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Addgene inc bbsi site
Bbsi Site, supplied by Addgene inc, used in various techniques. Bioz Stars score: 96/100, based on 4065 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/bbsi+sites/pSpCas9(BB)-2A-GFP+(PX458)+(Plasmid+%2348138)/bio_rxiv__64898__2026__01__22__701170-240-27-29
Average 96 stars, based on 4065 article reviews
bbsi site - by Bioz Stars, 2026-09
96/100 stars

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CRISPR:

Article Title: The role and mechanism of p53 F229V mutation in inhibiting pseudorabies virus replication
Article Snippet: .. The CRISPR/Cas9 targeting plasmids were assembled by cloning annealed oligonucleotides encoding the desired sgRNAs into the BbsI sites of pUC19-sgRNA vector (Addgene #51132) that carries the guide-RNA scaffold sequence; Cas9 was expressed from pcDNA3.1-Cas9 (Addgene #41815, sequence-verified). .. The RFP cassette (714 bp) was amplified from pmRFP-C1 (Clontech) with primers RFP-fwd 5′-AATAGTAATCAATTACGGGGTCATT-3′ and RFP-rev 5′-AGATACATTGATGAGTTTGGACAAACCA-3′ (annealing 58 °C, 30 s) using Q5 HF polymerase (NEB).

Article Title: Restored Collagen VI Microfilaments Network in the Extracellular Matrix of CRISPR-Edited Ullrich Congenital Muscular Dystrophy Fibroblasts.
Article Snippet: .. The CRISPR/Cas9 effector plasmids for gRNA1 and gRNA3 were generated by cloning two annealed oligonucleotides for each gRNA into BbsI sites of the pX330-U6-Chimeric_BBCBh-hSpCas9 plasmid (Addgene plasmid # 42230). .. The CRISPR/Cas9 effector plasmid for gRNA2 was obtained by cloning annealed oligonucleotides in the pX330-U6-Chimeric_BBCBh-hSpCas9 plasmid into BbsI sites, followed by subcloning of the U6-gRNA2 cassette into the MSP2440 plasmid (Addgene plasmid # 72250) carrying the expression cassette for VQRHF1-SpCas9 [23].

Article Title: The role and mechanism of p53 F229V mutation in inhibiting pseudorabies virus replication.
Article Snippet: .. The CRISPR/Cas9 targeting plasmids were assembled by cloning annealed oligonucleotides encoding the desired sgRNAs into the BbsI sites of pUC19-sgRNA vector (Addgene #51132) that carries the guide-RNA scaffold sequence; Cas9 was expressed from pcDNA3.1-Cas9 (Addgene #41815, sequenceverified). .. The RFP cassette (714 bp) was amplified from pmRFP-C1 (Clontech) with primers RFP-fwd 5′-AATAGTAATCAATTACGGGG TCATT-3′ and RFP-rev 5′-AGATACATTGATGAGTTTGGACAAA CCA-3′ (annealing 58 °C, 30 s) using Q5 HF polymerase (NEB).

Cloning:

Article Title: The role and mechanism of p53 F229V mutation in inhibiting pseudorabies virus replication
Article Snippet: .. The CRISPR/Cas9 targeting plasmids were assembled by cloning annealed oligonucleotides encoding the desired sgRNAs into the BbsI sites of pUC19-sgRNA vector (Addgene #51132) that carries the guide-RNA scaffold sequence; Cas9 was expressed from pcDNA3.1-Cas9 (Addgene #41815, sequence-verified). .. The RFP cassette (714 bp) was amplified from pmRFP-C1 (Clontech) with primers RFP-fwd 5′-AATAGTAATCAATTACGGGGTCATT-3′ and RFP-rev 5′-AGATACATTGATGAGTTTGGACAAACCA-3′ (annealing 58 °C, 30 s) using Q5 HF polymerase (NEB).

