    authors: Hu Q,Kononowicz-Hodges H,Nelson-Vasilchik K,Viola D,Zeng P,Liu H,Kausch AP,Chandlee JM,Hodges TK,Luo H

    更新日期:2008-02-01 00:00:00

  • Generation of marker-free transgenic hexaploid wheat via an Agrobacterium-mediated co-transformation strategy in commercial Chinese wheat varieties.

    abstract::Genotype specificity is a big problem lagging the development of efficient hexaploid wheat transformation system. Increasingly, the biosecurity of genetically modified organisms is garnering public attention, so the generation of marker-free transgenic plants is very important to the eventual potential commercial rele...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/pbi.12660

    authors: Wang K,Liu H,Du L,Ye X

    更新日期:2017-05-01 00:00:00

  • Rapid identification of homozygosity and site of wild relative introgressions in wheat through chromosome-specific KASP genotyping assays.

    abstract::For future food security, it is important that wheat, one of the most widely consumed crops in the world, can survive the threat of abiotic and biotic stresses. New genetic variation is currently being introduced into wheat through introgressions from its wild relatives. For trait discovery, it is necessary that each ...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/pbi.13241

    authors: Grewal S,Hubbart-Edwards S,Yang C,Devi U,Baker L,Heath J,Ashling S,Scholefield D,Howells C,Yarde J,Isaac P,King IP,King J

    更新日期:2020-03-01 00:00:00

  • Rice endosperm is cost-effective for the production of recombinant griffithsin with potent activity against HIV.

    abstract::Protein microbicides containing neutralizing antibodies and antiviral lectins may help to reduce the rate of infection with human immunodeficiency virus (HIV) if it is possible to manufacture the components in large quantities at a cost affordable in HIV-endemic regions such as sub-Saharan Africa. We expressed the ant...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/pbi.12507

    authors: Vamvaka E,Arcalis E,Ramessar K,Evans A,O'Keefe BR,Shattock RJ,Medina V,Stöger E,Christou P,Capell T

    更新日期:2016-06-01 00:00:00

  • Deciphering drought-induced metabolic responses and regulation in developing maize kernels.

    abstract::Drought stress conditions decrease maize growth and yield, and aggravate preharvest aflatoxin contamination. While several studies have been performed on mature kernels responding to drought stress, the metabolic profiles of developing kernels are not as well characterized, particularly in germplasm with contrasting r...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/pbi.12899

    authors: Yang L,Fountain JC,Ji P,Ni X,Chen S,Lee RD,Kemerait RC,Guo B

    更新日期:2018-02-12 00:00:00

  • Comparative transcriptomics as a tool for the identification of root branching genes in maize.

    abstract::The root system is fundamental for plant development, is crucial for overall plant growth and is recently being recognized as the key for future crop productivity improvement. A major determinant of root system architecture is the initiation of lateral roots. While knowledge of the genetic and molecular mechanisms reg...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/pbi.12104

    authors: Jansen L,Hollunder J,Roberts I,Forestan C,Fonteyne P,Van Quickenborne C,Zhen RG,McKersie B,Parizot B,Beeckman T

    更新日期:2013-12-01 00:00:00

  • Freedom-to-operate analysis of a transgenic multivitamin corn variety.

    abstract::In this article, we explore the intellectual property (IP) landscape relevant to the production and commercialization of Carolight(™) , a transgenic multivitamin corn variety created on humanitarian grounds to address micronutrient deficiencies in low-and-middle-income countries. The successful production of this vari...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/pbi.12488

    authors: Zanga D,Capell T,Zhu C,Christou P,Thangaraj H

    更新日期:2016-05-01 00:00:00

  • A rice promoter containing both novel positive and negative cis-elements for regulation of green tissue-specific gene expression in transgenic plants.

