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68 protocols using abscisic acid

1

Synchronizing U2OS Cells for Imaging

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On day 0, U2OS cells stably expressing CRISPR-EChO and sgRNA were seeded at 7.5% confluence in 24-well μ-plate (Ibidi 82406) in FluoroBrite™ DMEM (ThermoFisher A1896702) supplemented with 10% FBS and GlutaMAX (ThermoFisher 35050-061). On day 1, cells were serum starved by in FluoroBrite DMEM with 0.1% FBS and GlutaMAX. On day 2, cells were switched back to FluoroBrite DMEM with 10% FBS and GlutaMAX and treated with 4 mM freshly prepared hydroxyurea (Sigma H8627) and 100 μM abscisic acid (Sigma A1049). On day 3, cells were washed 2 times with DPBS to remove ABA, then cultured in FluoroBrite DMEM with 10% FBS, GlutaMAX, and 4 mM freshly prepared hydroxyurea immediately before imaging. Control cells were similarly treated but without hydroxyurea on days 2 and 3.
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2

Stress-Induced NAC Genes in Cotton

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A group of three plants (2 months old) within each transgenic cotton line and non-transgenic control cotton lines were subjected to water stress while three plants from same lines were exposed to Abscisic acid stress up to 14 days. Abscisic acid (Sigma-Aldrich # A4906) used in experiment was dissolved in ethanol (10 mg/mL). The clear solution of Abscisic acid was further diluted up to 200 μM and sprayed on leaves of both transgenic and control cotton plants. All stress treatments were carried out under controlled conditions of green house at CEMB. The relative mRNA expression of the senescence regulating NAC genes GhNAC8 (JQ914139), GhNAC9 (JQ914140), GhNAC11 (JQ914142), GhNAC12 (JQ914143), GhNAC14 (JQ914145), GhNAC15 (JQ914146), GhNAC16 (JQ914147), GhNAC17 (JQ914148) was measured in all 35S_ AGL42 transgenic cotton plants along with non-transgenic control after 7 days of drought stress treatment. G. hirsutum Actin gene was used as an internal control to normalize the data. The RT-primer sequences for NAC genes were listed in supplementary table 2.
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3

Quantification of Abscisic Acid in Plant Tissue

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Three grams of pulp tissues was extracted with 40 ml of 80% (v/v) methanol at –20 °C for 18 h. The methanol extracts were then centrifuged at 10 000 g for 20 min, and the pellet was extracted twice with 20 ml of 80% methanol at –20 °C for 2 h. The supernatants were subsequently combined and dried under vacuum, and the residue was dissolved in 10 ml of 0.02 M phosphate assay buffer (pH 8.0) and extracted three times with 10 ml petroleum ether. The organic phase was removed, and the pH of the aqueous phase was adjusted to 8.0, followed by the addition of 0.2 g of insoluble polyvinylpolypyrrolidone. After stirring for 15 min at 0 °C, polyvinylpolypyrrolidone was removed through vacuum filtration. The mixed liquid was adjusted to pH 3.0 and subsequently extracted three times with ethyl acetate. The ethyl acetate phase was dried under vacuum and dissolved in 1 ml 50% methanol (v/v). The ABA content was determined via HPLC (Agilent Technologies 1200) using a 4.8×150 mm C18 column (Agilent Technologies), at a flow rate of 0.8 ml min−1. Elution was performed using both solvent A (0.8% (v/v) glacial acetic acid) and solvent B (100% methanol). We employed (±)-abscisic acid (Sigma-Aldrich, St Louis, MO, USA) as the standards for determination at 260 nm. Three replicates were conducted for each sample.
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4

Analytical Characterization of Nanoparticles and Phytohormones

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LC-MS grade water, acetonitrile (ACN), ethanol and isopropanol were purchased from Fisher Scientific (NJ, USA). Nanoparticles of TiO2, ZnO, bismuth cobalt zinc oxide (Bi2O3)0.07(CoO)0.03(ZnO)0.9 (<100 nm BET or <50 nm XRD), gibberellic acid, salicylic acid, jasmonic acid, indoleacetic acid and abscisic acid were purchased from Sigma-Aldrich (MO, USA). Free fatty acids including C6:0, C8:0, C10:0, C12:0, C14:0, C16:0, C18:0, C20:0 and C22:0 were purchased from NU-CHEK PREP, Inc (MN, USA). All nanoparticles have been thermally treated at 350°C for 2 hours in a muffle furnace (Hubei, China) before use in order to remove trace organic contaminants.
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5

Abscisic Acid Titration in HEK293FT

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HEK293FT cells were transfected using Lipofectamine 2000 per manufacturer’s instructions in 96-well format. 6 hours after transfection, the media was changed and replenished with media containing abscisic acid (Sigma cat. no. A1049) and was titrated across multiple samples with 3 biological replicates per ABA concentration. 72 hours after transfection, the cells were measured via flow cytometry (Beckman Coulter CytoFLEX platform).
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6

