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Isopropyl β d 1 thiogalactopyranoside (iptg)

Manufactured by Roche
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IPTG (Isopropyl β-D-1-thiogalactopyranoside) is a synthetic chemical compound used in molecular biology and microbiology as an inducer for the lac operon in bacterial cells. It functions by binding to the lac repressor protein, allowing the expression of genes under the control of the lac promoter.

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8 protocols using isopropyl β d 1 thiogalactopyranoside (iptg)

1

Bacteriophage Protein Expression and Purification

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Bacteriophage proteins were expressed in E. coli BL21(DE3)plysS strain (Promega). Bacterial clones were propagated in LB broth (37 °C with shaking) with kanamycin and chloramphenicol to reach OD600 = 0.8. Protein expression was performed using 0.05 mmol l−1 IPTG (Roche) as an inductor and followed by overnight incubation at 9 °C. Cells were pelleted and suspended in 50 mmol l−1 Tris/HCl pH = 8.0 lysis buffer containing 0.2 mol l−1 NaCl supplemented with protease inhibitor cocktail tablets (Roche). Cells were sonicated 8 times for 30 seconds with 1 minute breaks. After debris removal via centrifugation (14000 × g for 50 minutes) supernatant was mixed with Ni2+-agarose beads and incubated at 37 °C for 1 hour on a rotary shaker. After batch chromatography, the beads were washed using lysis buffer to remove unbound proteins. Bounded proteins were eluted using lysis buffer containing 250 mmol l−1 imidazole. Imidazole was removed from the protein’s solution via dialysis on centrifugal filters containing membrane (Millipore) with a cutoff of 3 kDa. The concentration of protein was determined using the BCA method described by Smith et al.42 (link) and eluted fractions were analyzed by SDS-PAGE using 12.5% gels according to the method of Laemmli et al.43 .
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2

Purification of LOTUS and Vasa Proteins

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cDNA fragments of LOTUS domains were obtained by PCR amplification or gene synthesis (GenScript) and subcloned into pET28a (His-tag) vector (Supplementary Table S2). Drosophila Vasa (200–661aa) cDNA was obtained by PCR amplification and were subcloned into pGEX-4t-1 (GST-tag) vector. Plasmids were transformed into Escherichia coli (BL21 or Rosetta) and recombinant proteins were induced with 0.2 mM IPTG (Roche) at 18°C overnight. His-tagged proteins were affinity purified with Ni-NTA Agarose Resin (Thermo Scientific). GST-tagged proteins were affinity purified using Glutathione Agarose Resin (Thermo Scientific). Proteins were further purified by gel filtration chromatography with ÄKTApurifier UPC 10 (GE Healthcare). The running buffer for gel filtration chromatography is 10 mM Tris–HCl (pH 7.4) and 100 mM KCl.
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3

Expression and Purification of Monomeric Nanobodies

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Monomeric nanobodies were expressed in HB2151 E. coli cells (GE Healthcare, Chalfont St Giles, UK). Protein expression was induced with IPTG (Roche, Rotkreuz, Switzerland) when bacterial cultures had reached an OD600 of 0.5 and cells were harvested after further cultivation for 3–4 h at 37°C. Periplasmic lysates were generated by osmotic shock and removal of bacterial debris by high speed centrifugation. The coding region of selected nanobodies was subcloned using NcoI and NotI into the pCSE2.5 vector27 (kindly provided by Thomas Schirrmann, Braunschweig) so as to fuse C-terminal tags, including His6x-c-myc, avi-His6x, or the CH2 and CH3 domains of mouse IgG2c. Monomeric nanobodies and nanobody-Fc fusion proteins were expressed in transiently transfected HEK-6E cells. Six days post transfection, supernatants were harvested and cleared by centrifugation. Nanobodies were purified by immobilized metal affinity chromatography using Ni-NTA agarose (Sigma, St Louis, MO), nanobody-Fc fusion proteins were purified by affinity chromatography on protein G-sepharose (GE-Healthcare, Chalfont St Giles, UK).
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4