Article Title: Restored Collagen VI Microfilaments Network in the Extracellular Matrix of CRISPR-Edited Ullrich Congenital Muscular Dystrophy Fibroblasts.
Article Snippet: .. The CRISPR/Cas9 effector plasmids for gRNA1 and gRNA3 were generated by cloning two annealed oligonucleotides for each gRNA into BbsI sites of the pX330-U6-Chimeric_BBCBh-hSpCas9 plasmid (Addgene plasmid # 42230). .. The CRISPR/Cas9 effector plasmid for gRNA2 was obtained by cloning annealed oligonucleotides in the pX330-U6-Chimeric_BBCBh-hSpCas9 plasmid into BbsI sites, followed by subcloning of the U6-gRNA2 cassette into the MSP2440 plasmid (Addgene plasmid # 72250) carrying the expression cassette for VQRHF1-SpCas9 [23].

Article Title: The role and mechanism of p53 F229V mutation in inhibiting pseudorabies virus replication.
Article Snippet: .. The CRISPR/Cas9 targeting plasmids were assembled by cloning annealed oligonucleotides encoding the desired sgRNAs into the BbsI sites of pUC19-sgRNA vector (Addgene #51132) that carries the guide-RNA scaffold sequence; Cas9 was expressed from pcDNA3.1-Cas9 (Addgene #41815, sequenceverified). .. The RFP cassette (714 bp) was amplified from pmRFP-C1 (Clontech) with primers RFP-fwd 5′-AATAGTAATCAATTACGGGG TCATT-3′ and RFP-rev 5′-AGATACATTGATGAGTTTGGACAAA CCA-3′ (annealing 58 °C, 30 s) using Q5 HF polymerase (NEB).

Sequencing:

Article Title: The role and mechanism of p53 F229V mutation in inhibiting pseudorabies virus replication
Article Snippet: .. The CRISPR/Cas9 targeting plasmids were assembled by cloning annealed oligonucleotides encoding the desired sgRNAs into the BbsI sites of pUC19-sgRNA vector (Addgene #51132) that carries the guide-RNA scaffold sequence; Cas9 was expressed from pcDNA3.1-Cas9 (Addgene #41815, sequence-verified). .. The RFP cassette (714 bp) was amplified from pmRFP-C1 (Clontech) with primers RFP-fwd 5′-AATAGTAATCAATTACGGGGTCATT-3′ and RFP-rev 5′-AGATACATTGATGAGTTTGGACAAACCA-3′ (annealing 58 °C, 30 s) using Q5 HF polymerase (NEB).

Article Title: The role and mechanism of p53 F229V mutation in inhibiting pseudorabies virus replication.
Article Snippet: .. The CRISPR/Cas9 targeting plasmids were assembled by cloning annealed oligonucleotides encoding the desired sgRNAs into the BbsI sites of pUC19-sgRNA vector (Addgene #51132) that carries the guide-RNA scaffold sequence; Cas9 was expressed from pcDNA3.1-Cas9 (Addgene #41815, sequenceverified). .. The RFP cassette (714 bp) was amplified from pmRFP-C1 (Clontech) with primers RFP-fwd 5′-AATAGTAATCAATTACGGGG TCATT-3′ and RFP-rev 5′-AGATACATTGATGAGTTTGGACAAA CCA-3′ (annealing 58 °C, 30 s) using Q5 HF polymerase (NEB).

Article Title: Subcellular transcriptome of radial glia reveals compartmentalized control of cortical development
Article Snippet: .. U6-gRNA: Addgene #109053. gRNAs were annealed and inserted using built in BbsI sites. pCAG-gRNA: The RfxCas13d DR30 sequence and BbsI sites were amplified from Addgene #109053 and inserted into an empty pCAG backbone. gRNAs were annealed and inserted using BbsI sites. ..

Phospho-proteomics:

Article Title: Identification of the Staphylococcus aureus Endothelial Cell Surface Interactome by Proximity Labeling
Article Snippet: Generation of K.O. cell lines is based on a previous protocol [ ]. sgRNAs ( ) were designed with the CHOPCHOP online tool (chopchop.cdu.uib.no) and synthesized as primer pairs (Sigma Aldrich). .. After phosphorylation with T4 nucleotide kinase (ThermoFisher, Cat. No. ER0031), the sgRNAs were cloned into the BbsI sites of pSpCas9(BB)-p2A-GFP (AddGene #48138, [ ]) via forced ligation by BbsI (ThermoFisher, Cat. No. ER1012) and T4 Nulceotide ligase (ThermoFisher, Cat. No. EL0011). .. The constructs were then transformed in E. coli DH5α (ThermoFisher, Cat. No EC0112) and subsequently sequence verified.

