The largest database of trusted experimental protocols

Pentr2b

Manufactured by Thermo Fisher Scientific
Sourced in United States

The PENTR2B is a laboratory equipment designed for the purification of plasmid DNA. It utilizes a silica-based membrane to efficiently capture and purify plasmid DNA from cell lysates. The PENTR2B provides a reliable and reproducible method for obtaining high-quality plasmid DNA samples suitable for a variety of downstream applications.

Automatically generated - may contain errors

13 protocols using pentr2b

1

Lyn-FAK FRET Biosensor Construction

Check if the same lab product or an alternative is used in the 5 most similar protocols
The lipid raft/membrane–localized intramolecular Lyn-FAK FRET biosensor was provided by Y.W., University of California, Los Angeles (33 (link)). The Lyn-FAK biosensor was subcloned into the Gateway shuttle vector pENTR2b (Thermo Fisher Scientific, A10463) and amplified using competent Escherichia coli (DH5α, Thermo Fisher Scientific) cells. The pENTR2b-Lyn-FAK construct was then subcloned into the Gateway compatible PiggyBac transposon–based destination vector (pPBDEST51; Thermo Fisher Scientific, 12285011), by LR reaction using LR Clonase II as per the manufacturer’s instructions to generate pPBDEST-Lyn-FAK. All sequencing was performed in-house at the Garvan Molecular Genetics facility (Sydney, Australia) and verified using SnapGene (GSL Biotech: SnapGene.com">SnapGene.com).
+ Open protocol
+ Expand
2

Lentiviral Expression of Tagged SQSTM1 and 53BP1c

Check if the same lab product or an alternative is used in the 5 most similar protocols
For lentiviral expression full-length wild-type FLAG-tagged SQSTM1 was subcloned into the pLenti6-UbC/V5-DEST vector (ThemoFisher Scientific, V49910) using EcoRI and XhoI (New England BioLabs, R0101, R0146). Briefly, FLAG-SQSTM1 and pLENTI6/V5-DEST vector were digested with EcoRI and XhoI prior to gel purification using Qiaquick GEL Extraction Kit (Qiagen, 28704). The vector was dephosphorylated by calf intestinal alkaline phosphatase (Fermentas, EF0651) and the ligation with FLAG-SQSTM1 was carried out using T4 DNA Ligase (New England BioLabs, M0202S). mCherry-53BP1c for lentiviral expression was generated as follows: a 2.7-kb C-terminal portion of TP53BP1 (53BP1c), was excised from pAcGFP-53BP1c,33 (link) using BamHI and XhoI and ligated into pENTR2B (Invitrogen, A10463) to create pENTR2B-53BP1c. The sequence for mCherry fluorescent protein was amplified via PCR from pRSETB-mCherry,34 (link) incorporating SalI sites at both ends and a 5 amino acid linker at the 3′ end.32 (link) This product was ligated into pENTR2B-53BP1c SalI site in frame 5′ of 53BP1c. A correct, sequence-verified clone was then recombined into pLenti6-UbC/V5-DEST using LR Clonase following the manufacturer's instructions (Invitrogen, 11791100) to produce pLenti6-mCherry-53BP1c.
+ Open protocol
+ Expand
3

Lentiviral Vector Construction for Bsd and Usp10

Check if the same lab product or an alternative is used in the 5 most similar protocols
For construction of a bicistronic lentiviral vector expressing blasticidin deaminase (Bsd) and mouse USP10, Bsd was first PCR-amplified from CSII-CMV-MCS-IRES2-Bsd (provided by Dr. H. Miyoshi of RIKEN Tsukuba Institute) and inserted into the BamHI and NotI sites of pMXs-IG (provided by Dr. T. Kitamura of Tokyo University). The GFP sequence downstream of the internal ribosome entry site (IRES) was replaced with mouse Usp10 cDNA using PCR. A Bsd-IRES-Usp10 fragment was cloned into the SalI and XhoI sites of the Gateway entry vector pENTR 2B (Thermo Scientific). Entry vectors for Usp10 mutants (77–792, 95–792, and C418A) were constructed by replacing Usp10-WT in pENTR-Bsd-IRES-Usp10 with the respective mutants using PCR. pENTR-Bsd-IRES-GFP was constructed by inserting a Bsd-IRES-GFP fragment into the SalI and XhoI sites of pENTR 2B. CS-CMV-RfA is a lentiviral Gateway destination vector constructed by inserting Gateway reading frame cassette A into the NheI and HpaI sites of CSII-CMV-MCS-IRES2-Bsd. Bsd-IRES-Usp10, Bsd-IRES-Usp10 mutants, or Bsd-IRES-GFP was transferred to CS-CMV-RfA by an LR recombination using LR Clonase (Thermo Scientific).
+ Open protocol
+ Expand
4

