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61 protocols using li 250a light meter

1

Quantification of Bacteriochlorophyll a in Photosynthetic Cells

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Culture growth was monitored by optical density at 660 nm (OD660) using a Genesys 20 visible spectrophotometer (Thermo-Fisher). Room temperature absorbance spectra of whole cells resuspended in 60% (wt/vol) sucrose in PM were recorded using a Synergy MX spectrofluorimeter (BioTek). Light intensity was monitored using a LI-250A light meter equipped with a LI-190R quantum sensor (LI-COR).
Bacteriochlorophyll a (BChl-a) was extracted and quantified as previously described (28 (link), 60 (link)). Briefly, cells were centrifuged and resuspended in 600 µl phosphate-buffered saline (PBS), at which point sample OD660 was recorded. Cells were then pelleted again, resuspended in 20 µl H2O, mixed with 1 ml 7:2 (vol/vol) acetone-methanol solvent, and incubated at room temperature in darkness for 90 min. Cell debris was removed by centrifugation (at maximum speed for 5 min), and extracted BChl-a was detected by recording supernatant absorbance at 770 nm (A770). BChl-a content is reported normalized to sample optical density (A770/OD660).
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2

Photosynthetic Anaerobic Rba. sphaeroides Cultivation

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Anaerobic cultures of Rba. sphaeroides grown under photosynthetic conditions were exposed to 15 W or 20 W MEGAMAN® CFL bulbs to achieve the desired light intensity. Light intensity was measured in μmol photons s−1 m2 using a LI‐250A light meter equipped with a LI‐190 Quantum sensor (LI‐COR Biosciences). One millilitre of semi‐aerobic culture was used to inoculate a full 30 ml universal of M22+ medium. A small magnetic stir bar was placed in the bottom of the bottle, and the culture was incubated in the desired light intensity, overnight with gentle agitation. This culture was used to inoculate either a 500 ml medical flat or a 1.2 l Roux culture bottle filled with M22+ medium and capped with a rubber bung. These cultures also contained a magnetic stir bar to allow for gentle agitation.
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3

Cultivation and Isolation of Nannochloropsis

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To isolate Nannochloropsis strains, F/2 agar plates were incubated at 25 ℃ under 50 µmol photon m− 2 s− 1 light intensity. For strain maintenance and all the other experiments, the cells were cultivated in a 50 mL T-flask (SPL, Pocheon, Republic of Korea) with a working volume of 10 mL at 25 ℃ with agitation of 120 rpm. In the experiments for the comparison of light intensity, the intensity of normal light (NL) and high light (HL) were 50 and 150 µmol photon m− 2 s− 1, respectively, and each intensity condition was confirmed using a LI-250A light meter (LI-COR, NE, USA). Large-scale cultivations were carried out in a 10 L cylindrical bioreactor (custom-made) with 5 L working volume. Air was supplied into the culture solution by using a strong air pump with the flow rate of 25 L min− 1 for the aeration and agitation. At the beginning of the cultivation, a flat light source of 300 µmol photon m− 2 s− 1 was used in only one side of the bioreactor. 6 days after inoculation, another light source of 100 µmol photon m− 2 s− 1 was introduced in the opposite side to compensate for shading effect.
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4

Glucose-tolerant Synechocystis sp. cultivation

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A glucose-tolerant strain of Synechocystis sp. PCC 6803 (here after referred to as GT) was obtained from Prof. Masahiko Ikeuchi of the University of Tokyo. Synechocystis sp. PCC 6803 was routinely cultured in BG11 medium, which contained 1.5 g L−1 NaNO3, 0.04 g L−1 K2HPO4, 0.075 g L−1 MgSO4 · 7H2O, 36 mg L−1 CaCl2 · 2H2O, 6 mg L−1 citric acid, 6 mg L−1 ferric ammonium citrate, 1 mg L−1 EDTA (disodium salt), 20 mg L−1 NaCO3, 2.86 mg L−1 H3BO3, 1.81 mg L−1 MnCl2 · 4H2O, 0.222 mg L−1 ZnSO4 · 7H2O, 0.39 mg L−1 NaMoO4 · 2H2O, 0.079 mg L−1 CuSO4 · 5H2O, and 49.4 μg L−1 Co(NO3)2 · 6H2O (Rippka [1988 (link)]), under continuous illumination at 50 or 200 μmol photons m−2 s−1 using white fluorescence bulbs (Life Look HGX and NHG; NEC, Tokyo, Japan) at 28 ± 2°C under atmospheric air conditions. For CO2 enriched cultivation, cells were cultivated at 50 μmol photons m−2 s−1 and 1 or 2% CO2 was supplied with a flow rate at 80 mL min−1. Light intensity was measured in the middle of the culture using an LI-250A light meter (LI-COR, Lincoln, NE) equipped with an LI-190SA quantum sensor (LI-COR). Escherichia coli strain DH5α was used to propagate pBluescriptSK- and the apcE inactivation plasmids.
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5

Arabidopsis Growth Conditions Protocol

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Arabidopsis thaliana plants (Columbia‐0) were grown under short‐day conditions (10 hr light/14 hr dark) at 120 μmol photons m−2 s−1 at 22°C and 70% humidity for 3 months. Photon flux densities were measured using a LI–250A light meter (LI–COR, USA).
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6