CRISPR-based Chromosomal Locus Imaging

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For chromosomal locus imaging in Figure 1, CRISPR imaging was used to visualize the location of the Chr3q29, Chr1p36, and Chr13q34 loci. Stable cell lines expressing CRISPR-EChO, dCas9-HaloTag, and sgRNA were seeded in 24-well μ-plate (Ibidi 82406) and treated with 100 μM abscisic acid (Sigma A1049) or DMSO (Sigma D2650) vehicle for 8 to 24 h. Cells were stained with JF549-HaloTag ligand (gift from Luke Lavis in Janelia Research Campus(Grimm et al., 2015 (link))) at 10 nM for 15 m at 37°C in culture media. Cells were then washed twice with culture media, incubating for 30 m at 37°C during the second wash, then replaced with culture media containing fresh inducer before imaging.
For mCherry-HP1α imaging, U2OS cells stably expressing CRISPR-EChO and sgRNA were seeded at 10% confluence in 24-well μ-plate (Ibidi 82406) and treated with 100 μM abscisic acid or DMSO vehicle for 2 days before imaging.
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7

Quantitative Analysis of Phytohormones

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Tissue extraction was carried by a modified method from Gómez-Cadenas et al. (2002) (link) and Durgbanshi et al. (2005) (link) Frozen tissue (0.5 g FW-1) was extracted with 80% methanol (5 mL) using mortar and pestle, after centrifugation (5.000 g × 10 min) supernatant was dried using N2 gas. After re-suspension using 2 mL water:pure diethyl-ether (1:1) samples are shaken for 1 min. The diethyl-ether fraction was subsequently dried using N2 gas and re-suspended in 10% methanol (200 μL). A 10 μL volume was injected to a UHPLC-mass spectrometer (Orbitrap, Thermo Scientific, Waltham, MA, United States). After 20 min run, quantification was carried out using pure standards of indole-3-acetic acid, (±)-abscisic acid (ABA), (±)-jasmonic acid, and salicylic acid (Sigma–Aldrich, St. Louis, MO, United States) using Xcalibur v.2.13 (Thermo Scientific, Waltham, MA, United States).
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8

Plant Cell Fractionation and Hormone Assays

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Cellulase R10 and Macerozyme R10 for enzymatic digest of leaf tissue were purchased from Melford Biolaboratories Ltd. Buffer W5 was 154 mM NaCl, 125 mM CaCl2, 5 mM KCl, 2 mM MES pH 5.7. MMG solution was 0.4 M mannitol, 15 mM MgCl2, 4 mM MES pH 5.7. Buffer W1 was 0.5 M mannitol, 20 mM KCl and 4 mM MES pH 5.7. Substances for hormonal treatments were abscisic acid (ABA), 1-naphthylacetic acid (NAA), trans-zeatin (t-zeatin), salicylic acid (SA) and methyl jasmonate (MeJA) and were purchased from Sigma Aldrich. Mock-treated wells received the amount of solvent present in the medium concentration of the three hormonal treatments or water. For analysis of marker specificity the treatment concentrations were 10 μM ABA, 500 nM NAA, 20 μM t-zeatin, 30 μM SA and 50 μM MeJA.
Lysis buffer was prepared as 5-fold stock solution using 125 mM Tris / H3PO4 (pH 7.8), 10 mM DTT, 10 mM DACTAA (Sigma D1383), 50% (v/v) glycerol, 5% (v/v) Triton X-100. LUC substrate was prepared using beetle luciferin (Promega E1602) as 1 mM luciferin, 30 mM HEPES (pH 7.8), 3 mM ATP (Sigma 797189) and 15 mM MgSO4. GUS substrate was prepared using MUG (4-Methylumbelliferyl-β-D-glucuronide, Melford Biolaboratories Ltd. M65900) as 1 mM MUG, 10 mM Tris / HCl (pH 8.0) and 2 mM MgCl2.
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9

Quantification of Phytohormones in Plant Samples

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The GA3, ZT, and ABA concentrations from FBD, FBE, and FA were determined through using the method described by [53 (link),63 (link),84 (link)]. Then, 0.3 g of each sample was extracted. Standard preparations were obtained from gibberellic acid, zeatin, and abscisic acid (Sigma Chemical Co., St. Louis, MO, USA). Then, the concentrations of GA3, ZT, and ABA were detected using an Agilent 1260 HPLC device (Agilent Technologies, Santa Clara, CA, USA) equipped with a G1314B UV detector. Three biological replicates were performed. All data were analyzed using analysis of variance (ANOVA), and the differences were compared using PASW Statistics v18.0 software (SPSS Inc., Chicago, IL, USA) and Duncan’s multiple range test.
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10

Preparation of Phytohormone Standards

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Coronatine (COR), jasmonic acid (JA), salicylic acid (SA), α-naphthalene acetic acid (NAA), 1-aminocyclopropanecarboxylic acid (ACC, ethylene precursor), (±)-abscisic acid (ABA), MG132 and isoxaben were purchased from Sigma. 12-oxo phytodienoic acid (OPDA) was purchased from Cayman chemical (Keystone, Colorado, USA). COR, SA, NAA, MG132 and isoxaben were dissolved in 100% dimethyl sulfoxide (DMSO), ACC was dissolved in ddH2O, ABA in 100% methanol and JA in 100% ethanol. All compounds were dissolved to a stock concentration of 50 or 100 mM. OPDA was purchased diluted in 100% ethanol (100μg/100μl ~ 3.4mM).
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