GFP-Kif26b Expression Plasmid Generation

Check if the same lab product or an alternative is used in the 5 most similar protocols
To construct the GFP-Kif26b expression plasmid, the eGFP open reading frame was first subcloned into pENTR-2B (11816-014, Thermo Fisher Scientific), and the full-length mouse Kif26b open reading frame was subcloned in frame to the C-terminus of GFP. The resulting construct was verified by sequencing and then recombined with the pEF5-FRT-V5 vector (V602020, Thermo Fisher Scientific) using LR clonase II (11791100, Thermo Fisher Scientific) to create pEF5-GFP-Kif26b-FRT. The pEF5-GFP-Kif26b-FRT plasmid was used to generate stable isogenic cell lines using the Flp-In system and Flp-In NIH/3T3 cell line (Thermo Fisher Scientific). DNA transfection was performed in 10-cm plates with Genjet In Vitro Transfection Reagent (SL100488; SignaGen Laboratories, Rockville, MD). Cells that stably integrated the Flp-In constructs were selected using 200 μg/ml hygromycin B and expanded. A more detailed protocol is described at Bio-Protocol (Karuna et al., 2018 (link)).
+ Open protocol
+ Expand
5

Generating Nrl-DsRed Promoter Reporter

Check if the same lab product or an alternative is used in the 5 most similar protocols
To prepare the Nrl–DsRed promoter reporter, we digested out the promoter and reporter fragment from a commercially available vector, pNrl–DsRed (Addgene, 13764), using restriction enzymes. These fragments were then cloned into a gateway entry vector pENTR2B (Thermo Fisher Scientific, A10463). Positive clones were then shuffled into a destination vector, pLentiX1 Zeo DEST (Addgene, 17299). The final product was then used for lentivirus preparation. Human fetal lung fibroblasts (HFL1; ATCC, CCL153) were transduced with the lentivirus and selected with Zeocin (200 μg ml−1; InvivoGen, ant-zn-1) for 8 days.
+ Open protocol
+ Expand
6

Functional Characterization of Phosphate Transporters

Check if the same lab product or an alternative is used in the 5 most similar protocols
The MtPHO1.1 and MtPHO1.2 genes were amplified from genomic DNA using gene-specific primers (Supplemental Table S3), cloned into the pENTR2B (Invitrogen) by In-Fusion polymerase (Takara Bio), and inserted into pMDC83 plasmid by Gateway cloning (InVitrogen). For transient expression, N. benthamiana plants were infiltrated with Agrobacterium tumefaciens as previously described (Arpat et al., 2012 (link)). Pi and nitrate export assays were performed as previously described (Arpat et al., 2012 (link)). Pi concentration in solution was quantified by the molybdate assay (Ames, 1966 ), whereas nitrate was quantified by first converting nitrate to nitrite using commercial nitrate reductase from Aspergillus niger (Sigma) followed by nitrite quantification using sulfanilamide (Barthes et al., 1995 ). Confocal imaging was performed using a Zeiss LSM 700 instrument with Apochromat 63 × NA1.2 water immersion or multi-immersion objective.
+ Open protocol
+ Expand
7

Slit1 Expression in Lentivirus System

Check if the same lab product or an alternative is used in the 5 most similar protocols
Human Slit1 complementary DNA (cDNA) cloned into the pCR-XL-TOPO vector (Thermo Fisher Scientific, Waltham, MA, USA) was inserted into pENTR2B (Invitrogen, Carlsbad, CA, USA) at the Eco RI site, which was then transferred into the CS2-CMV-RfA-IRES2-Venus lentiviral vector (provided by H. Miyoshi, RIKEN, Wako, Japan) using the Gateway system (Invitrogen). As a Cnt, the same vector into which DsRed cDNA was inserted using the Gateway system or the CS2-CMV-Venus lentiviral vector (provided by H. Miyoshi) was used. For time-lapse imaging, the Slit1 cDNA was inserted into the LeGO-iT lentivirus vector (Addgene plasmid #27361; a gift from B. Fehse) (51 (link)) at the Eco RI site.
+ Open protocol
+ Expand
8

