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13 protocols using lichenase

1

Quantification of Starch and MLG Glucose

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Starch glucose was quantified in triplicate by HPAEC (CarboPac PA1 column 4 × 250 mm, Thermo-Fisher, Waltham, MA, USA) after amylolysis according to AOAC procedures (starch, AOAC method 996.11) with modifications described in [5 (link)].
MLG glucose was quantified in triplicate by HPAEC (CarboPac PA1 column 4 × 250 mm, Thermo-Fisher) after degradation of 5 mg AIR sample with Lichenase (Megazyme, Wicklow, Ireland) diluted at 20 U final as follows: 10 U Lichenase for 8 h at 40 °C and then additional 10 U Lichenase overnight at 40 °C to generate MLG derived oligosaccharides. Maltopentaose was used as an internal standard. The major DP3 and DP4 oligosaccharides were taken into account to estimate the quantity of MLG.
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2

Isolation and Characterization of β-Glucan Fractions

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In vitro digested β-glucan fraction (200 mg) was suspended in 20 mL Milli-Q water and lichenase (50 U, Megazyme), α-amylase (30 U, E-BLAAM, Megazyme) and proteinase K (60 U, Roche Diagnostics) were added. The sample was incubated for 24 h at room temperature using a tube rotator at 40 rpm. Then, it was placed in a boiling water bath for 15 min and centrifuged (4000 g, 20 min). The supernatant was transferred to a dialysis tubing (MWCO, 12000-14,000 Da) and dialyzed against deionized water for 48 h at 6 • C. This procedure was repeated several times, using the same dosages of enzymes. An aliquot (0.5 mL) of each retentate was analyzed by HPSEC to monitor the effectiveness of the treatment. The final retentate was freeze-dried and named as WEP.
To isolate HM-subfraction, the final retentate solution was saturated with ammonium sulfate (100% saturation level), as previously described (Cyran et al., 2002) . The pellet, obtained after centrifugation, was dissolved in Milli-Q water at 80 • C, cooled down and dialyzed against deionized water for 72 h at room temperature. The freeze-dried material was named as HM-AX. To obtain sufficient amount of material, the isolation procedure was repeated several times.
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3

Quantitative Analysis of Barley β-Glucan

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The DP3/DP4 analysis was based on lichenase digestion of BG precipitated from wort prepared as described above. BG powder (2.5 mg) was wetted with 10 µl 50% EtOH, and the slurry was suspended in 500 µl of 10 mM NaH 2 PO 4 /Na 2 HPO 4 buffer. The solution was heated at 96°C for 2 h, cooled to 60°C and 10 U of lichenase (Megazyme, Ireland) were added. The samples were incubated with mixing overnight at 60°C. Subsequently, the enzyme was inactivated at 100°C for 30 min and the samples were lyophilized. The BG fragments were labeled with the fluorophore Aminobenzamide (2-AB) by a reductive amination procedure (Walther et al., 2015) . To the lyophilized samples was added 150 µl of 1 M 2-AB in DMSO/AcOH (7:3) and 150 µl of 1 M NaBH3CN in DMSO/AcOH (7:3). Samples were mixed and incubated for 4 h at 60ºC, cooled to room temperature, centrifuged and diluted 400-fold with a mixture of Milli Q water and acetonitrile (22:78). The samples were directly analyzed by hydrophilic interaction liquid chromatography (HILIC) using maltotriose and maltotetraose as standards. 5 µl aliquots were injected onto a Waters Acquity UPLC System equipped with a fluorescence detector (excitation wavelength of 350 nm and
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4

Characterization of Glycoside Hydrolase Enzymes

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Endoxylanase (endo-1,4-β-d-xylanase; EC 3.2.1.8, CAZy GH family 11; http://www.cazy.org/) from Trichoderma viride was purchased from Megazyme (xylanase M1, Bray, Ireland). The specific activity of the enzyme preparation determined by the supplier on water-extractable arabinoxylans (WE-AX) (40 °C, pH 4.5) was 2300U ml–1 and the optimum pH was 4.5–5. Lichenase (endo-1,3(4)- β-d-glucanase; EC 3.2.1.73, CAZy GH family 16) from Bacillus subtilis was obtained from Megazyme. The specific activity of the enzyme preparation determined by the supplier on barley β-glucan (40 °C, pH 6.5) was 1000U ml–1 and the optimum pH was 6.5–7.0. Acetylxylan esterase (EC 3.1.1.72, CAZy CE family 6) from Orpinomyces sp. was purchased from Megazyme. The specific activity of the enzyme preparation determined by the supplier on p-nitrophenyl acetate (40 °C, pH 6.7) was 1000U ml–1 and the optimum pH was 7.0. The enzymes were desalted just before use with a PD-10 column (GE Healthcare) using distilled water.
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5

Quantifying Cellulosic Oligomers in β-Glucans

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The ratio of cellulosic oligomers in the chain of β-glucans was determined by lichenase and β-glucosidase treatment (1 ). β-Glucan powders were dissolved in buffer solution (25 mg/mL, 20 mM sodium phosphate buffer, pH 6.5) and incubated with lichenase (10 U/mL, Megazyme International Ireland Ltd.) for 1 h at 50°C. Then 5.0 mL of 200 mM sodium acetate buffer (pH 4.0) was added to terminate the enzyme reaction and tubes were centrifuged at 13,000 rpm for 15 min. The supernatants (1.0 mL) were incubated with exo-(1→3)-glucanse (1 U/mL, Sigma-Aldrich Co.) for 1 h at 50°C. The digests were heated to 95°C (15 min) to inactivate the enzyme and the supernatants were reacted with GOPOD determining reagent and measured at 510 nm for analysis of total glucose contents from the β-glucans. In another experimental, 1.0 mL of the supernatant was transferred to three separate test tubes. Then 0.1 mL of 50 mM sodium acetate buffer (pH 4.0) was added to the first tube (reaction blank). In the other two tubes, β-glucosidase (5 U/mL) was added and tubes were incubated at 50°C for 20 min. After incubation, 3.0 mL of GOPOD determining reagent was added to all tubes and incubated at 50°C for 20 min. A spectrophotometer was used to measure absorbance at 510 nm for analysis of glucose contents from β-(1→3)-glucans.
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6

