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14 protocols using luria bertani medium

1

Purification and Analysis of a Recombinant Protein

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Sodium pyruvate, tris base, imidazole, duroquinone, diethyl ether, sodium dithionite, n-dodecyl β-D maltoside (DDM), octyl-β-D glucopyranoside (OG), isopropyl β-D-1-thiogalactopyranoside (IPTG), phenylmethylsulfonyl fluoride (PMSF), n-PG, SHAM, coomassie brilliant blue R-250, and TRIzol reagent were purchased from Sigma Aldrich, St Louis, Mo, USA. The protease inhibitor ‘cocktail' was purchased from Roche. CM5 sensor chips, PBS, surfactant P20, glycine-HCl pH 2.5, sodium acetate pH 5, and amine coupling kit were purchased from GE Healthcare Bio-Sciences Corp., USA. Verso cDNA synthesis kit, 50 bp DNA ladder, bicinchoninic acid (BCA) protein estimation kit, protein molecular mass standard, and 3 kDa cut-off snakeskin dialysis membrane were purchased from Thermo Fisher Scientific, USA. Talon cobalt metal affinity resin was purchased from Clontech, Takara Bio, Japan. His-Tag mouse monoclonal antibody (HRP conjugated) was purchased from Cell Signaling Technologies. ECL Western blotting reagents were purchased from GE Healthcare Bio-Sciences Corp., USA. Polymerase chain reaction (PCR) components and restriction endonucleases were purchased from New England Biolabs. Luria-Bertani medium, agar-agar, and kanamycin were purchased from Hi-Media, Mumbai, India. Ferrous sulfate and glycerol were purchased from SRL. All the compounds used were of the biochemical grade.
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2

Overexpression and Purification of MalZ Enzyme

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Plasmid PCS19 containing the malZ gene was a generous gift from Prof. Winfried Boos, (University of Konstanz, Germany). The plasmid contains malZ gene under control of a strong IPTG inducible T5 promoter and it contains ampicillin resistance for selection and imparts a C-terminal 6x His tag to the protein. E.coli BL-21 cells were transformed with the plasmid and grown at 37°C in Luria Bertani medium (HiMedia, Mumbai, India) containing 80µg/ml ampicillin (HiMedia, Mumbai, India). Induction for protein overexpression was done with 1mM IPTG (SRL, Mumbai, India) when O.D. at 600nm reached to a value of 0.6. The culture was kept for 8 hours post induction and protein expression was confirmed on a SDS PAGE gel. MalZ purification was carried out by Nickel affinity chromatography on a 5ml His-Trap column and Akta Purifier (GE Healthcare, Little Chalfont, U.K.) was used for the purification process. 20mM sodium phosphate buffer (Merck, Darmstadt, Germany) containing 500mM NaCl (Merck, Darmstadt, Germany) were used for lysis and column equilibration. MalZ was eluted near 200mM imidazole (Sigma Aldrich, Missouri, U.S.A.) through a linear gradient of imidazole from 20mM to 500mM.
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3

Cultivation and Characterization of B. methylotrophicus

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Luria-Bertani medium (HiMedia®, Mumbai, India) supplemented with glucose (LBG broth) was used for cultivation of B. methylotrophicus BM47. LBG agar medium (Laboratorios Conda S.A., Madrid, Spain) was used for cultivation of the test bacteria and yeasts, as well as for implementation of agar well diffusion assay. Malt agar (HiMedia®) was used for cultivation/maintenance of the test fungi. The culture media were prepared according to the typical formula (8 , 9 ).
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4

Microbial Culture Preparation Protocols

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Difco sporulation medium (DSM) and Luria-Bertani medium (LB) were purchased from Himedia, India. Methanol 99.5%, phosphate-buffered saline (pH 7.4), and chloroform 99.5% were purchased from Merck, Germany. F-primer f27, R-primer r1492, DNA master mix, and PCR water were purchased from Phusa biochem LTD. Company.
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5

Calcium Hydroxide and Phosphoric Acid Protocol

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Calcium hydroxide [Ca(OH)2], phosphoric acid (H3PO4), and Luria–Bertani (LB) medium were purchased from Himedia Co. (Mumbai, India), and the reagents used in this study (99.9% purity) were purchased from Sigma Aldrich (St. Louis, MO, USA).
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6