Article Title: Identification of the Staphylococcus aureus endothelial cell surface interactome by proximity labeling
Article Snippet: Single guide RNAs (sgRNAs; ) were designed with the CHOPCHOP online tool (chopchop.cdu.uib.no) and synthesized as primer pairs (Sigma Aldrich). .. After phosphorylation with T4 nucleotide kinase (ThermoFisher, Cat. no. ER0031), the sgRNAs were cloned into the BbsI sites of pSpCas9(BB)-p2A-GFP (AddGene #48138 [ ]) via forced ligation by BbsI (ThermoFisher, Cat. no. ER1012) and T4 Nucleotide ligase (ThermoFisher, Cat. no. EL0011). .. The constructs were then transformed in Escherichia coli DH5α (ThermoFisher, Cat. no. EC0112) and subsequently sequence verified.

Article Title: Identification of the Staphylococcus aureus endothelial cell surface interactome by proximity labeling.
Article Snippet: Single guide RNAs (sgRNAs; Table 1) were designed with the CHOPCHOP online tool (chopchop.cdu.uib.no) and synthesized as primer pairs (Sigma Aldrich). .. After phosphorylation with T4 nucleotide kinase (ThermoFisher, Cat. no. ER0031), the sgRNAs were cloned into the BbsI sites of pSpCas9(BB)-p2A-GFP (AddGene #48138 [62]) via forced ligation by BbsI (ThermoFisher, Cat. no. ER1012) and T4 Nucleotide ligase (ThermoFisher, Cat. no. EL0011). .. The constructs were then transformed in Escherichia coli DH5α (ThermoFisher, Cat. no. EC0112) and subsequently sequence verified.

Clone Assay:

Article Title: Identification of the Staphylococcus aureus Endothelial Cell Surface Interactome by Proximity Labeling
Article Snippet: Generation of K.O. cell lines is based on a previous protocol [ ]. sgRNAs ( ) were designed with the CHOPCHOP online tool (chopchop.cdu.uib.no) and synthesized as primer pairs (Sigma Aldrich). .. After phosphorylation with T4 nucleotide kinase (ThermoFisher, Cat. No. ER0031), the sgRNAs were cloned into the BbsI sites of pSpCas9(BB)-p2A-GFP (AddGene #48138, [ ]) via forced ligation by BbsI (ThermoFisher, Cat. No. ER1012) and T4 Nulceotide ligase (ThermoFisher, Cat. No. EL0011). .. The constructs were then transformed in E. coli DH5α (ThermoFisher, Cat. No EC0112) and subsequently sequence verified.

Article Title: Identification of the Staphylococcus aureus endothelial cell surface interactome by proximity labeling
Article Snippet: Single guide RNAs (sgRNAs; ) were designed with the CHOPCHOP online tool (chopchop.cdu.uib.no) and synthesized as primer pairs (Sigma Aldrich). .. After phosphorylation with T4 nucleotide kinase (ThermoFisher, Cat. no. ER0031), the sgRNAs were cloned into the BbsI sites of pSpCas9(BB)-p2A-GFP (AddGene #48138 [ ]) via forced ligation by BbsI (ThermoFisher, Cat. no. ER1012) and T4 Nucleotide ligase (ThermoFisher, Cat. no. EL0011). .. The constructs were then transformed in Escherichia coli DH5α (ThermoFisher, Cat. no. EC0112) and subsequently sequence verified.

