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42 protocols using eporator

1

Membrane-Engineered Vero Cells for Biosensing

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Membrane-engineered mammalian cells were created by the electroinsertion of the enzyme superoxide dismutase (SOD) into the membrane of Vero cell fibroblasts following the protocol of Moschopoulou et al. [43 (link)]. Initially, cells at a density of 3 × 106 mL−1 were centrifuged at 1000 rpm for 2 min and the pellet was resuspended in PBS (pH 7.4). Afterwards, cells were incubated with 1500 U·mL−1 CuZnSOD (EC1.15.1.1) for 20 min at 4 °C and the mixture was transferred to electroporator (Eppendorf Eporator, Eppendorf AG, Germany) cuvettes. Electroinsertion was performed by applying four pulses of an electric field at 1800 V·cm−1. Then, cells were centrifuged at 1000 rpm for 2 min and resuspended in cell culture medium. Finally, the sensors were fabricated by mixing 1 volume of Vero-SOD cells with 2 volumes of 4% (w/v) sodium alginate solution and was added dropwise with the use of a 22G syringe in 0.8 M CaCl2. Cells were immobilized in calcium alginate, forming beads containing 75 × 103 cells per bead with an approximate diameter of 2 mm. As already reported [39 (link),43 (link)], the membrane potential of membrane-engineered Vero cell fibroblasts is affected by the interactions of electroinserted SOD molecules and superoxide anions, producing measurable changes in the membrane potential.
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2

Generation of GFP-Expressing S. Enteritidis

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pGFPmut3.1 which contains the GFPmut3.1 variant of the Aequorea victoria GFP and anti-ampicillin protein (Ampr) in Escherichia coli was kindly provided by Dr. G. Zhu in Yangzhou University. The plasmids were extracted using a QIAprep plasmid spin miniprep kit and stored at -20 ℃. GFP-S. Enteritidis was prepared by introducing pGFPmut3.1 into the cultured S. Enteritidis using an electroporator (Eppendorf Eporator, Eppendorf AG, Germany) and selected by Luria broth (LB) agar plates containing ampicillin.
GFP-S. Enteritidis were cultivated continuously and observed under a fluorescence microscope (DM4000B, Leica, Germany). Then the GFP-S. Enteritidis were stored at -80 ℃ for the later experiments.
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3

Plasmid-Based Recombinant Protein Expression

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Plasmid extraction of synthetic gene and pGAPzαA was done with the plasmid DNA purification kit. The CaLB gene was amplified from the vector via PCR with forward primer pGAP_fw (5′-GCTGAAGCTGAATTCTTGCCATCTGGTTCTG-3′) and reverse primer pGAP_rev (5′-CACACTGGGTACCCGTTACTAGTGGATCCG-3′). The PCR product and pGAPzαA were digested using restriction enzymes EcoRI (100 U) and KpnI (100 U). After 20 min heat inactivation at 80 °C and purification of the specific DNA fragments with the PCR clean-up gel extraction kit, the digested CaLB gene and vector pGAPzαA were ligated using T4 DNA ligase (5 U) resulting in pGAP_CaLB. The plasmid construct was subsequently transformed into E. coli DH5α cells (purchased from Agilent Technologies; Santa Clara, CA, USA). The pGAP_CaLB was extracted from E. coli DH5α. About 200 ng plasmid DNA linearized by AvrII was mixed with 80 µL of competent cells, and then it was transformed into Pichia pastoris (SMD1168) cells (purchased Invitrogen GmbH, Karlsruhe, Germany) by electroporation conducted on Eppendorf Eporator (Eppendorf, Hamburg, Germany) according to the manufacturers instruction Pichia pastoris transformants via homologous recombination at the GAP promoter region between the transforming DNA and regions of homology within the Pichia genome. Positive clones were initially selected on YPDS plates containing 100 μg/mL Zeocin™ plates.
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Cloning and Transforming Bacillus subtilis

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Amplified fragments were purified and cloned into pTZ57R/T vector using the InsTAclone PCR Cloning Kit (Thermo, USA). Purified amplified fragments were then transformed to E. coli XL1blue competent cells. Plasmids were purified from insert positive clones and then digested with XbaI/AatII after colony PCR screening from white colonies. The released inserts were re-cloned into expression vector pHT43 to construct pHT43-TPD (Figure 2). The fidelity of pHT43-TPD construction was confirmed by restriction analysis and sequencing. Extracted pHT43-TPD was used for transformation of B. subtilis (WB600) by Eppendorf Eporator (Eppendorf, USA) according to the B. subtilis electro-transformation method 10 . In order to ensure the accuracy of transformation, B. subtilis colonies were cultured on LB agar medium containing 5 μg/ml chloramphenicol as a selective marker and were verified by colony PCR. Plasmid DNA preparation, restriction enzyme digestion and agarose gel electrophoresis processes were performed in accordance with the published methods 11 .
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5

