当前位置： SCI文献检索 > NUCLEIC ACIDS RESEARCH期刊下所有文献 > Comparative analysis of chimeric ZFP-, TALE- and Cas9-piggyBac transposases for integration into a single locus in human cells.

Comparative analysis of chimeric ZFP-, TALE- and Cas9-piggyBac transposases for integration into a single locus in human cells.

Abstract：

:Integrating DNA delivery systems hold promise for many applications including treatment of diseases; however, targeted integration is needed for improved safety. The piggyBac (PB) transposon system is a highly active non-viral gene delivery system capable of integrating defined DNA segments into host chromosomes without requiring homologous recombination. We systematically compared four different engineered zinc finger proteins (ZFP), four transcription activator-like effector proteins (TALE), CRISPR associated protein 9 (SpCas9) and the catalytically inactive dSpCas9 protein fused to the amino-terminus of the transposase enzyme designed to target the hypoxanthine phosphoribosyltransferase (HPRT) gene located on human chromosome X. Chimeric transposases were evaluated for expression, transposition activity, chromatin immunoprecipitation at the target loci, and targeted knockout of the HPRT gene in human cells. One ZFP-PB and one TALE-PB chimera demonstrated notable HPRT gene targeting. In contrast, Cas9/dCas9-PB chimeras did not result in gene targeting. Instead, the HPRT locus appeared to be protected from transposon integration. Supplied separately, PB permitted highly efficient isolation of Cas9-mediated knockout of HPRT, with zero transposon integrations in HPRT by deep sequencing. In summary, these tools may allow isolation of 'targeted-only' cells, be utilized to protect a genomic locus from transposon integration, and enrich for Cas9-mutated cells.

journal_name

Nucleic Acids Res

journal_title

Nucleic acids research

authors

Luo W,Galvan DL,Woodard LE,Dorset D,Levy S,Wilson MH

doi

10.1093/nar/gkx572

subject

Has Abstract

pub_date

2017-08-21 00:00:00

pages

8411-8422

issue

14

eissn

0305-1048

issn

1362-4962

pii

3897173

journal_volume

45

pub_type

杂志文章

相关文献

NUCLEIC ACIDS RESEARCH文献大全
  • The Reactome pathway knowledgebase.

    abstract：:Reactome (http://www.reactome.org) is a manually curated open-source open-data resource of human pathways and reactions. The current version 46 describes 7088 human proteins (34% of the predicted human proteome), participating in 6744 reactions based on data extracted from 15 107 research publications with PubMed link...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkt1102

    authors： Croft D,Mundo AF,Haw R,Milacic M,Weiser J,Wu G,Caudy M,Garapati P,Gillespie M,Kamdar MR,Jassal B,Jupe S,Matthews L,May B,Palatnik S,Rothfels K,Shamovsky V,Song H,Williams M,Birney E,Hermjakob H,Stein L,D'Eusta

    更新日期：2014-01-01 00:00:00

  • Differential roles for Fos and Jun in DNA-binding: redox-dependent and independent functions.

    abstract：:The Fos and Jun family of transcription factors contain an invariant sequence motif lysine-cysteine-arginine (KCR) in the highly conserved DNA-binding region. Reduction of the cysteine residue is necessary to facilitate DNA-binding. Here, we examined the potential dual roles of the flanking lysine and arginine residue...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/21.25.5831

    authors： Ng L,Forrest D,Curran T

    更新日期：1993-12-25 00:00:00

  • 3' Alu PCR: a simple and rapid method to isolate human polymorphic markers.

    abstract：:Microsatellites, such as (TG)n found at random throughout the genome, or as 3' extensions of Alu sequences are being increasingly used as genetic markers because of their pluriallelic character. The search for polymorphic microsatellites is time consuming, however, as it is necessary to sequence clones containing the ...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/20.6.1333

    authors： Charlieu JP,Laurent AM,Carter DA,Bellis M,Roizès G

    更新日期：1992-03-25 00:00:00

  • Different binding site requirements for binding and activation for the bipartite enhancer factor EF-1A.

    abstract：:The human transcription factor EF-1A binds to the purine-rich E1A core enhancer sequence in the adenovirus E1A and E4 and polyomavirus enhancer regions. The consensus binding site for EF-1A resembles that of members of the ets domain protein family. EF-1A activation of transcription requires a dimeric binding site. An...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/20.24.6555

    authors： Bolwig GM,Bruder JT,Hearing P

    更新日期：1992-12-25 00:00:00

  • A second look at cellular mRNA sequences said to function as internal ribosome entry sites.

    abstract：:This review takes a second look at a set of mRNAs that purportedly employ an alternative mechanism of initiation when cap-dependent translation is reduced during mitosis or stress conditions. A closer look is necessary because evidence cited in support of the internal initiation hypothesis is often flawed. When putati...