    abstract::The tissue-specific expression of transgenes is essential in plant breeding programmes to avoid the fitness costs caused by constitutive expression of a target gene. However, knowledge on the molecular mechanisms of tissue-specific gene expression and practicable tissue-specific promoters is limited. In this study, we...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/j.1467-7652.2007.00271.x

    authors: Cai M,Wei J,Li X,Xu C,Wang S

    更新日期:2007-09-01 00:00:00

  • Regulating innovative crop technologies in Canada: the case of regulating genetically modified crops.

    abstract::The advent of genetically modified crops in the late 1980s triggered a regulatory response to the relatively new field of plant genetic engineering. Over a 7-year period, a new regulatory framework was created, based on scientific principles that focused on risk mitigation. The process was transparent and deliberately...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章,评审

    doi:10.1111/j.1467-7652.2007.00309.x

    authors: Smyth S,McHughen A

    更新日期:2008-04-01 00:00:00

  • Chloroplast-derived enzyme cocktails hydrolyse lignocellulosic biomass and release fermentable sugars.

    abstract::It is widely recognized that biofuel production from lignocellulosic materials is limited by inadequate technology to efficiently and economically release fermentable sugars from the complex multi-polymeric raw materials. Therefore, endoglucanases, exoglucanase, pectate lyases, cutinase, swollenin, xylanase, acetyl xy...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/j.1467-7652.2009.00486.x

    authors: Verma D,Kanagaraj A,Jin S,Singh ND,Kolattukudy PE,Daniell H

    更新日期:2010-04-01 00:00:00

  • The genetic architecture of the dynamic changes in grain moisture in maize.

    abstract::Low grain moisture at harvest is crucial for safe production, transport, and storage, but the genetic architecture of this trait in maize (Zea mays) remains elusive. Here, we measured the dynamic changes in grain moisture content in an association mapping panel of 513 diverse maize inbred lines at five successive stag...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/pbi.13541

    authors: Li W,Yu Y,Wang L,Luo Y,Peng Y,Xu Y,Liu X,Wu S,Jian L,Xu J,Xiao Y,Yan J

    更新日期:2021-01-01 00:00:00

  • Feeding transgenic plants that express a tolerogenic fusion protein effectively protects against arthritis.

    abstract::Although much explored, oral tolerance for treatment of autoimmune diseases still awaits the establishment of novel and effective vectors. We investigated whether the tolerogenic CTA1(R7K)-COL-DD fusion protein can be expressed in edible plants, to induce oral tolerance and protect against arthritis. The fusion protei...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/pbi.12479

    authors: Hansson C,Schön K,Kalbina I,Strid Å,Andersson S,Bokarewa MI,Lycke NY

    更新日期:2016-04-01 00:00:00

  • Transcript profiling of jasmonate-elicited Taxus cells reveals a β-phenylalanine-CoA ligase.

    abstract::Plant cell cultures constitute eco-friendly biotechnological platforms for the production of plant secondary metabolites with pharmacological activities, as well as a suitable system for extending our knowledge of secondary metabolism. Despite the high added value of taxol and the importance of taxanes as anticancer c...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/pbi.12359

    authors: Ramírez-Estrada K,Altabella T,Onrubia M,Moyano E,Notredame C,Osuna L,Vanden Bossche R,Goossens A,Cusido RM,Palazon J

    更新日期:2016-01-01 00:00:00

  • Heterologous expression of OsSIZ1, a rice SUMO E3 ligase, enhances broad abiotic stress tolerance in transgenic creeping bentgrass.

    abstract::Sumoylation is a posttranslational regulatory process in higher eukaryotes modifying substrate proteins through conjugation of small ubiquitin-related modifiers (SUMOs). Sumoylation modulates protein stability, subcellular localization and activity; thus, it regulates most cellular functions including response to envi...

    journal_title:Plant biotechnology journal

    pub_type: 杂志文章

    doi:10.1111/pbi.12030

    authors: Li Z,Hu Q,Zhou M,Vandenbrink J,Li D,Menchyk N,Reighard S,Norris A,Liu H,Sun D,Luo H

    更新日期:2013-05-01 00:00:00