Gateway Cloning of Lentiviral Constructs

Check if the same lab product or an alternative is used in the 5 most similar protocols
To generate the lentiviral constructs pLenti6.3/TO/V5-DEST-IGFBP2 (Addgene, #191006), pLenti6.3/TO/V5-DEST-IGFBP2-Clover (Addgene, #191008), and pLenti6.3/TO/V5-DEST-mTurquoise2 (Addgene, #191010), entry clones were LR subcloned with the Gateway destination vector pLenti6.3/TO/V5-DEST (Invitrogen) using LR Clonase II (Invitrogen, 11791), as per the manufacturers’ protocol. pENTR221-IGFBP2-Clover (Addgene, #191007) was synthesized by BioCat (Heidelberg, Germany), while pENTR2b-mTurquoise2 (Addgene, #191014) was generated by first polymerase chain reaction (PCR)–amplifying mT2 from pmTurquoise2-N1 [Addgene, #54843 (64 (link))] using primers 5′-GGCTGGCGCCGGTACCGCCACCATGGTGAGCAAGGGCG-3′ and 5′-GGGTCTAGATATCTCGAGTCATTACTTGTACAGCTCGTCCATGCCGAGAG-3′. This PCR fragment was then digested with Xho I/Kpn I (New England Biolabs), in parallel with digestion of the pENTR2b (Invitrogen, A10463) backbone with the same restriction enzymes. These fragments were then ligated using T4 DNA ligase (Thermo Fisher Scientific, EL0011). All plasmids were validated by analytical digests and sequencing.
+ Open protocol
+ Expand
9

Generation of HER2 Breast Cancer Model

Check if the same lab product or an alternative is used in the 5 most similar protocols
Neu-pMIL was used to generate the HER2 breast cancer model. This expresses a truncated form of Neu (approximately 647 to 1,260 amino acids, the rodent orthologue of Her2) with elevated activity due to truncation of the extracellular domain [27 (link)]. Truncated Neu was subcloned from Neu-pLJ by digestion using Sal1 followed by subcloning into pENTR2B (Invitrogen, Mulgrave, Victoria, Australia). The gene was subsequently cloned into pMIL, a derivative of pMig [28 (link)] that expresses a luciferase marker, to generate Neu-pMIL, in which expression of Neu is driven by the murine stem cell virus (MSCV) promoter. The Gateway LR recombination reaction was used as per the manufacturer's instructions (Invitrogen).
+ Open protocol
+ Expand
10

Lentiviral Transduction of MSCs to Overexpress SDF-1

Check if the same lab product or an alternative is used in the 5 most similar protocols
MSC isolated from GFP transgenic mice were induced to overexpress SDF‐1 by transduction with a lentivirus encoding SDF‐115. The Lentivirus was constructed using the pLenti6 V5/DEST plasmid Gateway System from the Virapower Lentiviral Expression System (Invitrogen). The SDF‐1 gene was generated by reverse transcription from the mRNA of human foreskin fibroblasts and PCRed using the primers, Forward: 5′‐GCTAGCGTCGACATGAACGCCAAGGTCGTGGTCGTGCTGGTC‐3′; Reverse: 5′‐GAAT TCTTACTTGTTTAAGGCTTTCTCCAGGTACTCCTGAAT‐3′. The resulting product was digested with SalI and EcoRI and ligated it onto a SalI/EcoRI digested shuttle vector, pENTR 2B (Invitrogen, Carlsbad, CA). Following the Gateway System kit instructions, the pENTR2B/hSDF vector was clonased into the pLenti6.2 V5/DEST Vector, creating the pLenti6.2/hSDF‐1 construct, lentiviral particles were produced and cells were transduced. Blasticidin selection was used to isolate a stably transfected cell population. To quantify SDF‐1 overexpression of MSC, 50,000 control and SDF‐1 overexpression MSC (SDF‐1:MSC) were plated separately in T75 flask in serum‐free dulbecco's modification of eagle's medium (DMEM). SDF‐1 levels in the media were quantified using ELISA 24 hours later (R&D Systems, Minneapolis, MN). An equal cell number was verified by quantifying total protein per cell layer at the end of the experiment.
+ Open protocol
+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required

Sign up now

Revolutionizing how scientists
search and build protocols!