Article Title: Essential roles of CTCF binding sites at TAD boundaries in modulating chromatin interactions and transcriptional regulation at the Ifng locus.
Article Snippet: .. Briefly, the following pairs of single-guide RNA (sgRNA) sequences were annealed and cloned into the BbsI sites of the pX330 vector (Addgene plasmid #42230): for DCBS–70 mice (5 ́-CACCGTGGAACAAATTTACCGAAGC-3 ́ and 5 ́- AAACGCTTCGGTAAATTTGTTCCAC-3 ́; 5 ́-CACCGA TACCACTGCCCCACCTTGT-3 ́ and 5 ́-AAACACAAGGTGGG GCAGTGGTATC-3 ́), and for DCBS+66 mice (5 ́-CACCGT GCCACCTCAGGGATACAAG-3 ́ and 5 ́-AAACCTTGTATCCC TGAGGTGGCAC-3 ́; 5 ́-CACCGGTTCAGCTTCCATGTTGCT3 ́ and 5 ́-AAACAGCAACATGGAAGCTGAACC-3 ́). .. These plasmids (5 ng/μL in 5 mM Tris-HCl [pH 7.4] containing 0.1 mM EDTA) were injected into the pronuclei of fertilized eggs from B6D2F1 mice using glass capillaries and a micromanipulator (FemotoJet, Eppendorf).

Article Title: Identification of the Staphylococcus aureus endothelial cell surface interactome by proximity labeling.
Article Snippet: Single guide RNAs (sgRNAs; Table 1) were designed with the CHOPCHOP online tool (chopchop.cdu.uib.no) and synthesized as primer pairs (Sigma Aldrich). .. After phosphorylation with T4 nucleotide kinase (ThermoFisher, Cat. no. ER0031), the sgRNAs were cloned into the BbsI sites of pSpCas9(BB)-p2A-GFP (AddGene #48138 [62]) via forced ligation by BbsI (ThermoFisher, Cat. no. ER1012) and T4 Nucleotide ligase (ThermoFisher, Cat. no. EL0011). .. The constructs were then transformed in Escherichia coli DH5α (ThermoFisher, Cat. no. EC0112) and subsequently sequence verified.

Ligation:

Article Title: Identification of the Staphylococcus aureus Endothelial Cell Surface Interactome by Proximity Labeling
Article Snippet: Generation of K.O. cell lines is based on a previous protocol [ ]. sgRNAs ( ) were designed with the CHOPCHOP online tool (chopchop.cdu.uib.no) and synthesized as primer pairs (Sigma Aldrich). .. After phosphorylation with T4 nucleotide kinase (ThermoFisher, Cat. No. ER0031), the sgRNAs were cloned into the BbsI sites of pSpCas9(BB)-p2A-GFP (AddGene #48138, [ ]) via forced ligation by BbsI (ThermoFisher, Cat. No. ER1012) and T4 Nulceotide ligase (ThermoFisher, Cat. No. EL0011). .. The constructs were then transformed in E. coli DH5α (ThermoFisher, Cat. No EC0112) and subsequently sequence verified.

Article Title: Identification of the Staphylococcus aureus endothelial cell surface interactome by proximity labeling
Article Snippet: Single guide RNAs (sgRNAs; ) were designed with the CHOPCHOP online tool (chopchop.cdu.uib.no) and synthesized as primer pairs (Sigma Aldrich). .. After phosphorylation with T4 nucleotide kinase (ThermoFisher, Cat. no. ER0031), the sgRNAs were cloned into the BbsI sites of pSpCas9(BB)-p2A-GFP (AddGene #48138 [ ]) via forced ligation by BbsI (ThermoFisher, Cat. no. ER1012) and T4 Nucleotide ligase (ThermoFisher, Cat. no. EL0011). .. The constructs were then transformed in Escherichia coli DH5α (ThermoFisher, Cat. no. EC0112) and subsequently sequence verified.

