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esp3i  (New England Biolabs)


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    Structured Review

    New England Biolabs esp3i
    Plasmid map and cloning site distribution of the pAmpCRISPR/pCasCm system. ( a ) Plasmid map of pAmpCRISPR. tac promoter, the sgRNA expression promoter; MCS, multiple cloning site; <t>Esp3I,</t> the sgRNA sequence was cloned between two Esp3I restriction sites; Amp R , ampicillin resistance gene; oriT , origin of transfer; sacB , a sucrose counter-selectable marker. ( b ) Plasmid map of pCasCm. Expression of the λ-Red recombination system (Gam, Beta, and Exo) and Cas9 protein is driven by the L-arabinose-inducible araB promoter (P araB ); pSC101, a temperature-sensitive replicon; Tc R , tetracycline resistance gene. ( c ) Cloning site sequence of the pAmpCRISPR plasmid.
    Esp3i, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 98/100, based on 549 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/esp3i/Esp3I/pmc13610606-37-11-12
    Average 98 stars, based on 549 article reviews
    esp3i - by Bioz Stars, 2026-10
    98/100 stars

    Images

    1) Product Images from "A Dual-Plasmid CRISPR/Cas9-Based Genome Editing System for Efficient Gene Knockout and Large DNA Integration in Cronobacter malonaticus"

    Article Title: A Dual-Plasmid CRISPR/Cas9-Based Genome Editing System for Efficient Gene Knockout and Large DNA Integration in Cronobacter malonaticus

    Journal: Pathogens

    doi: 10.3390/pathogens15090990

    Plasmid map and cloning site distribution of the pAmpCRISPR/pCasCm system. ( a ) Plasmid map of pAmpCRISPR. tac promoter, the sgRNA expression promoter; MCS, multiple cloning site; Esp3I, the sgRNA sequence was cloned between two Esp3I restriction sites; Amp R , ampicillin resistance gene; oriT , origin of transfer; sacB , a sucrose counter-selectable marker. ( b ) Plasmid map of pCasCm. Expression of the λ-Red recombination system (Gam, Beta, and Exo) and Cas9 protein is driven by the L-arabinose-inducible araB promoter (P araB ); pSC101, a temperature-sensitive replicon; Tc R , tetracycline resistance gene. ( c ) Cloning site sequence of the pAmpCRISPR plasmid.
    Figure Legend Snippet: Plasmid map and cloning site distribution of the pAmpCRISPR/pCasCm system. ( a ) Plasmid map of pAmpCRISPR. tac promoter, the sgRNA expression promoter; MCS, multiple cloning site; Esp3I, the sgRNA sequence was cloned between two Esp3I restriction sites; Amp R , ampicillin resistance gene; oriT , origin of transfer; sacB , a sucrose counter-selectable marker. ( b ) Plasmid map of pCasCm. Expression of the λ-Red recombination system (Gam, Beta, and Exo) and Cas9 protein is driven by the L-arabinose-inducible araB promoter (P araB ); pSC101, a temperature-sensitive replicon; Tc R , tetracycline resistance gene. ( c ) Cloning site sequence of the pAmpCRISPR plasmid.

    Techniques Used: Plasmid Preparation, Cloning, Expressing, Sequencing, Clone Assay, Marker

    Related Articles

    Knock-Out:

    Article Title: Two Orthobunyaviruses: OYAV and EBIV co-opt the AhR-CYP1A1 axis to suppress type I interferon responses.
    Article Snippet: 25 The type I interferon (IFN-I) system serves as a frontline defense against viral infection, yet how 26 orthobunyaviruses counteract this pathway remains poorly defined.. Here, we identify cytochrome 27 P450 1A1 (CYP1A1) as a crucial host factor promoting infection by two emerging 28 orthobunyaviruses—Oya virus (OYAV) and Ebinur Lake virus (EBIV).. Transcriptomic and functional 29 analyses demonstrate that CYP1A1 overexpression enhances viral RNA synthesis, whereas its 30 CRISPR-Cas9‐mediated knockout attenuates infection.

