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Bead homogenizer

Manufactured by Benchmark Scientific
Sourced in United States

The Bead Homogenizer is a laboratory instrument designed for the efficient disruption and homogenization of various biological samples, such as cells, tissues, and microorganisms. It utilizes a high-speed agitation process to break down samples into a homogenized suspension, facilitating subsequent analysis or extraction procedures.

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3 protocols using bead homogenizer

1

Quantification of Extracellular Matrix Gene Expression

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Explants were harvested from each group at day 0 (baseline) and day 7 (n=5–6/group/day). Explants were immediately flash frozen with liquid nitrogen and stored at −80°C until RNA extraction. Samples were placed in Trizol reagent, homogenized with a bead homogenizer (Benchmark Scientific), and then separated using phase-gel tubes (Qiagen)[28 (link)]. The supernatant was then purified according to the Zymo Quick-RNA purification kit protocol (Zymo Research). The RNA was then converted into cDNA with reverse transcription and qPCR was performed with the Applied Biosystems StepOne Plus RT-PCR (Applied Biosystems, Foster City, CA). Primer pairs and sequences are listed in the Supplemental Data (Supplemental Table S1). We measured genes responsible for matrix synthesis (Col1a1), regulation of collagen fibrillogenesis (Fmod, Dcn, Bgn), matrix degradation (Mmp3, Mmp8, Mmp9, Mmp13), as well as markers of injury (Il6, Il1b, Tnfa, Casp3). Expression for each gene was calculated from the threshold cycle (Ct) value and was normalized to the housekeeping gene β-Actin. All data is represented in log space.
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2

Measuring mRNA Expression in Lung Cancer

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To measure mRNA expression, total RNA in cultured lung cancer cells was prepared by using TRIzol (Invitrogen, Carlsbad, CA, USA) and isopropanol (Sigma-Aldrich, St. Louis, MO, USA). To measure mRNA expression in A549-driven tumours, gastrocnemius muscle and epididymal white adipose tissue (eWAT), sacrificed tissues were frozen with liquid nitrogen and frozen tissues were pulverized by using dry ice and liquid nitrogen. Frozen tissues (30~40 mg) were homogenized with 1 mL of TRIzol (Invitrogen, Carlsbad, CA, USA) by using a bead homogenizer (Benchmark Scientific, Sayreville, NJ, USA) to extract total RNA. The purity of RNA was assessed by using a spectrophotometer (BioTek, Winooski, VT, USA) at 260 and 280 nm and a ratio of ~1.8 is accepted for measurement of gene expression. The reverse transcriptase and cDNA synthesis kit (Applied Biosystems, Foster City, CA, USA) was used for cDNA synthesis. SYBR Green qPCR mixture (Applied Biosystems, Foster City, CA, USA) was used for qRT-PCR and experimental Ct values were normalized and calculated to 36B4 (ribosomal protein subunit P0, RPLP0) or β-actin gene. Detailed primer sequences for qRT-PCR are described in Table 1.
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3

House Fly DNA and RNA Extraction

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A total of 279 female house flies were used for the PASA tests, and 18 randomly selected flies employed for the reverse transcriptase-PCR (RT-PCR) and Sanger sequencing. For genomic DNA (gDNA) extraction, the thorax of each individual house fly was excised and then homogenized using a bead homogenizer (Benchmark Scientific, Sayreville, NJ, USA). DNA was extracted from the homogenate using the DNeasy Blood & Tissue Kit (Qiagen, Hilden, Germany) following the manufacturer's recommended protocol. For the RT-PCR, total RNA was extracted from the thorax using the RNeasy Mini Kit (Qiagen) following the manufacturer’s protocol. The concentration of DNA and RNA in each sample was assessed using a NanoDrop 2000 UV spectrophotometer (Thermo Fisher Scientific, Waltham, MA, USA). The extracted DNA and RNA samples were preserved in a freezer at − 20 °C.
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