    journal_title：Nucleic acids research

    pub_type： 杂志文章,评审

    doi：10.1093/nar/gki958

    authors： Kozak M

    更新日期：2005-11-28 00:00:00

  • BRENDA, the ELIXIR core data resource in 2021: new developments and updates.

    abstract：:The BRENDA enzyme database (https://www.brenda-enzymes.org), established in 1987, has evolved into the main collection of functional enzyme and metabolism data. In 2018, BRENDA was selected as an ELIXIR Core Data Resource. BRENDA provides reliable data, continuous curation and updates of classified enzymes, and the in...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkaa1025

    authors： Chang A,Jeske L,Ulbrich S,Hofmann J,Koblitz J,Schomburg I,Neumann-Schaal M,Jahn D,Schomburg D

    更新日期：2021-01-08 00:00:00

  • MAGIA²: from miRNA and genes expression data integrative analysis to microRNA-transcription factor mixed regulatory circuits (2012 update).

    abstract：:MAGIA(2) (http://gencomp.bio.unipd.it/magia2) is an update, extension and evolution of the MAGIA web tool. It is dedicated to the integrated analysis of in silico target prediction, microRNA (miRNA) and gene expression data for the reconstruction of post-transcriptional regulatory networks. miRNAs are fundamental post...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gks460

    authors： Bisognin A,Sales G,Coppe A,Bortoluzzi S,Romualdi C

    更新日期：2012-07-01 00:00:00

  • Methylation by a mutant T2 DNA [N(6)-adenine] methyltransferase expands the usage of RecA-assisted endonuclease (RARE) cleavage.

    abstract：:Properties of a mutant bacteriophage T2 DNA [N:(6)-adenine] methyltransferase (T2 Dam MTase) have been investigated for its potential utilization in RecA-assisted restriction endonuclease (RARE) cleavage. Steady-state kinetic analyses with oligonucleotide duplexes revealed that, compared to wild-type T4 Dam, both wild...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/29.7.1484

    authors： Minko I,Hattman S,Lloyd RS,Kossykh V

    更新日期：2001-04-01 00:00:00

  • DmTTF, a novel mitochondrial transcription termination factor that recognises two sequences of Drosophila melanogaster mitochondrial DNA.

    abstract：:Using a combination of bioinformatic and molecular biology approaches a Drosophila melanogaster protein, DmTTF, has been identified, which exhibits sequence and structural similarity with two mitochondrial transcription termination factors, mTERF (human) and mtDBP (sea urchin). Import/processing assays indicate that D...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkg272

    authors： Roberti M,Polosa PL,Bruni F,Musicco C,Gadaleta MN,Cantatore P

    更新日期：2003-03-15 00:00:00

  • The structural integrity exerted by N-terminal pyroglutamate is crucial for the cytotoxicity of frog ribonuclease from Rana pipiens.

    abstract：:Onconase, a cytotoxic ribonuclease from Rana pipiens, possesses pyroglutamate (Pyr) at the N-terminus and has a substrate preference for uridine-guanine (UG). To identify residues responsible for onconase's cytotoxicity, we cloned the rpr gene from genomic DNA and expressed it in Escherichia coli BL21(DE3). The recomb...

    journal_title：Nucleic acids research

    pub_type： 评论,杂志文章

    doi：10.1093/nar/gkg746

    authors： Liao YD,Wang SC,Leu YJ,Wang CF,Chang ST,Hong YT,Pan YR,Chen C

    更新日期：2003-09-15 00:00:00

  • Mutations in the RNA polymerase recognition sequence of the Klebsiella pneumoniae nifH promoter permitting transcriptional activation in the absence of NifA binding to upstream activator sequences.

    abstract：:Positive control of the wild-type Klebsiella pneumoniae nifH promoter by the NifA protein requires that NifA is bound at the upstream activator sequence (UAS). By introducing base substitutions at -15 to -17 in the RNA polymerase recognition sequence of the nifH promoter, positive control by a form of NifA unable to b...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/17.7.2597

    authors： Buck M,Cannon W

    更新日期：1989-04-11 00:00:00

  • Conformation and structural fluctuations of a 218 nucleotides long rRNA fragment: 4-thiouridine as an intrinsic photolabelling probe.

    abstract：:The structure in solution of an RNA fragment (218 nucleotides long) containing part of E. coli 16S rRNA domain 2 has been studied using the intrinsic photoaffinity probe 4-thiouridine (s4U). In vitro transcription with T7 polymerase, in the presence of s4U triphosphate yielded complete RNA molecules. An affinity elect...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/19.13.3653

    authors： Dubreuil YL,Expert-Bezançon A,Favre A

    更新日期：1991-07-11 00:00:00

  • The effect of adenine protonation on RNA phosphodiester backbone bond cleavage elucidated by deaza-nucleobase modifications and mass spectrometry.