    Clone Assay:

    Article Title: Two Orthobunyaviruses: OYAV and EBIV co-opt the AhR-CYP1A1 axis to suppress type I interferon responses.
    Article Snippet: 25 The type I interferon (IFN-I) system serves as a frontline defense against viral infection, yet how 26 orthobunyaviruses counteract this pathway remains poorly defined.. Here, we identify cytochrome 27 P450 1A1 (CYP1A1) as a crucial host factor promoting infection by two emerging 28 orthobunyaviruses—Oya virus (OYAV) and Ebinur Lake virus (EBIV).. Transcriptomic and functional 29 analyses demonstrate that CYP1A1 overexpression enhances viral RNA synthesis, whereas its 30 CRISPR-Cas9‐mediated knockout attenuates infection.

    Article Title: A poorly reactogenic lipid nanoparticle-mRNA vaccine unveils an innate immune pathway for adverse reactions.
    Article Snippet: .. At the end of the study, mice were humanely euthanized by cervical dislocation under deep isoflurane anesthesia, in accordance with the guidelines of the Animal Care and Use Committee of the National Institute of Infectious Diseases. mRNA synthesis and LNP formulation The complete sequence of the SARS-CoV-2 ancestral spike protein, incorporating two key mutations (K986P and V987P) to enhance structural stability, was codon optimized and cloned into a plasmid containing a T7 promoter, a 5′ UTR derived from human α-globin, a 3′ UTR from aminoterminal enhancer of split (AES) mRNA and mitochondrially encoded 12S rRNA (mtRNR1)37, and a AR TI CL E IN P RE SS poly-A tail designed for mRNA synthesis. mRNA was synthesized using the IVTpro T7 mRNA Synthesis Kit (Takara Bio, #6144) with a linearized plasmid digested by Esp3I (New England Biolabs, #R0734L) or BsmBI-v2 (New England Biolabs, #R0739L). .. N1-methylpseudouridine-5′-triphosphate (TriLink, #N-1081) was used in place of the uridine-5′-triphosphate supplied with the IVTpro T7 kit.

    Article Title: A proteome-wide dependency map of protein interaction motifs.
    Article Snippet: Short linear motifs (SLiMs) are the most ubiquitous protein interaction motifs within unstructured regions of the human proteome, yet their contribution to cellular homeostasis remains poorly understood.. Here, to systematically assess SLiM function, we applied base editing to mutate all reported and a set of computationally predicted SLiMs defined by SLiM-like evolutionary patterns.. By screening 7,293 SLiM-containing regions with 80,473 mutations in HAP1 cells, we define a SLiM dependency map identifying 450 reported and 264 predicted SLiMs required for normal cell proliferation.

    Article Title: Reprogramming of neuronal genome function and phenotype by astrocytes
    Article Snippet: Phosphorylation and annealing were performed by mixing 500 ng of each strand with T4 Polynucleotide Kinase (NEB, M0201) in T4 DNA Ligase Reaction Buffer (NEB, M0202), incubating at 37°C for 30 minutes, 95°C for 5 minutes, and ramping down to 25°C at 5°C/min. .. The annealed duplex was diluted 1:200 and cloned into Esp3I-digested (NEB, R0734) and gel-purified (Qiagen, 28706) lentiviral backbone (described above) via T4 DNA ligation (NEB, M0202). .. To clone the gRNAs into a lentivirus vector, we first constructed a lentiviral gRNA expression plasmid by combining a U6-gRNA cassette containing the gRNA-(F+E)-combined scaffold sequence with an EGFP-P2A-PAC cassette into a lentiviral expression backbone (Addgene #83925) using Gibson assembly (NEB, E2611).

