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5 protocols using pellet pestle cordless motor

1

Proteomic and Transcriptomic Analysis of Naa10 and Naa15

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70–120 mg tissues were lysed in 5 μL/mg tissue RIPA buffer (Sigma) with 1× Complete protease inhibitors and 1 U/μL Superase In RNase inhibitor (Thermo Scientific) using Fisherbrand Pellet Pestle Cordless Motor. Afterwards, homogenization debris was removed by centrifugation at 20.800 × g for 10 min at 4°C. Protein concentration was determined using APA assay (Cytoskeleton Inc) and 50 μg total protein were separated on SDS-PAGE followed by western blot. Membranes were stained with anti-Naa10, anti-Naa15, and anti-GAPDH antibodies (all Abcam).
For RNA purification, 30 μL clarified lysates were mixed with 70 μL RNase free water and RNA isolated using the RNeasy Mini Kit (Qiagen) according to the manufacturers recommendations, including on-column Dnase digest. 1 μg RNA was reverse transcribed using the TaqMan Reverse transcription kit and gene level detection performed using SYBR Green Master Mix (all Thermo Scientific). Relative expression was normalized to GAPDH and ACTB.
For the characterization of the mNaa12 antibody, tissue was lysed in 2 µL per mg tissue PBS-X (PBS + 0.2% [v/v] Triton X-100 + 1× Complete protease inhibitor cocktail). 10–200 µg lysate were subjected to SDS-PAGE and western blot.
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2

N-terminal Acetylation Protein Expression

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Organs from mice were dissected >2 months after birth. 70–120 mg tissue (heart/kidney/liver) were lysed in 5 μl/mg tissue RIPA buffer (Sigma) with 1x Complete protease inhibitors and 1 U/μl Superase In (Thermo Scientific, Waltham, MA, USA) using Fisherbrand Pellet Pestle Cordless Motor. After homogenization debris was removed by centrifugation at 20.800 g for 10 min at 4°C. Protein concentration was determined using APA assay (Cytoskeleton Inc. Denver, CO, USA) and 50 μg total protein were separated on SDS-PAGE followed by western blot. Membranes were stained with anti-Naa10, anti-Naa15 and anti-GAPDH antibodies (all Abcam, Waltham, MA,USA). For RNA purification, 30 μl clarified lysate were mixed with 70 μl RNase free water and RNA isolated using the RNeasy Mini Kit (Qiagen, Germantown, MA, USA) according to the manufacturer’s recommendations, including on-column Dnase digest. 1 μg RNA was reverse transcribed using the TaqMan Reverse transcription kit and gene level detection performed using SYBR Green
Master Mix (all Thermo Scientific). Relative expression was normalized to GAPDH and ACTB. The following primer pairs were used:
Naa10 (exon2-4) CTCTTGGCCCCAGCTTTCTT & TCGTCTGGGTCCTCTTCCATNaa11 ACCCCACAAGCAAAGACAGTG & AGCGATGCTCAGGAAATGCTCTGAPDH AGGTCGGTGTGAACGGATTTG & TGTAGACCATGTAGTTGAGGTCAACTB GGCTGTATTCCCCTCCATCG & CCAGTTGGTAACAATGCCATGT
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3

Kidney Extracellular Vesicle Isolation

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Mouse kidneys were surgically removed from the wild-type Balb c mice as well as Aqp2CreTsc2fl/fl mice under the influence of terminal anesthesia. Kidneys were immediately processed for EV isolation. Kidneys were homogenized in tissue protein extraction (T-PER) reagent (ThermoFisher, Waltham, MA, USA, Cat #78510) in a ratio of 1:20 (tissue:reagent, w/v) using Fisher brand Pellet Pestle Cordless Motor (Cat #12-141-361), as per the manufacturer’s instructions. The homogenized mixture was spun for 15 min at 1200× g to remove the cell debris. The resultant supernatant was centrifuged again at 2000× g for 10 min to remove any remaining debris, followed by filtration through a 0.45 μm filter; 500 µL of supernatant was utilized for the EV-isolation [58 (link)].
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4

Bacterial Load Quantification in Infected Flies

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Separate pint cages were set up to determine bacterial load of individual flies at specific time points (0 d, 3 d, 10 d, 14 d). Forty virgin males and forty virgin females were infected as previously stated for each treatment group. Once infected, individuals were given one hour to recover from anesthesia. After one hour, individuals that had not woken up were considered dead and removed. This point was also considered the start of the time course, and flies were aged to the appropriate time. Following incubation, flies were washed in 1X PBS, and placed into 100 µL of 1X PBS and homogenized using an RNase-free disposable pellet pestle (Fisher Scientific, 12-141-368, Waltham, MA) attached to a Pellet Pestle™ cordless motor (Fisher Scientific, 12-141-361, Waltham, MA). Following homogenization, the cultures were serial diluted and plated onto TSA for enumeration.
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5

Multiplex Cytokine Analysis of Intestine

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Small (~5 mm) pieces of small intestine were homogenized for 30 s on ice with a disposable mini-pestle (Pellet Pestle Cordless Motor, Fisher Scientific) in 1.5 ml microfuge tubes using RIPA extraction buffer (Cell Signaling Technology, Cat No 9806) and a cocktail of protease inhibitors (HALT, Thermo Scientific, Cat No 78429). After centrifugation (20,000 x g, 4°C, 15 min) to remove tissue debris, supernatants were recovered and measured for protein content (BCA Protein Assay, Fisher Scientific). Samples were diluted to 1 mg/ml protein with extraction buffer, and submitted for multiplex cytokine analysis (Mouse Cytokine/Chemokine 44-Plex Discovery Assay Array, Eve Technologies).
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