    abstract：:The catalytic strategies of small self-cleaving ribozymes often involve interactions between nucleobases and the ribonucleic acid (RNA) backbone. Here we show that multiply protonated, gaseous RNA has an intrinsic preference for the formation of ionic hydrogen bonds between adenine protonated at N3 and the phosphodies...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkz574

    authors： Fuchs E,Falschlunger C,Micura R,Breuker K

    更新日期：2019-08-22 00:00:00

  • Mosaic tile model for tRNA-enzyme recognition.

    abstract：:An improved algorithm was elaborated to analyse tRNA interaction with aminoacyl-tRNA synthetase based on analysis of tRNA sequences. The fundamental element defining the interaction between the tRNA and the synthetase is not a single nucleotide but a nucleotide combination named a tile which comprises of a given nucle...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/21.8.1941

    authors： Steinberg SV,Kisselev LL

    更新日期：1993-04-25 00:00:00

  • Epitope mapping using combinatorial phage-display libraries: a graph-based algorithm.

    abstract：:A phage-display library of random peptides is a combinatorial experimental technique that can be harnessed for studying antibody-antigen interactions. In this technique, a phage peptide library is scanned against an antibody molecule to obtain a set of peptides that are bound by the antibody with high affinity. This s...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkl975

    authors： Mayrose I,Shlomi T,Rubinstein ND,Gershoni JM,Ruppin E,Sharan R,Pupko T

    更新日期：2007-01-01 00:00:00

  • A unique tRNA recognition mechanism of Caenorhabditis elegans mitochondrial EF-Tu2.

    abstract：:Nematode mitochondria expresses two types of extremely truncated tRNAs that are specifically recognized by two distinct elongation factor Tu (EF-Tu) species named EF-Tu1 and EF-Tu2. This is unlike the canonical EF-Tu molecule that participates in the standard protein biosynthesis systems, which basically recognizes al...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gki784

    authors： Suematsu T,Sato A,Sakurai M,Watanabe K,Ohtsuki T

    更新日期：2005-08-19 00:00:00

  • A G-quadruplex motif in an envelope gene promoter regulates transcription and virion secretion in HBV genotype B.

    abstract：:HBV genotypes differ in pathogenicity. In addition, genotype-specific differences in the regulation of transcription and virus replication exist in HBV, but the underlying mechanisms are unknown. Here, we show the presence of a G-quadruplex motif in the promoter of the preS2/S gene; this G-quadruplex is highly conserv...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkx823

    authors： Biswas B,Kandpal M,Vivekanandan P

    更新日期：2017-11-02 00:00:00

  • Replication protein A prevents accumulation of single-stranded telomeric DNA in cells that use alternative lengthening of telomeres.

    abstract：:The activation of a telomere maintenance mechanism is required for cancer development in humans. While most tumors achieve this by expressing the enzyme telomerase, a fraction (5-15%) employs a recombination-based mechanism termed alternative lengthening of telomeres (ALT). Here we show that loss of the single-strande...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkm738

    authors： Grudic A,Jul-Larsen A,Haring SJ,Wold MS,Lønning PE,Bjerkvig R,Bøe SO

    更新日期：2007-01-01 00:00:00

  • Sigmoidal curve-fitting redefines quantitative real-time PCR with the prospective of developing automated high-throughput applications.

    abstract：:Quantitative real-time PCR has revolutionized many aspects of genetic research, biomedical diagnostics and pathogen detection. Nevertheless, the full potential of this technology has yet to be realized, primarily due to the limitations of the threshold-based methodologies that are currently used for quantitative analy...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gnh177

    authors： Rutledge RG

    更新日期：2004-12-15 00:00:00

  • The imprinted gene and parent-of-origin effect database.

    abstract：:The database of imprinted genes and parent-of-origin effects in animals (http://www.otago.ac.nz/IGC ) is a collation of genes and phenotypes for which parent-of-origin effects have been reported. The database currently includes over 220 entries, which describe over 40 imprinted genes in human, mouse and other animals....

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/29.1.275

    authors： Morison IM,Paton CJ,Cleverley SD

    更新日期：2001-01-01 00:00:00

  • Sequencing of an upstream region of the human HLA-DRA gene containing X' and Y' boxes.

    abstract：:In this paper we report the characterization of a newly sequenced 5' upstream region of the human HLA-DRA gene. We performed (i) search for transcription factor motifs, (ii) analysis of CpG display and observed/expected frequency ratios, (iii) search for regions homologous to the 5' upstream sequences of the murine EA...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/23.10.1671

    authors： Feriotto G,Mischiati C,Bianchi N,Rutigliano C,Giacomini P,Gambari R

    更新日期：1995-05-25 00:00:00

  • Site- and strand-specific nicking of DNA by fusion proteins derived from MutH and I-SceI or TALE repeats.