    Formulation:

    Article Title: A poorly reactogenic lipid nanoparticle-mRNA vaccine unveils an innate immune pathway for adverse reactions.
    Article Snippet: .. At the end of the study, mice were humanely euthanized by cervical dislocation under deep isoflurane anesthesia, in accordance with the guidelines of the Animal Care and Use Committee of the National Institute of Infectious Diseases. mRNA synthesis and LNP formulation The complete sequence of the SARS-CoV-2 ancestral spike protein, incorporating two key mutations (K986P and V987P) to enhance structural stability, was codon optimized and cloned into a plasmid containing a T7 promoter, a 5′ UTR derived from human α-globin, a 3′ UTR from aminoterminal enhancer of split (AES) mRNA and mitochondrially encoded 12S rRNA (mtRNR1)37, and a AR TI CL E IN P RE SS poly-A tail designed for mRNA synthesis. mRNA was synthesized using the IVTpro T7 mRNA Synthesis Kit (Takara Bio, #6144) with a linearized plasmid digested by Esp3I (New England Biolabs, #R0734L) or BsmBI-v2 (New England Biolabs, #R0739L). .. N1-methylpseudouridine-5′-triphosphate (TriLink, #N-1081) was used in place of the uridine-5′-triphosphate supplied with the IVTpro T7 kit.

    Sequencing:

    Article Title: A poorly reactogenic lipid nanoparticle-mRNA vaccine unveils an innate immune pathway for adverse reactions.
    Article Snippet: .. At the end of the study, mice were humanely euthanized by cervical dislocation under deep isoflurane anesthesia, in accordance with the guidelines of the Animal Care and Use Committee of the National Institute of Infectious Diseases. mRNA synthesis and LNP formulation The complete sequence of the SARS-CoV-2 ancestral spike protein, incorporating two key mutations (K986P and V987P) to enhance structural stability, was codon optimized and cloned into a plasmid containing a T7 promoter, a 5′ UTR derived from human α-globin, a 3′ UTR from aminoterminal enhancer of split (AES) mRNA and mitochondrially encoded 12S rRNA (mtRNR1)37, and a AR TI CL E IN P RE SS poly-A tail designed for mRNA synthesis. mRNA was synthesized using the IVTpro T7 mRNA Synthesis Kit (Takara Bio, #6144) with a linearized plasmid digested by Esp3I (New England Biolabs, #R0734L) or BsmBI-v2 (New England Biolabs, #R0739L). .. N1-methylpseudouridine-5′-triphosphate (TriLink, #N-1081) was used in place of the uridine-5′-triphosphate supplied with the IVTpro T7 kit.

    Plasmid Preparation:

    Article Title: A poorly reactogenic lipid nanoparticle-mRNA vaccine unveils an innate immune pathway for adverse reactions.
    Article Snippet: .. At the end of the study, mice were humanely euthanized by cervical dislocation under deep isoflurane anesthesia, in accordance with the guidelines of the Animal Care and Use Committee of the National Institute of Infectious Diseases. mRNA synthesis and LNP formulation The complete sequence of the SARS-CoV-2 ancestral spike protein, incorporating two key mutations (K986P and V987P) to enhance structural stability, was codon optimized and cloned into a plasmid containing a T7 promoter, a 5′ UTR derived from human α-globin, a 3′ UTR from aminoterminal enhancer of split (AES) mRNA and mitochondrially encoded 12S rRNA (mtRNR1)37, and a AR TI CL E IN P RE SS poly-A tail designed for mRNA synthesis. mRNA was synthesized using the IVTpro T7 mRNA Synthesis Kit (Takara Bio, #6144) with a linearized plasmid digested by Esp3I (New England Biolabs, #R0734L) or BsmBI-v2 (New England Biolabs, #R0739L). .. N1-methylpseudouridine-5′-triphosphate (TriLink, #N-1081) was used in place of the uridine-5′-triphosphate supplied with the IVTpro T7 kit.

    Article Title: Integrative screening identifies functional variants and VNTRs underlying GWAS signals at the 5p15.33 multi-cancer susceptibility locus
    Article Snippet: Amplified products were cloned into the pXPR_050 vector (Addgene #96925) using the same emulsion PCR strategy described above for MPRA. ePCR products were purified with a QIAquick PCR Purification Kit (QIAGEN). .. The pXPR_050 backbone was digested with Esp3I (NEB), gel-extracted to isolate the linearized vector, and ligated to the sgRNA ePCR amplicons using Electroligase (NEB). ..

    Article Title: A Dual-Plasmid CRISPR/Cas9-Based Genome Editing System for Efficient Gene Knockout and Large DNA Integration in Cronobacter malonaticus
    Article Snippet: .. The pAmpCRISPR plasmid was constructed as follows: fragments flanking the two Esp3I (NEB, MA) sites were amplified from pUCP20, and the oriT gene was amplified from pEX18Tc. ..

