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5 protocols using dnase q1

1

Analyzing Drosophila Testis RNA Extraction

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Two hundred testes per condition after dissection were frozen at −80°C in fresh Trizol buffer (Trizol Life Technologies, 15596026; 5 μg Linear Poly-Acrylamide Sigma 56575, 100ηg of tRNA). Total RNA was extracted pooling testes samples, followed by 5 rounds of freezing (liquid nitrogen)/thawing at 37°C in a water bath. Then 5 Vortex rounds at RT for 30”, letting stand at RT for 5 min to disrupt all RNA-protein complexes. Finally, RNA was isolated by phenol/chloroform extraction.
Purified RNA was treated with DNase Q1 (Promega, M610A). RNA (1 mg) from testes dissected from 3 do control or EGFRDN or FosWT+EGFRDN flies (genotypes: c587-Gal4/Y; tub-Gal80TS/+; +/+, c587-Gal4/Y; tub-Gal80TS/+; UAS-EGFRDN/UAS-TdTomato or c587-Gal4/Y; tub-Gal80TS/UAS-FosWT; UAS-EGFRDN/+) was reverse-transcribed using the iScriptkit (Bio-Rad, 170–8841). Standard qPCRs were carried out on a Bio-Rad CFX96/C1000 Touch system (Bio-Rad), using Sso Advanced SYBR Green (Bio-Rad, 1725–264). The following primer sequences were used: Act5c Fwd: TTGTCTGGGCAAGAGGATCAG; Act5cRev: ACC ACTCGCACTTGCACTTTC; Atg6 Fwd: CGACAATGAGTGAGGCGGAA; Atg6 Rev: TCTCCGTAGATGGGCAAAGA. Cycling conditions were as follows: 95°C for 30 s; 95°C for 5 s then 55°C for 30 s, cycled 40 times. All calculated gene expression values were normalized to the value of the loading control gene, Actin5c.
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2

Analyzing Drosophila Testis RNA Extraction

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Two hundred testes per condition after dissection were frozen at −80°C in fresh Trizol buffer (Trizol Life Technologies, 15596026; 5 μg Linear Poly-Acrylamide Sigma 56575, 100ηg of tRNA). Total RNA was extracted pooling testes samples, followed by 5 rounds of freezing (liquid nitrogen)/thawing at 37°C in a water bath. Then 5 Vortex rounds at RT for 30”, letting stand at RT for 5 min to disrupt all RNA-protein complexes. Finally, RNA was isolated by phenol/chloroform extraction.
Purified RNA was treated with DNase Q1 (Promega, M610A). RNA (1 mg) from testes dissected from 3 do control or EGFRDN or FosWT+EGFRDN flies (genotypes: c587-Gal4/Y; tub-Gal80TS/+; +/+, c587-Gal4/Y; tub-Gal80TS/+; UAS-EGFRDN/UAS-TdTomato or c587-Gal4/Y; tub-Gal80TS/UAS-FosWT; UAS-EGFRDN/+) was reverse-transcribed using the iScriptkit (Bio-Rad, 170–8841). Standard qPCRs were carried out on a Bio-Rad CFX96/C1000 Touch system (Bio-Rad), using Sso Advanced SYBR Green (Bio-Rad, 1725–264). The following primer sequences were used: Act5c Fwd: TTGTCTGGGCAAGAGGATCAG; Act5cRev: ACC ACTCGCACTTGCACTTTC; Atg6 Fwd: CGACAATGAGTGAGGCGGAA; Atg6 Rev: TCTCCGTAGATGGGCAAAGA. Cycling conditions were as follows: 95°C for 30 s; 95°C for 5 s then 55°C for 30 s, cycled 40 times. All calculated gene expression values were normalized to the value of the loading control gene, Actin5c.
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3

Extracting Total RNA from Midguts

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Seventy-five female posterior midguts or five whole flies per condition after dissection were frozen at −80 ºC in fresh Trizol buffer (TRizol Reagent, Life Technologies, 15596026; 5 μg Linear Poly-Acrylamide Sigma 56575, 100 ng of tRNA). Total RNA was extracted from pooled midgut samples, followed by five rounds of freezing (liquid nitrogen)/thawing at 37 ºC in a water bath. Samples then underwent five rounds of vortexing at room temperature for 30 seconds, letting them stand at room temperature for 5 min to disrupt all RNA–protein complexes. Finally, RNA was isolated by phenol/chloroform extraction. Purified RNA was treated with DNase Q1 (Promega, M610A).
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4

Quantitative Analysis of Inhibin and Follistatin Genes

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Total RNA was extracted using TRIsure isolation reagent (Bioline Reagents Ltd., UK) and treated with DNase Q1 (Promega corporation, USA). One μg of total RNA was subjected to reverse transcription using IScript cDNA Synthesis kit (Bio-Rad Laboratories Inc., USA). For real-time PCR, we used Go Taq qPCR Master mix (Promega Corporation, USA) in a CFX96 Touch Real-Time PCR Detection System (Bio-Rad Laboratories Inc., USA). Primer-specific amplification and quantification cycles were run at 95 °C for 25 s, 62 °C for 25 s and 72 °C for 30 s and a final extension of 72 °C for 20 s. To normalize the quantification of inhibins subunits and follistatin mRNA level, we measured the amount of ribosomal 18S mRNA in each protocol. The corresponding standard curve for each gene was obtained by serial dilution of a reference ovarian cDNA sample. Expression of the following genes was quantified using the following primers (presented 5′-3′). Inha-F: CCTTTTGCTGTTGACCCTACG and Inha-R: AGGCATCTAGGAATAGAGCCTTC (RefSeq ID: NM_010564.4); Inhba-F: CTTCGTCTCTAATGAAGG CAACC and Inhba-R: CTCCACCACATTCCACCTGTC (RefSeq ID: NM_008381.3); Inhbb-F: GGA GAACGGGTATGTGGAGA and Inhbb-R: TGGTCCTGGTTCTGTTAGCC (RefSeq ID: NM_008380.1); Follistatin-F: AAAACCTACCGCAACGAATG and Follistatin-R: TTCAGAAGAGGA GGGCTCTG (RefSeq ID: NM_010565.3).
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5

DNA and RNA Isolation from Biological Samples

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The QIAamp DNA Mini Kit (Qiagen) was employed for the isolation of DNA from plasma, PB and individual cell subsets. Extraction of DNA from stool specimens was performed by the QIAamp DNA Stool Mini Kit (Qiagen) according to the manufacturer’s recommendations, and viral RNA was isolated with the RNeasy Kit plus (Qiagen), with subsequent DNA digestion with DNase Q1 (Promega). For further real-time quantitative (RQ)-PCR analyses, the RNA was transcribed into cDNA using the MLV reverse transcriptase (Promega).
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