Probiotic E. coli Nissle 1917 in NASH Model

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The probiotic Escherichia coli Nissle 1917 strain (Mutaflor®, Ardeypharm GmbH, Herdecke, Germany) was grown on Luria Bertani (LB) medium (HiMedia, Mumbai, India). The number of viable bacterial cells in one mL was determined using the plate counting method and calculated as Colony-forming units per mL (CFU/ mL) = no. of colonies × dilution factor [35 ]. A dose of 1 × 108 CFU/mL was administered daily by gavage to treated animals [36 (link)–39 (link)]. Cholesterol and bile salts were purchased from Ralin BV (Lijinbaan, Netherlands) (Catalogue number 81254). LB broth was purchased from HiMedia (Mumbai, India, Catalogue No. M1245).
NASH was induced by feeding rats HFHSD consisting of 68.75% standard chow, 20% lard, 10% sucrose, 1% cholesterol, and 0.25% bile salts [40 (link)]. Components were mixed using water, made into pellets and left to dry. The diet was prepared every five days and stored in the refrigerator.
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7

Expression and Characterization of Cellulase from E. coli

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E. coli DH5α and E. coli BL21 (DE3) were used for plasmid replication and expression in host cells, respectively. Both these strains were procured from Invitrogen (CA, USA). The Luria–Bertani (LB) medium purchased from Hi-Media (Mumbai, India) was used for maintaining the strains. The pET-28a vector (Invitrogen, USA) was used as a cloning and expression vector. Restriction enzymes and the DNA ligation kit were procured from New England Biolabs (MA, USA). For determining the enzyme activity, all the substrates were bought from Sigma (USA). Cellic CTec2 was supplied by Novozymes (Bagsværd, Denmark). All other reagents used were of analytical grade and purchased from Sigma (St. Louis, USA), Merck (Darmstadt, Germany), Fisher Scientific (Massachusetts, USA), CDH (India) and SRL (India) and Hi-Media (Mumbai, India). Sugarcane bagasse used in the study was collected from a local juice shop.
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8

Characterization of Pseudomonas Metabolites

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All the chemicals and reagents used throughout the study were of analytical grade. Luria Bertani (LB) medium, Pseudomonas broth, TTC (2,3,5-TTC - Triphenyltetrazolium chloride), crystal violet dye, and glutaraldehyde solution was procured from Hi-media, Mumbai. Azocasein and Elastin Congo red was procured from Sigma-Aldrich Pvt Ltd. All the solvents Methanol, Chloroform, n-hexane, Ethyl acetate, Ethanol, and HCL used in the study were of 99.9% purity obtained from Thermo Fisher Scientific India Pvt Ltd., Mumbai, India.
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9

Cultivation of S. equisimilis and E. coli

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S. equisimilis was cultivated in Trypton soya broth (TSB) medium (HiMedia, Mumbai, India). E. coli Top10F’ strain was cultivated in Luria-Bertani (LB) medium (HiMedia, Mumbai, India) with an appropriate concentration of antibiotic (Apramycin) 50 mg/L. The two clones obtained have similar genome editing, and one particular clone is taken into the study.
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10

Synthesis and Characterization of Zinc Phthalocyanine

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Hydrochloric acid (HCl) (37%), hydrogen peroxide (H2O2) (50%), sodium hydroxide (NaOH), sodium chloride (NaCl), potassium permanganate (KMnO4), sulfuric acid (H2SO4) (98%), 125 mm filter paper (grade-1), acetone (CH3COCH3) and ortho-phosphoric acid (H3PO4) (84%) were obtained from Merck (India). Phosphorous pentoxide (P2O5), sodium dodecyl sulfate (SDS) and hydrazine monohydrate (N2H4·H2O) (98%) were obtained from Sigma-Aldrich (India). Zinc phthalocyanine (ZnPc) (MW = 577.91 g mol−1; dye content 97%) was purchased from Sigma-Aldrich (Germany). Graphite flakes (99.99%) were obtained from Alfa Aesar (India). Indium tin oxide (ITO)-coated glass substrates were procured from Macwin (India). The ITO-coated glass substrates were cut into 1 × 1 cm2 pieces and served as the substrate for the ZnPc deposits. Luria–Bertani (LB) medium was purchased from Himedia (India). Parafilm wax paper was obtained from Tarsons (India). The aforementioned chemicals were of analytical grade and were used without further purification. Milli-Q grade water was used in the experiments.
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