    abstract：:Targeted genome engineering requires nucleases that introduce a highly specific double-strand break in the genome that is either processed by homology-directed repair in the presence of a homologous repair template or by non-homologous end-joining (NHEJ) that usually results in insertions or deletions. The error-prone...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkt080

    authors： Gabsalilow L,Schierling B,Friedhoff P,Pingoud A,Wende W

    更新日期：2013-04-01 00:00:00

  • PASMet: a web-based platform for prediction, modelling and analyses of metabolic systems.

    abstract：:PASMet (Prediction, Analysis and Simulation of Metabolic networks) is a web-based platform for proposing and verifying mathematical models to understand the dynamics of metabolism. The advantages of PASMet include user-friendliness and accessibility, which enable biologists and biochemists to easily perform mathematic...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkw415

    authors： Sriyudthsak K,Mejia RF,Arita M,Hirai MY

    更新日期：2016-07-08 00:00:00

  • On the relationship between preferred termination codon contexts and nonsense suppression in human cells.

    abstract：:The nucleotide sequences 3' to the translational termination codons in a collection of human genes have been analysed for evidence of a preferred 3' context for natural UAG codons. The aim was to see whether human UAG contexts can be related to the recent demonstration of the effects of 3' context on nonsense suppress...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/22.1.15

    authors： Martin R

    更新日期：1994-01-11 00:00:00

  • Probabilistic prediction of Saccharomyces cerevisiae mRNA 3'-processing sites.

    abstract：:We present a tool for the prediction of mRNA 3'-processing (cleavage and polyadenylation) sites in the yeast Saccharomyces cerevisiae, based on a discrete state-space model or hidden Markov model. Comparison of predicted sites with experimentally verified 3'-processing sites indicates good agreement. All predicted or ...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/30.8.1851

    authors： Graber JH,McAllister GD,Smith TF

    更新日期：2002-04-15 00:00:00

  • Cellular gene induction during herpes simplex virus infection can occur without viral protein synthesis.

    abstract：:Infection of cultured cells with herpes simplex virus (HSV) results in the transcriptional induction of a small number of cellular genes. Although the majority of such genes are dependent upon viral protein synthesis for their induction, a small minority are not. These genes are induced by events occurring prior to th...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/14.23.9261

    authors： Kemp LM,Preston CM,Preston VG,Latchman DS

    更新日期：1986-12-09 00:00:00

  • Purification and characterization of the Pac1 ribonuclease of Schizosaccharomyces pombe.

    abstract：:The pac1+ gene of the fission yeast Schizosaccharomyces pombe is essential for viability and its overexpression induces sterility and suppresses mutations in the pat1+ and snm1+ genes. The pac1+ gene encodes a protein that is structurally similar to RNase III from Escherichia coli, but its normal function is unknown. ...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/24.12.2377

    authors： Rotondo G,Frendewey D

    更新日期：1996-06-15 00:00:00

  • The pR UV+ plasmid, transfected into mammalian cells, enhances their UV survival.

    abstract：:It has been recently reported that the pR plasmid enhances the UV survival in E.coli c600. In order to test whether this function may be expressed also in mammalian cells, LTA (tk- aprt-) mouse cells were cotransformed with pR plasmid DNA and ptk1 plasmid as selectable marker. Tk+ transformants were analyzed for their...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/11.11.3679

    authors： Elli R,Marcucci L,Bosi R,Oppi C,Battaglia PA,Gigliani F

    更新日期：1983-06-11 00:00:00

  • Chemical synthesis of 5'-pyrophosphate and triphosphate derivatives of 3'-5' ApA, ApG, GpA and GpG. CD study of the effect of 5'-phosphate groups on the conformation of 3'-5' GpG.

    abstract：:A simple, two-step method is described for the synthesis of the 5'-pyro- and triphosphate derivatives of 3'-5' ApA, ApG, GpA and GpG. The readily accessible 2'(3')-5' ApA, ApG, GpA and GpG were converted in one step to the corresponding 5'-phosphoramidate derivatives which were then transformed to the 5'-pyro- and tri...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/5.8.2945

    authors： Tomasz J,Simoncsits A,Kajtár M,Krug RM,Shatkin AJ

    更新日期：1978-08-01 00:00:00

  • RNA-binding specificity landscapes of designer pentatricopeptide repeat proteins elucidate principles of PPR-RNA interactions.

    abstract：:Pentatricopeptide repeat (PPR) proteins are helical-repeat proteins that offer a promising scaffold for the engineering of proteins to bind specified RNAs. PPR tracts bind RNA in a modular 1-repeat, 1-nucleotide fashion. An amino acid code specifying the bound nucleotide has been elucidated. However, this code does no...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkx1288

    authors： Miranda RG,McDermott JJ,Barkan A

    更新日期：2018-03-16 00:00:00