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19 protocols using 6 benzylaminopurine bap

1

Modulation of Seedling Development

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Seedlings were transferred on solid MS medium with the indicated chemicals: propidium iodide (PI, 10 μM, Sigma-Aldrich or Thermofisher), hydroxyurea (HU, final concentration 5 mM, Sigma-Aldrich) for 24 hours, gibberellic acid (GA, final concentration 10 μM, Sigma-Aldrich) for 1 hour before ablation, paclobutrazol (PAC, final concentration 2 or 10 μM as indicated, Sigma-Aldrich) for 1 hour before ablation, epibrassinolide (EBL, Sigma Aldrich, final concentration 1 μM) for 1 hour before ablation, dexamethasone (DEX, Sigma Aldrich, final concentration 5 μM) for 1 hour before ablation, 1-Naphthylacetic acid f (NAA, Sigma Aldrich, final concentration 1 μM) or 1 hour before ablation, 6-Benzylaminopurine (BAP, Sigma Aldrich, final concentration 50 nM) for 1 hour before ablation.
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2

Investigating plant hormone effects on root morphology

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We embedded each of the following compounds in JM plates: 100 nM IAA (Sigma), 100 nM 1- ACC) (Sigma), 100 nM 2,4-dichlorophenoxyacetic acid (Sigma), 100 nM flg22 (PhytoTech labs), 100 nM 6-benzylaminopurine (BAP) (Sigma) and 100 nM zeatin (Sigma). As some of these compound stocks were initially solubilized in ethanol, we included comparable amounts of ethanol in the control treatments. Plates with each compound were inoculated with one of the Variovorax strains CL14, MF160, B4 or YR216 or with Burkholderia CL11. These strains were grown in separate tubes, then washed and OD600 was adjusted to 0.01 before spreading 100 μl on plates. In addition, we included uninoculated controls for each compound. We also included unamended JM plates inoculated with the RGI-inducing Arthrobacter CL28 co-inoculated with each of the Variovorax or Burkholderia strains, or alone. Thus, the experiment included 42 individual treatments. The experiment was repeated twice, with three independent replicates per experiment. Upon collection, root morphology was measured (‘Root and shoot image analysis’ in ‘Deconstructing the synthetic community to four modules of co-occurring strains’).
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3

Shoot Regeneration from Leaf and Stem Explants

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For shoot regeneration, axenic leaf and stem nodal explants 0.7–1.5 cm in size were cultivated on LS medium supplemented with 1 mg/L 6-Benzylaminopurine (BAP, Sigma-Aldrich, Dordrecht, The Netherlands) and 0.1 mg/L 1-Naphthaleneacetic acid (NAA, Sigma-Aldrich, Dordrecht, The Netherlands) (LS1 medium) at 24 ± 1 °C under a 16 h light/8 h dark lighting condition until shoot formation. For shoot elongation and root induction, each shoot 0.5 cm high was transferred on half strength LS medium without hormones and containing 2% sucrose. Each regeneration experiment consisted of 20 explants and was repeated three times.
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4

Analytical Characterization of Chemicals

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All used chemicals were of analytical grade: MgSO4 was purchased from POCh (Gliwice, Poland); zinc hydroaspartate was from Farmapol (Poland); conc. HNO3 and H2O2 suprapure were from Merck (Darmstad, Germany); and anthranilic acid, l-tryptophan, and serine (purity ≥98 % by HPLC) were from Sigma-Aldrich (St. Louis, USA). The growth regulators naphthalene-1-acetic acid (NAA) and 6-benzylaminopurine (BAP) were also from Sigma-Aldrich. Water was filtered through Millipore Millex-GP, 0.22 μm, and was purified by quadruple distillation.
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5

DNA Functionalization of Silica Nanoparticles

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Cetyl trimethyl ammonium bromide (CTAB, 98%), sodium hydroxide, tetraethylorthosilicate (TEOS, 99%), ethanol (99.9%), hydrochloric acid (37%), N-(2-aminoethyl)-3-aminopropyltrimethoxy-silane (AAS, 97%), acetic acid glacial (100%), Calf thymus DNA, Tris-HCl (0.1 M, pH 8) and sodium hypochlorite were purchased from Merck (Darmstadt, Germany). N,N-Dimethylformamide anhydrous (DMF), Succinic anhydride, N-(3-dimethylaminopropyl)-n′-ethylcarbolimide hydrochloride (EDC), N-Hydroxysuccinimide (NHS), Fluorescein Diacetate (FDA), Triton X-100, Murashige and Skoog (MS) medium, kinetin, 6-benzylaminopurine (BAP), and 2,4-Dichlorophenoxyacetic acid (2,4-D) were purchased from Sigma-Aldrich (St. Louis, MO, USA). Polyethyleneimine (PEI, M.W. = 10 000, 99% wt) was received from Alfa Aesar. 1X PBS (Phosphate-Buffered Saline: with composition of 137 mM NaCl, 2.7 mM KCl, 10 mM Na2HPO4 and 1.8 mM KH2PO4) were purchased from Merck. DNA (Calf Thymus) was purchased from Merck. Nicotiana tabacum cv. Samsun seed was supplied by National Institute of Genetic Engineering and Biotechnology (NIGEB, Iran). All reagents were used as received without further purification. Milli-Q water (18.2 MΩ cm) was used throughout the experiments.
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6