    Derivative Assay:

    Article Title: A poorly reactogenic lipid nanoparticle-mRNA vaccine unveils an innate immune pathway for adverse reactions.
    Article Snippet: .. At the end of the study, mice were humanely euthanized by cervical dislocation under deep isoflurane anesthesia, in accordance with the guidelines of the Animal Care and Use Committee of the National Institute of Infectious Diseases. mRNA synthesis and LNP formulation The complete sequence of the SARS-CoV-2 ancestral spike protein, incorporating two key mutations (K986P and V987P) to enhance structural stability, was codon optimized and cloned into a plasmid containing a T7 promoter, a 5′ UTR derived from human α-globin, a 3′ UTR from aminoterminal enhancer of split (AES) mRNA and mitochondrially encoded 12S rRNA (mtRNR1)37, and a AR TI CL E IN P RE SS poly-A tail designed for mRNA synthesis. mRNA was synthesized using the IVTpro T7 mRNA Synthesis Kit (Takara Bio, #6144) with a linearized plasmid digested by Esp3I (New England Biolabs, #R0734L) or BsmBI-v2 (New England Biolabs, #R0739L). .. N1-methylpseudouridine-5′-triphosphate (TriLink, #N-1081) was used in place of the uridine-5′-triphosphate supplied with the IVTpro T7 kit.

    Synthesized:

    Article Title: A poorly reactogenic lipid nanoparticle-mRNA vaccine unveils an innate immune pathway for adverse reactions.
    Article Snippet: .. At the end of the study, mice were humanely euthanized by cervical dislocation under deep isoflurane anesthesia, in accordance with the guidelines of the Animal Care and Use Committee of the National Institute of Infectious Diseases. mRNA synthesis and LNP formulation The complete sequence of the SARS-CoV-2 ancestral spike protein, incorporating two key mutations (K986P and V987P) to enhance structural stability, was codon optimized and cloned into a plasmid containing a T7 promoter, a 5′ UTR derived from human α-globin, a 3′ UTR from aminoterminal enhancer of split (AES) mRNA and mitochondrially encoded 12S rRNA (mtRNR1)37, and a AR TI CL E IN P RE SS poly-A tail designed for mRNA synthesis. mRNA was synthesized using the IVTpro T7 mRNA Synthesis Kit (Takara Bio, #6144) with a linearized plasmid digested by Esp3I (New England Biolabs, #R0734L) or BsmBI-v2 (New England Biolabs, #R0739L). .. N1-methylpseudouridine-5′-triphosphate (TriLink, #N-1081) was used in place of the uridine-5′-triphosphate supplied with the IVTpro T7 kit.

    Construct:

    Article Title: A proteome-wide dependency map of protein interaction motifs.
    Article Snippet: Short linear motifs (SLiMs) are the most ubiquitous protein interaction motifs within unstructured regions of the human proteome, yet their contribution to cellular homeostasis remains poorly understood.. Here, to systematically assess SLiM function, we applied base editing to mutate all reported and a set of computationally predicted SLiMs defined by SLiM-like evolutionary patterns.. By screening 7,293 SLiM-containing regions with 80,473 mutations in HAP1 cells, we define a SLiM dependency map identifying 450 reported and 264 predicted SLiMs required for normal cell proliferation.

    Article Title: A Dual-Plasmid CRISPR/Cas9-Based Genome Editing System for Efficient Gene Knockout and Large DNA Integration in Cronobacter malonaticus
    Article Snippet: .. The pAmpCRISPR plasmid was constructed as follows: fragments flanking the two Esp3I (NEB, MA) sites were amplified from pUCP20, and the oriT gene was amplified from pEX18Tc. ..