Purification of Metabolic Enzymes

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IPTG, malate dehydrogenase, and lactate dehydrogenase
were obtained from Roche. HisPur cobalt IMAC resin was obtained from
Thermo Scientific. All other materials were purchased from Sigma-Aldrich
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5

Purification and Fluorescent Labeling of Atg18 Proteins

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Atg18WT and mutant DNA were amplified from the corresponding pRS316 plasmids and cloned into a pEXP5‐NT/TOPO vector (Invitrogen). Plasmids were transformed into E. coli BL21. A 50 ml preculture overnight was used to inoculate 2 l of LB media (37°C). Cells were grown to an OD600 of 0.8–0.9. Cultures were then cooled to 16°C on ice, and IPTG (Roche) was added to a final concentration of 0.2 mM. Cells were shaken overnight (200 rpm, 16°C), pelleted, washed once in ice‐cold lysis buffer (500 mM NaCl, 50 mM Tris pH 7.4, 10 mM KPi), and resuspended in one pellet volume of lysis buffer with complete EDTA‐free protease inhibitor cocktail (Roche) before purification. Purification was performed as previously described (Gopaldass et al, 2017 (link)). To conjugate the Dylight550 fluorophore (Thermo Fisher), proteins were incubated at room temperature with an equimolar amount of the dye in PBS containing 300 mM of NaCl at room temperature protected from light. To remove the excess of fluorophore proteins were dialyzed in PBS with 300 mM NaCl overnight at 4°C with a 12 kDa cutoff membrane (ZelluTrans, ROTH).
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6

Purification of Fluorescent Proteins from E.coli

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Bacterial cells from the E.coli strain BL21 were grown to an OD600 of 0.1 and induced using 1 mM isopropyl β-d-1-thiogalactopyranoside (IPTG, catalog no. 11411446001, Roche) for 8 hours. FPs were purified using the Ni-NTA Fast Start Kit (catalog no. 30600, Qiagen) and dialyzed in 5 or 50 mM tris(hydroxymethyl)aminomethane (tris) buffer at pH 7.5. Tris buffer was prepared by mixing Trizma base (catalog no. T6066, Sigma-Aldrich) with Trizma hydrochloride (catalog no. T3253, Sigma-Aldrich). Protein concentrations were determined using the Pierce BCA Protein Assay Kit (catalog no. 23225, Thermo Fisher Scientific) according to the manufacturer’s instructions.
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7

Optimized Bacterial Protein Expression

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Plasmids were freshly transformed into BL21 Star (DE3) E. coli (Thermo Fisher Scientific) or ClearColi BL21 (DE3) (Lucigen) prior to each expression batch. Transformed bacteria were directly inoculated into 2 L plastic baffled flasks (Thomson Instrument Company) containing 200 mL optimised growth medium with 15 g/L tryptone (Thermo Fisher Scientific), 30 g/L yeast extract (Thermo Fisher Scientific), 8 mL/L glycerol (Promega), 10 g/L NaCl and shaken at 200 RPM overnight at 37 °C. High-density cultures were then reduced to room temperature and induced with 0.4 mM IPTG (Roche) for 6 h. Bacteria were harvested by centrifugation at 4000 g. Bacterial pellets were stored at –20 °C if processing was not immediate. The full sequences of each protein can be found in Supplementary Fig. 15.
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8

Optimized Recombinant Protein Expression

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Plasmids were freshly transformed into BL21 Star (DE3) E. coli (Thermo Fisher Scientific) prior to each expression batch. Transformed bacteria were directly inoculated into 2 L plastic baffled flasks (Thomson Instrument Company) containing 200 mL optimised growth medium with 15 g/L tryptone (Thermo Fisher Scientific), 30 g/L yeast extract (Thermo Fisher Scientific), 8 mL/L glycerol (Promega) and 10 g/L NaCl and shaken at 200 RPM overnight at 37˚C. High density cultures were then reduced to room temperature and induced with 0.4 mM IPTG (Roche) for six hours. Bacteria were harvested by centrifugation at 4,000 g. Bacterial pellets were stored at -20˚C if processing was not immediate. The full sequences of each protein can be found in Supplementary Fig. 8.
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