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The PYES2 is a laboratory equipment product designed for general scientific applications. It serves as a versatile tool for researchers and scientists. The core function of the PYES2 is to provide a reliable and standardized platform for various experimental procedures. No further details about the intended use or specific applications are provided.

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68 protocols using pyes2

1

Heterologous Expression of Octopus Scd

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Primers containing HindIII (forward) and XhoI (reverse) restriction sites (underlined in Table S1) OVD9VF and OVD9VR (Scd) were used to amplify the ORF of the O. vulgaris Scd, using the high fidelity Pfu Turbo DNA polymerase (Promega). Further cloning into the yeast expression vector pYES2 (Invitrogen), which contains a GAL1 promoter that is inducible by galactose and has URA3 as selective marker, was achieved after ligation of restricted ORF amplicons and plasmid pYES2 to produce the construct pYES2-Scd. The recombinant plasmids pYES2-Scd or pYES2 empty (negative control) were transformed into S. cerevisiae competent cells InvSc1 (S.c. EasyComp Transformation Kit, Invitrogen). Yeast were grown in SC-ura for 3 days.
One single yeast colony containing the pYES2-Scd or pYES2 was grown overnight at 30 °C in 5 mL of liquid SC-ura. Cell cultures were then used to inoculate 10 mL of fresh SC-ura for a final OD600 of 0.4. Four replicates for each construct (pYES2-Scd or pYES2) were run. Cells were grown at 30 °C for 5 h before the expression of the transgene was induced by the addition of galactose to 2% (w/v) [46 (link)]. After 48 h of galactose induction, yeast samples were collected, washed and homogenised in chloroform/methanol (2:1, v/v) containing 0.01% BHT. Samples were kept at −20 °C until further analysis.
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2

Cloning and Expression of HvPIP2;5 in Yeast and Plants

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Barley (Hordeum vulgare cv. NP21) cDNA was prepared using superscriptTM III reverse transcriptase (Invitrogen, USA), and total RNA was extracted with TRIzol® Reagent (Ambion, USA). A 873 bp-length HvPIP2;5 coding sequence (GenBank Accession number: AB377270.1) was cloned into TA cloning vector pTOPO2.1 (Invitrogen, Carlsbad, CA, USA) using gene specific primers (Supplementary Table 1). The coding sequences of HvPIP2;5 was cloned into yeast expression vector pYES2.0 (Invitrogen, USA) at the EcoRI site and named pYES2: HvPIP2;5. For plant transformation, HvPIP2;5 coding sequence was cloned into a standard plant binary vector pCAMBIA2301. The resulting overexpression construct was named pCAMBIA2301-35S:HvPIP2;5.
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3

Heterologous Expression of CbFAD3 in Yeast

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The coding region of CbFAD3 was cloned into pYES2.0 (Invitrogen, USA) using specific primers (P13 and P14; Supplementary Table S1), to construct the expression plasmid pYES2-CbFAD3. pYES2-CbFAD3 and pYES2.0 were transformed into Saccharomyces cerevisiae strain INVSc1 (Invitrogen, USA) using S. cerevisiae EasyComp transformation kit (Invitrogen, USA). The yeast transformants were selected and cultured according to the method of Román et al. (2012) (link). When the OD600 of the culture reached 0.2–0.3, gene expression was induced by adding 2% (w/v) galactose. Yeast cells were harvested by centrifugation at 1500 g for 5 min at 4 °C and washed with distilled water. The extraction and SDS-PAGE of total yeast proteins were performed as described by Horvath and Riezman (1994) (link). The production of C18:3 was induced by adding 2% (w/v) galactose, 50 μM C18:2 (Sigma-Aldrich, USA) and 0.1% (w/v) NP-40, and was measured after growth at 20 °C for 3 d.
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4

Assaying H2O2 Sensitivity in Fission Yeast

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The vector pREP3X was used for the overexpression of Schizosaccharomyces pombe56 (link). In this system, thiamine was used as a repressor of the pREP3X vector. For the assays of sensitivity to the H2O2 stimuli, the transformed cells were cultured in yeast medium with thiamine at 30 °C with an initial starting optical density at 600 nm (OD600) of 0.2. During the logarithmic phase, the cells were collected by centrifugation, washed thrice with sterile water and finally diluted to densities of 106, 105 and 104  cell/ml using a blood-counting chamber and then assayed on yeast solid media plates with or without 1.5 mM H2O2 or thiamine. (B) The pYES2-TaMCA1 vector and empty vector were introduced into yca1Δ (KFY729) strain according to the user manual of pYES2 (Invitrogen). The transformed cells were assayed on yeast solid media plates with or without 1.2 mM H2O2.
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5

Cloning and Expression of GmACSL2 in Soybean

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RNA samples were isolated from the leaves of 5-day-old seedlings using plant Trizol reagent (Vigorous Biotechnology, China). 2 µg aliquot of total RNA was used for cDNA synthesis by M-MLV Reverse Transcriptase (TAKARA, Japan). The ORF primers of GmACSL2 are: GmACSL2-1F: 5′-ATGGCGACAATTCCTATCACCTAC-3′ and GmACSL2-1R: 5′ -TTACATGTATAGATTGTCTATTTGCTCCC-3′. The primers were designed by Primer Premier 5.0 [29] . The PCR conditions were as follows: 95°C for 5 min; 35 cycles of 95°C for 40 s, 58°C for 40 s, and 72°C for 2 min; and an additional step of 72°C for 10 min. The amplified products were cloned into pMD18-T vector (TAKARA, Japan) and then sequenced.
The PCR product of GmACSL2 from pMD18-T vector was digested with BamHI/Xbal, and then subcloned into vector pYES2 (Invitrogen, America) to generate the pYES2-GmACSL2 plasmid for yeast vector construction. GmACSL2 was first subcloned into the pENTR vector for subcellular localization, and then LR recombined with pK7FWG2.0 to obtain pK7FWG-GmACSL2-eGFP through gateway system according to the protocol of Invitrogen [30] (link). The Plasmids of pCXDR-SSE1-dsRed were constructed following the method described by Chen et al [31] (link). GmACSL2 was subcloned into the vector pGFPGUSPlus (pCAMBIAl305.1113) for soybean hairy root induction, with the HPTII gene as the selective marker and GUS/GFP as the reporter gene [32] (link).
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6