Glycosidic Bond Composition of CCK-Oligosaccharides

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CCK-oligosaccharides were treated with various carbohydrate-hydrolyzing enzymes to determine the composition of the glycosidic bonds. CCK-oligosaccharides (1%, w/v) were treated with the following enzymes and concentrations: 10 mU of α-amylase, 100 mU of α-glucosidase, 520 mU of amyloglucosidase (Sigma-Aldrich), 1.4 U of pullulanase M1, 10 mU of lichenase (Megazyme, Chicago, IL, USA), 100 mU of β-glucosidase, and 10 mU of β-1,3-d-glucanase (Sigma-Aldrich). The CCK-oligosaccharides were reacted with enzymes at 37 °C for 1 h and the products were determined by TLC.
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7

Hemicellulose Extraction and Analysis from Grains

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The half side of imbibed or germinated grains (on the germ side, without germ) were used for overnight alcali extraction of hemicelluloses with 1 M NaOH. Supernatants were then neutralized with acetic acid, digested with 2 U amyloglucosidase (Megazyme) 2 h at 40 °C. The reaction was stopped at 100 °C for 10 min, the samples were centrifuged and digested 30 min at 40 °C with 1.5 U endo-Xylanase NP (Megazyme) centrifuged and filtered on a PVDF 0. With glass prefilter 45 µm membrane (Millipore, Burlington, MA, USA) before to be injected (50 µL) on a Shodex OH-Pak-804 HQ column equipped with a Shodex OH-Pak SB-G pre-column. Elution was carried out at 0.7 mL/min with 50 mM sodium nitrate at 20 °C. A second digestion of the samples were performed with 10 U Lichenase (Megazyme) before being re-injected on the column.
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8

Oligosaccharide Profiling of Plant Cell Walls

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The oligosaccharide profiles were obtained by incubation of 1% (w/v) of each extract or intact cell wall sample with selected endoglycanases in 50mM sodium acetate buffer, pH 5.0 at 30 °C for 24h. The substrates were incubated with xylanase (Sigma®, cat. X2753), lichenase (Megazyme®, cat. E-LICH), or GH12 xyloglucan endoglucanase (XEG) according De Souza et al. (2013) in order to access the fine structures of arabinoxylan, β-glucan, and xyloglucan, respectively. The oligosaccharides produced were analysed by HPAEC-PAD on a CarboPac PA-100 (ICS-3000 system, Dionex®) using 88mM NaOH and 200mM sodium acetate as eluent (0.9ml min–1) for 45min.
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9

Enzymatic Characterization of Xyloglucan

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Microbial XEH [63 (link)] was a generous gift from Novo Nordisk A/S, Bagsværd, Denmark. Lichenase (from Bacillus subtilis; 330 U mg−1), β-d-glucosidase (from Aspergillus niger; 52 U mg–1), cellobiohydrolase [CBH1, from Trichoderma longibrachiatum; 0.07 U mg–1; possessing <1% endo-β-(1→3)-d-glucanase activity], cellulase (EGII, from T. longibrachiatum), cellulase (from A. niger), barley MLG (medium viscosity) and Iceland moss MLG (lichenan) were from Megazyme, Inc., Bray, Ireland. Merck (0.2 mm) silica-gel 60 TLC plates were from VWR (Lutterworth, U.K.). Tamarind xyloglucan was a generous gift from Dr K. Yamatoya (Dainippon Pharmaceutical Co., Osaka, Japan). Equisetum arvense MLG was purified as described previously [64 (link)]. Reductively tritiated XGOs ([3H]XGO-ols) were synthesised in-house, essentially as described by Hetherington and Fry [65 (link)], with XXXG from Megazyme and XXXGXXXG obtained by partial XEH digestion of tamarind xyloglucan. The specific radioactivities of [3H]XXXGol and [3H]XXXGXXXGol were ∼100 and 1.6 MBq mol–1, respectively. Dialysis tubing (12–14-kDa cut-off) was from Medicell International, Ltd, London, U.K. Miracloth was from Calbiochem (http://www.emdbiosciences.com). Solvents were from Fisher Scientific, U.K. Other chemicals came from Sigma–Aldrich, U.K.
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10

Nata de Coco Enzymatic Hydrolysis

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Nata de coco (Morinaga nata de coco plain) was purchased from Morinaga Milk Industry Co., Ltd., Tokyo, Japan. BGL (P-BGH, high viscosity, Megazyme), lichenase (endo-1,3:1,4-β-D-glucanase: E-LICHN, Megazyme; 273 U/mg protein), and xylanase (endo-1,4-β-xylanase: E-XYNACJ, Megazyme; 38 U/mg protein) were purchased from Biocon (Japan) Ltd., Nagoya, Japan. Barley grain was purchased from Hakubaku Ltd., Chuo, Japan. Potato powders were purchased from Syunsai-Kobo KOKORO, Yokkaichi, Japan. Potato starch and turmeric powders were purchased at a domestic supermarket. Other chemicals were of the reagent grade.
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