Molecular Manipulations of DNA

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Molecular manipulations of DNA were conducted according to standard molecular procedures. All primers used in this study are described in Table S2. Purification of PCR products and DNA fragments from agarose gels was performed by using FastPure Gel DNA Extraction Mini Kit (Vazyme Biotech, Nanjing, China). Plasmid DNA was purified with the TIANprep Mini Plasmids Kit (Tiangen Biotech, Beijing, China). According to the Inoue protocol, the competent cells of E. coli were prepared (Inoue, Nojima & Okayama, 1990 (link)). The plasmid DNA was transferred by heat shock into E. coli competent cells (Sambrook, Fritsch & Maniatis, 1989 ). The competent cells of A. tumefaciens were prepared as previously described (Cangelosi et al., 1991 (link)). All plasmids were electrotransformed into A. tumefaciens strains using an Eppendorf Eporator (Eppendorf AG, Hamburg, Germany).
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6

Overexpression of RsCLER2, 19, and 41 in Radish

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PCR-fragments amplified on R. sativus DNA with primers for full-length CDS of RsCLER2, 19 and 41 were cloned to pENTR/D-TOPO vector (Invitrogen, USA) and after that transferred to pB7WG2D vector (Ghent, Belgium) for overexpression using the LR Clonase enzyme (Invitrogen, USA). This vector contains GFP gene under constitutive promoter for transgenic organs selection.
Constructs were introduced into Agrobacterium rhizogenes MSU440 strain via electroporation using Eppendorf Eporator® (Eppendorf, Germany).
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7

Electrocompetent KM-1 Cell Preparation

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Electrocompetent KM-1 cells were prepared using a previously reported method [10 (link)]. Briefly, KM-1 was cultured in HGM at 30 °C under agitation at 250 rpm and collected at an OD600 of 0.5, by centrifugation for 10 min at 5000×g at 25 °C. After washing the cells twice with 300 mM sucrose solution, the cells were resuspended in 300 mM sucrose and immediately frozen in liquid nitrogen. Transformation of KM-1 was conducted in 0.2 cm gap parallel electrode cuvettes using an Eppendorf Eporator (Eppendorf, Hamburg, Germany) at 2100 V. Cells were resuspended in 1 mL of HGM and incubated for 3–4.5 h at 30 °C with agitation at 250 rpm. Transformed clones were selected on HGM plates containing 1.5% agar, 2.5 µg/mL chloramphenicol or 5 µg/mL tetracycline as final concentrations. For the secondary transformation, HGM plates were prepared with 2.5 µg/mL chloramphenicol and 3 µg/mL tetracycline as final concentrations.
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8

Cloning and Overexpression of RsCLE41-1

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PCR fragments amplified on R. sativus DNA with primers for the full-length CDS of RsCLE41-1 were cloned to pDONR221 vector (Ghent, Belgium) using the BP Clonase enzyme (Invitrogen, Waltham, MA, USA) and after that transferred to pB7WG2D vector (Ghent, Belgium) for overexpression using the LR Clonase enzyme (Invitrogen, Waltham, MA, USA). Constructs were introduced into Agrobacterium rhizogenes Arqua strain via electroporation using Eppendorf Eporator® (Eppendorf, Hamburg, Germany).
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9

Chromosomal DNA and Plasmid Isolation and Transformation

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Chromsomal DNA and plasmids were isolated from L. enzymogenes OH11 or E. coli according to the standard techniques.28 DNA sequencing was performed by Eurofins MWG Operon LLC. Database searching and sequence analysis were performed using the online program PSI-BLAST.29 (link) Plasmids were transformed into L. enzymogenes OH11 by electroporation using Eppendorf Eporator (Eppendorf North America, Inc.). After electroporation, the cells were allowed to incubate in 700 μL LB medium at 30 °C for 3 h, then spread all cells on LB plates (containing gentamicin) at 30 °C for 72 h.
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10

Molecular cloning and transformation

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DNA manipulations followed the standard molecular protocols [35 ]. Plasmid isolation was performed with the TIANprep Mini Plasmids Kit (TIANGEN BIOTECH Corporation, Beijing, China). PCR products obtained by Veriti 96-well cycler (Thermo Fisher Scientific Inc., Waltham, MA USA) and DNA fragments were purified from agarose gels by using the TaKaRa MiniBEST Agarose Gel DNA Extraction Kit (TaKaRa Corporation, Dalian, China). Plasmids were transferred into E. coli competent cells by heat-shock [35 ] and into A. fabrum by the Eppendorf electroporation instrument Eporator® (Eppendorf AG, Hamburg, Germany) [36 (link)].
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