Yeast Transformation and Phenotypic Assay

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The 1.1-kb fragment of MoPEX19 cDNA was amplified using the primer pair 19pYES2cds4/19pYES2cds5 and inserted into the SmaI/BstXI sites of the yeast expression vector pYES2 (Invitrogen) to generate pYES2-PEX19. pYES2-PEX19 was transformed respectively into S. cerevisiae wild-type strain BY4741 (MATa: his3Δ1 leu2Δ0 met15Δ0 ura3Δ0) and its derivative ScPEX19 (YDL065C) deleted mutant (Thermo Scientific, San Jose, CA, USA) using the lithium acetate method. To assess the ability of the transformants to utilize oleic acid, the yeast cells were precultured in liquid YPD medium (1% yeast extract, 2% peptone and 2% dextrose) to mid-log phase, washed three times with sterilized double distilled water, adjusted to OD600 = 1, and then grown on YNO medium [0.67% yeast nitrogen base with amino acids (Sigma), 0.1% oleic acid and 0.05% Tween 40, adjusted to pH 6.0] and SD medium (0.67% yeast nitrogen base with amino acids and 2% dextrose, adjusted to pH 6.0) in 5-μl aliquots of 10-fold serial dilutions at 30°C for 13–15 h.
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7

Yeast Growth Assay for Oxidative Stress

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Yeast growth assay was conducted according to the method described by Bienert et al. [34 (link)] with modification. The Saccharomyces cerevisiae strain INVSc1 was transformed with either an empty pYES2 (Invitrogen) as control or derivate of pYES2 carrying MfPIP2-7 coding sequence. Yeast cells were grown on SD/-Ura synthetic medium containing 2 % glucose until an A600nm of 0.6 to 0.8, followed by two times washing with liquid SG/-Ura synthetic medium containing 2 % galactose to an A600nm of 0.6. After a series of dilution, 10 μl were spotted on solid SG/-Ura medium containing various concentrations of H2O2 as indicated. Differences in growth and survival were recorded after 4 days of incubation at 30 °C.
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8

Overexpressing Mitochondrial Proteins via 2μ Plasmids

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The 2μ plasmids for overexpressing Tom22, Om45, Mdm34, and Msp1 were made as follows: the coding sequence of each gene and the flanking endogenous promoter (∼1,000 bp) and terminator (∼500 bp) sequences were subcloned to pRS42N by Gibson assembly (Gibson et al., 2009 (link)).
The 2μ plasmid pYES2-TOM22-HA was generated as follows: the coding sequence of TOM22 together with a C-terminal 6× HA tag was amplified using the TOM22-HA strain as the template, and then they were cloned into pYES2 (Thermo Fisher Scientific) at KpnI–EcoRI sites. The amber (TAG) codon was introduced to specific positions by QuikChange site-directed mutagenesis (Agilent Technologies).
Primers used for plasmid construction and introducing amber codons to TOM22 are listed in Table S1.
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9

Complementation Analysis of Human ALG1 Mutants

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Human ALG1 cDNA (RC206343 - Origene) was cloned into the yeast expression construct pYES2.1 (Thermo Fisher) to generate pYES2.1-hALG1. Before proceeding with complementation studies, all non-synonymous SNPs within the expression construct were removed so that only the human reference sequence (NM_019109.4) was used. Subsequently, all patient-relevant missense mutations were generated using QuickChange Lightening (Agilent Technologies). Growth complementation and CPY glycosylation analysis of the alg1 deficient yeast strain was previously described [Grubenmann et al, 2004 (link); Schwarz et al., 2004 (link)]. All yeast assays were replicated independently on three different occasions.
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10

Heterokonta DGAT2 Expression in Yeast

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The ORFs of HpDGAT2A, HpDGAT2B, HpDGAT2D, and HpDGAT2E were PCR-amplified using cDNA as a template and cloned into the yeast expression vector pYES2.0 (Invitrogen). After confirmation by restriction enzyme digestion and sequencing, the recombinant pYES2.0-HpDGAT2s plasmids were transformed into the S. cerevisiae TAG-producing strain INVSc1 or TAG-deficient quadruple mutant strain H1246 with the S.c. EasyComp Transformation Kit (Invitrogen) [20 (link)]. The expression of HpDGAT2 genes in the yeast strain was verified at the transcript level by qRT-PCR. For the feeding experiments, yeast cultures were induced as described above but in the presence of 1% (w/v) Tergitol NP-40 (Sigma Aldrich, St. Louis, MO, USA) in the medium. At the beginning of induction, the appropriate FAs (C18:2n6, C18:3n3, C18:3n6, and C18:4n3) were added to the culture to a final concentration of 100 μM. Samples at an OD600 of 2.5 were harvested for lipid extraction, separation by TLC and analysis by GC.
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