Marchantia polymorpha Photoreceptor Characterization

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Thalli of M. polymorpha were asexually cultured on half-strength B5 medium under 75 μmol photons m-2 s-1 continuous white light (FL40SW, NEC Corporation). Light intensity (photon flux density) was measured by using a LI-250A light meter (LI-COR Biosciences). The MpphotKO line was generated and kindly provided by Dr. Takayuki Kohchi (Kyoto University) [17 (link)]. In this study, transformation of M. polymorpha (the Tak-1 strain as wild-type, and the MpphotKO line) was performed via the G-AgarTrap method [20 (link),21 ], which is an Agrobacterium-mediated transformation method used for gemmalings. To generate the transformants, we used the binary vector pMpGWB106-MpPHOT [19 (link)] for the Mpphot-Citrine overexpression lines (35S::Mpphot-Citrine/WT), pMpGWB102-Citrine [22 (link)] for the Citrine expression line (35S::Citrine/WT), and pMpGWB306-MpPHOT for the complementation line of Mpphot (35S::Mpphot-Citrine/MpphotKO). G2 gemmalings were used throughout.
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7

Marchantia polymorpha Transgenic Lines

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Thalli of a WT strain (female BC3-38 strain) and four transgenic lines (TG#060-1, TG#066-5, TG#164-3, and TG#253-6) of Marchantia polymorpha were asexually cultured on half-strength B5 (1/2 B5) agar medium under 75 µmol photons m−2 s−1 continuous white light (FL40SW; NEC Corporation, Tokyo, Japan) in a culture room at 22 °C. The white light intensity was measured using an LI-250A light meter (LI-COR Biosciences, Lincoln, NE, USA). These four transgenic lines were previously reported (Table 1) (Kimura & Kodama, 2016 (link); Sakata et al., 2019 (link); Fujii et al., 2020 (link)). The transgenic lines were maintained at the G1 generation in the culture room, and G2 gemmae were used in the following experiments.
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8

Chiral Product Isolation Protocol

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The light intensity was measured using an LI‐250A light meter (LICOR Biosciences, Hamburg, Germany) equipped with a spherical micro quantum sensor US‐SQS/L (Walz, Effeltrich, Germany). Values were taken as an average (15 s) as well as a plot for 40 s (Supporting Information, Figure S2a).
Product isolationAfter the reaction, the mixture was extracted three times with ethyl acetate (1 : 1.33, v/v). The organic layer was dried in anhydrous MgSO4 and evaporated in vacuo. The obtained product was analyzed using chiral GC‐FID and 1H and 13C NMR spectroscopy.
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9

Etiolated Arabidopsis Proteome Analysis

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In this study, A. thaliana Columbia (Col-0) seedlings and transgenic Arabidopsis expressing phot1–GFP in a phot1–5 background17 (link) were
used. For etiolated seedlings, seeds were surface-sterilized and sown
on MS plates (half-strength MS medium,18 0.8% agar, 43.8 mM sucrose, pH 5.7), cold-treated (2 days at 4 °C)
in the dark, exposed to white light of medium intensity (100 μmol
photons m–2 s–1) for 6 h, and
then incubated in the dark growth room for 4 days at 22 °C. Blue
light irradiation was performed in a growth chamber (E-30 LED, Percival
Scientific, Perry, IA, USA) with far-red, red, and blue (468 nm) light-emitting
diode sources. The fluence rate was measured using a LI-250A light
meter with a LI-190SA quantum sensor (LI-COR, Lincon, NE, USA). Etiolated
seedlings were irradiated for up to 60 min with continuous blue light
(20 μmol m–2) or left in darkness as controls.
The whole seedlings, including the cotyledons, hypocotyls, and roots,
were collected and frozen immediately in liquid nitrogen until protein
extraction and proteomic analyses were performed (Figure 1).
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10

Seedling Growth of Transgenic BVR and Phytochrome Mutants

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Transgenic BVR lines, i.e., 35S::pBVR3 (Montgomery et al., 1999 (link)) and CAB3::pBVR2 (Warnasooriya and Montgomery, 2009 (link)), and T-DNA insertion mutants, i.e., phyA (Mayfield et al., 2007 (link); Ruckle et al., 2007 (link)), phyB (Mayfield et al., 2007 (link); Ruckle et al., 2007 (link)), and double mutant phyAphyB (Oh and Montgomery, 2013 (link)), were previously described. Sterilized seeds were planted and seedlings grown on MS medium containing 1% (w/v) sucrose and 0.7% (w/v) Phytoblend agar (Caisson Labs, UT) at 22°C for 7 days under the indicated light condition as previously described (Oh and Montgomery, 2013 (link)). Light sources utilized for far-red (FR; λ max ~735 nm), red (R; λmax ~670 nm), and white (W) light were described previously (Warnasooriya and Montgomery, 2009 (link)). Fluence rates of R, and W were measured using a LI-250A Light Meter (LI-COR) connected to a LI-COR quantum sensor and for FR using a StellarNet EPP2000 spectroradiometer (Apogee Instruments).
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