    Cloning:

    Article Title: A proteome-wide dependency map of protein interaction motifs.
    Article Snippet: Short linear motifs (SLiMs) are the most ubiquitous protein interaction motifs within unstructured regions of the human proteome, yet their contribution to cellular homeostasis remains poorly understood.. Here, to systematically assess SLiM function, we applied base editing to mutate all reported and a set of computationally predicted SLiMs defined by SLiM-like evolutionary patterns.. By screening 7,293 SLiM-containing regions with 80,473 mutations in HAP1 cells, we define a SLiM dependency map identifying 450 reported and 264 predicted SLiMs required for normal cell proliferation.

    DNA Ligation:

    Article Title: Reprogramming of neuronal genome function and phenotype by astrocytes
    Article Snippet: Phosphorylation and annealing were performed by mixing 500 ng of each strand with T4 Polynucleotide Kinase (NEB, M0201) in T4 DNA Ligase Reaction Buffer (NEB, M0202), incubating at 37°C for 30 minutes, 95°C for 5 minutes, and ramping down to 25°C at 5°C/min. .. The annealed duplex was diluted 1:200 and cloned into Esp3I-digested (NEB, R0734) and gel-purified (Qiagen, 28706) lentiviral backbone (described above) via T4 DNA ligation (NEB, M0202). .. To clone the gRNAs into a lentivirus vector, we first constructed a lentiviral gRNA expression plasmid by combining a U6-gRNA cassette containing the gRNA-(F+E)-combined scaffold sequence with an EGFP-P2A-PAC cassette into a lentiviral expression backbone (Addgene #83925) using Gibson assembly (NEB, E2611).

    other:

    Article Title: Phage-assisted evolution of allosteric protein switches.
    Article Snippet: All plasmids were amplifiedwith primers ordered fromMerck and assembled using one-pot GoldenGate reactions58.

    Amplification:

    Article Title: A Dual-Plasmid CRISPR/Cas9-Based Genome Editing System for Efficient Gene Knockout and Large DNA Integration in Cronobacter malonaticus
    Article Snippet: .. The pAmpCRISPR plasmid was constructed as follows: fragments flanking the two Esp3I (NEB, MA) sites were amplified from pUCP20, and the oriT gene was amplified from pEX18Tc. ..



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    Image Search Results


    Plasmid map and cloning site distribution of the pAmpCRISPR/pCasCm system. ( a ) Plasmid map of pAmpCRISPR. tac promoter, the sgRNA expression promoter; MCS, multiple cloning site; Esp3I, the sgRNA sequence was cloned between two Esp3I restriction sites; Amp R , ampicillin resistance gene; oriT , origin of transfer; sacB , a sucrose counter-selectable marker. ( b ) Plasmid map of pCasCm. Expression of the λ-Red recombination system (Gam, Beta, and Exo) and Cas9 protein is driven by the L-arabinose-inducible araB promoter (P araB ); pSC101, a temperature-sensitive replicon; Tc R , tetracycline resistance gene. ( c ) Cloning site sequence of the pAmpCRISPR plasmid.

    Journal: Pathogens

    Article Title: A Dual-Plasmid CRISPR/Cas9-Based Genome Editing System for Efficient Gene Knockout and Large DNA Integration in Cronobacter malonaticus

    doi: 10.3390/pathogens15090990

    Figure Lengend Snippet: Plasmid map and cloning site distribution of the pAmpCRISPR/pCasCm system. ( a ) Plasmid map of pAmpCRISPR. tac promoter, the sgRNA expression promoter; MCS, multiple cloning site; Esp3I, the sgRNA sequence was cloned between two Esp3I restriction sites; Amp R , ampicillin resistance gene; oriT , origin of transfer; sacB , a sucrose counter-selectable marker. ( b ) Plasmid map of pCasCm. Expression of the λ-Red recombination system (Gam, Beta, and Exo) and Cas9 protein is driven by the L-arabinose-inducible araB promoter (P araB ); pSC101, a temperature-sensitive replicon; Tc R , tetracycline resistance gene. ( c ) Cloning site sequence of the pAmpCRISPR plasmid.

    Article Snippet: The pAmpCRISPR plasmid was constructed as follows: fragments flanking the two Esp3I (NEB, MA) sites were amplified from pUCP20, and the oriT gene was amplified from pEX18Tc.

    Techniques: Plasmid Preparation, Cloning, Expressing, Sequencing, Clone Assay, Marker