Article Title: Identification of the Staphylococcus aureus endothelial cell surface interactome by proximity labeling.
Article Snippet: Single guide RNAs (sgRNAs; Table 1) were designed with the CHOPCHOP online tool (chopchop.cdu.uib.no) and synthesized as primer pairs (Sigma Aldrich). .. After phosphorylation with T4 nucleotide kinase (ThermoFisher, Cat. no. ER0031), the sgRNAs were cloned into the BbsI sites of pSpCas9(BB)-p2A-GFP (AddGene #48138 [62]) via forced ligation by BbsI (ThermoFisher, Cat. no. ER1012) and T4 Nucleotide ligase (ThermoFisher, Cat. no. EL0011). .. The constructs were then transformed in Escherichia coli DH5α (ThermoFisher, Cat. no. EC0112) and subsequently sequence verified.

Plasmid Preparation:

Article Title: Essential roles of CTCF binding sites at TAD boundaries in modulating chromatin interactions and transcriptional regulation at the Ifng locus.
Article Snippet: .. Briefly, the following pairs of single-guide RNA (sgRNA) sequences were annealed and cloned into the BbsI sites of the pX330 vector (Addgene plasmid #42230): for DCBS–70 mice (5 ́-CACCGTGGAACAAATTTACCGAAGC-3 ́ and 5 ́- AAACGCTTCGGTAAATTTGTTCCAC-3 ́; 5 ́-CACCGA TACCACTGCCCCACCTTGT-3 ́ and 5 ́-AAACACAAGGTGGG GCAGTGGTATC-3 ́), and for DCBS+66 mice (5 ́-CACCGT GCCACCTCAGGGATACAAG-3 ́ and 5 ́-AAACCTTGTATCCC TGAGGTGGCAC-3 ́; 5 ́-CACCGGTTCAGCTTCCATGTTGCT3 ́ and 5 ́-AAACAGCAACATGGAAGCTGAACC-3 ́). .. These plasmids (5 ng/μL in 5 mM Tris-HCl [pH 7.4] containing 0.1 mM EDTA) were injected into the pronuclei of fertilized eggs from B6D2F1 mice using glass capillaries and a micromanipulator (FemotoJet, Eppendorf).

Article Title: Restored Collagen VI Microfilaments Network in the Extracellular Matrix of CRISPR-Edited Ullrich Congenital Muscular Dystrophy Fibroblasts.
Article Snippet: .. The CRISPR/Cas9 effector plasmids for gRNA1 and gRNA3 were generated by cloning two annealed oligonucleotides for each gRNA into BbsI sites of the pX330-U6-Chimeric_BBCBh-hSpCas9 plasmid (Addgene plasmid # 42230). .. The CRISPR/Cas9 effector plasmid for gRNA2 was obtained by cloning annealed oligonucleotides in the pX330-U6-Chimeric_BBCBh-hSpCas9 plasmid into BbsI sites, followed by subcloning of the U6-gRNA2 cassette into the MSP2440 plasmid (Addgene plasmid # 72250) carrying the expression cassette for VQRHF1-SpCas9 [23].

Generated:

Article Title: Restored Collagen VI Microfilaments Network in the Extracellular Matrix of CRISPR-Edited Ullrich Congenital Muscular Dystrophy Fibroblasts.
Article Snippet: .. The CRISPR/Cas9 effector plasmids for gRNA1 and gRNA3 were generated by cloning two annealed oligonucleotides for each gRNA into BbsI sites of the pX330-U6-Chimeric_BBCBh-hSpCas9 plasmid (Addgene plasmid # 42230). .. The CRISPR/Cas9 effector plasmid for gRNA2 was obtained by cloning annealed oligonucleotides in the pX330-U6-Chimeric_BBCBh-hSpCas9 plasmid into BbsI sites, followed by subcloning of the U6-gRNA2 cassette into the MSP2440 plasmid (Addgene plasmid # 72250) carrying the expression cassette for VQRHF1-SpCas9 [23].

Amplification:

Article Title: Subcellular transcriptome of radial glia reveals compartmentalized control of cortical development
Article Snippet: .. U6-gRNA: Addgene #109053. gRNAs were annealed and inserted using built in BbsI sites. pCAG-gRNA: The RfxCas13d DR30 sequence and BbsI sites were amplified from Addgene #109053 and inserted into an empty pCAG backbone. gRNAs were annealed and inserted using BbsI sites. ..



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