Potato Cultivars Comparison for Heat Tolerance

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Commercial S. tuberosum L. cultivars, Agria, Désirée and Kennebec, were used in experiments. The three unrelated potato varieties were selected to validate the presence of investigated genes and compare StSODs expression in tetraploid genotypes that differ in heat tolerance. Based on our unpublished data, Désirée was considered relatively heat tolerant, Kennebec as moderately sensitive, and Agria as heat-sensitive genotype.
Virus-free tubers of three potato cultivars were obtained from Solanum Komerc, Guča, Serbia. In vitro cultures were established from surface-sterilized sprouts, which were transferred on the basal medium (BM) consisting of Murashige and Skoog macro and micro-mineral salts [51 (link)], Linsmaier and Skoog vitamins [52 (link)], 0.7% agar, 3% sucrose, 100 mgL−1 myo-inositol and supplemented with 0.5 mgL−1 6-benzylaminopurine (BAP; Sigma Aldrich, St. Louis, MO). Shoots obtained on this medium gave rise to plantlets when transferred to BM without BAP. Microplants were grown in a controlled environment (21 °C, 16 h light period, light flux 90 μmol m−2 s−1) and were routinely subcultured every four weeks on BM using single-node stem cuttings (SNC).
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7

Investigating plant hormone effects on root morphology

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We embedded each of the following compounds in JM plates: 100 nM IAA (Sigma), 100 nM 1- ACC) (Sigma), 100 nM 2,4-dichlorophenoxyacetic acid (Sigma), 100 nM flg22 (PhytoTech labs), 100 nM 6-benzylaminopurine (BAP) (Sigma) and 100 nM zeatin (Sigma). As some of these compound stocks were initially solubilized in ethanol, we included comparable amounts of ethanol in the control treatments. Plates with each compound were inoculated with one of the Variovorax strains CL14, MF160, B4 or YR216 or with Burkholderia CL11. These strains were grown in separate tubes, then washed and OD600 was adjusted to 0.01 before spreading 100 μl on plates. In addition, we included uninoculated controls for each compound. We also included unamended JM plates inoculated with the RGI-inducing Arthrobacter CL28 co-inoculated with each of the Variovorax or Burkholderia strains, or alone. Thus, the experiment included 42 individual treatments. The experiment was repeated twice, with three independent replicates per experiment. Upon collection, root morphology was measured (‘Root and shoot image analysis’ in ‘Deconstructing the synthetic community to four modules of co-occurring strains’).
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8

Optimized Auxin and Cytokinin Treatments

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Dexamethasone (Dex; Sigma-Aldrich Company Ltd, Darmstadt, Germany), indole-3-acetic acid (IAA; Sigma-Aldrich Company Ltd, Darmstadt, Germany) and luteolin were dissolved in 70% ethanol. AVG and 6-Benzylaminopurine (BAP; Sigma-Aldrich Company Ltd, Darmstadt, Germany) were dissolved in water. Mock treatments were equal volumes of each solvent in the agar media. For BAP plate treatments (100 nM) and IAA plate treatments (100 nM) 2-day old seedlings were grown on BNM plates for 24 h with either BAP or IAA and supplemented with 1 μM AVG to replicate spot inoculation conditions. For the lateral root primordium assay 2-day old seedlings were transferred to modified Fahraeus medium supplemented with IAA (100 nm) or mock for 24 h. For Dex treatments, 3-week old plants with transformed roots were transferred to BNM agar plates supplemented with KNO3 (potassium nitrate, 2.5 mM) and either Dex (1 μM) or mock treatment, with a piece of filter paper placed over the root systems to ensure full contact with the additives.
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9

Arabidopsis thaliana Transgenic Lines Assay

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Seeds of Arabidopsis thaliana (L.) transgenic lines ARR5: GUS and DR5: GUS were obtained from ABRC (ABRC OH, USA). Seeds of wild type (Col-0; Lehle Seeds, Round Rock, TX, USA) and transgenic lines were surface sterilized using 2% (v/v) NaOCl by soaking for 1 min followed by four rinses with sterile distilled water and stratified at 4 °C for 2 days. Seedlings were produced as described by Rathor et al. (2020) (link). In brief, sterilized seeds were placed on plates containing half-strength Murashige and Skoog (MS) medium (Fisher Scientific, ON, Canada) supplemented with 1% (w/v) sucrose and solidified with 0.4% (w/v) Gellan Gum (Fisher Scientific, ON, Canada). Plates were maintained at 22 °C with 16 h light/8 h dark cycle, with a light intensity of 200 µmol m−2s−1. Four days old seedlings were transferred into 24 well plates (Fisher Scientific, ON, Canada) containing half-strength MS medium supplemented with either/or HA (0.1%), IAA (25 μM) (Sigma, ON, Canada) and 6-benzyl aminopurine (BAP) at 10 μM (Sigma, ON, Canada). Each treatment had three biological replicates. After 24 h the seedlings were fixed in 90% cold acetone and GUS staining was performed as described by Weigel and Glazebrook (2002) .
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10

Shoot Initiation in Medicinal Plants

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The shoots were trimmed to about 1.0 cm and cultured in baby food jars each containing 30 ml shoot initiation medium. The shoot initiation medium was MS medium containing 6-Benzylaminopurine (BAP) (0.5, 0.75, 1.0, 1.25, 1.5 mg/l) (Sigma-Aldrich, St. Louis, Missouri, USA) in combination with 0.5 mg/l thidiazuron (TDZ) or TDZ alone (0.5, 0.75, 1.0, 1.25, 1.5 mg/l) (Sigma-Aldrich, St. Louis, Missouri, USA), 30 g/l sucrose, 0.7% (w/v) agar (HiMedia, Mumbai, Maharashtra, India). The pH of the medium was adjusted to 5.8 before addition of agar. Basal MS medium was used as control. The cultures were maintained at a temperature of 25 ± 2 °C under light intensity of 20 μmol m−2 s−1 and 16 h photoperiod provided by cool-white fluorescent lamp (OSRAM GmbH, Munich, Germany). For each treatment, a total of 30 explants were used. There were six explants per jar with five replications. The experiment was repeated once. Number of dead and initiated shoots was recorded.
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