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5 protocols using mouse anti rabbit igg conformation specific

1

Antibody Profiling of Nutrient Sensing Pathways

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Antibodies used were SLC38A9 (HPA043785 Sigma), LAMTOR1 (8975 Cell Signaling), LAMTOR3 (8169 Cell Signaling), RAGA (4357 Cell Signaling), RAGC (5466 Cell Signaling), phospho-p70 S6 Kinase (Thr389) (9234 Cell Signaling), phospho-S6 (Ser240/244) (2215 Cell Signaling), phospho-ULK1 (Ser757) (6888 Cell Signaling), raptor (2280 Cell Signaling), ATP6V1B2 (ab73404 Abcam), ATP6V1A (GTX110815 GeneTex), mouse anti-rabbit IgG (conformation specific) (3678 Cell Signaling), LAMP1 (555798 Pharmingen and ab25630 Abcam), LAMP2 (sc-18822 Santa Cruz), CD63 (H5C6 DSHB), LBPA (Z-PLBPA Echelon, Tebu-bio), EEA1 (sc33585 Santa Cruz), Giantin (ab24586 Abcam), p70 S6 kinase (sc-230 Santa Cruz), ULK1 (8054 Cell Signaling), Tubulin (ab7291 Abcam), RCC1 (sc55559 Santa Cruz), HA (H6533 Sigma, 3724 Cell Signaling, MMS-101P Covance or sc-805 Santa Cruz), V5 (ab9116 Abcam), His (A7058 Sigma), FLAG (F7425 Sigma). The secondary antibodies used were goat anti-mouse AlexaFluor568 (A-11004 and A-11031 Molecular probes), goat anti-rabbit AlexaFluor568 (A-11036 Molecular probes), goat anti-mouse AlexaFluor488 (A-11001 Molecular probes), goat anti-rabbit AlexaFluor488 (A-11008 Molecular probes) and HRP-conjugated antibodies (Jackson ImmunoResearch).
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2

Immunoprecipitation and Western Blot of Wheat TaS6K1

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Wheat embryos were ground in liquid nitrogen and then resuspended in lysis buffer A. After centrifugation at 13,000 × g for 10 min, 4 μg of the anti-TaS6K1 polyclonal antibody was added to the cleared supernatant and incubated with rotation for 6 h. Then, 20 μl of a 50% slurry of protein G-Sepharose was added, and the incubation was continued for 4 h. Captured immunoprecipitates were washed three times with lysis buffer. Samples were resolved by SDS-PAGE, and proteins were transferred to a PVDF membrane and visualized by immunoblotting with either the anti-TaS6K1 polyclonal antibody or phospho-AtS6K antibody (p-T449; Abcam, Cambridge, United Kingdom). A goat anti-rabbit IgG (Abcam, Cambridge, United Kingdom) or mouse anti-rabbit IgG (Conformation Specific; Cell Signaling Technology, Danvers, MA, United States) antibody, respectively, was used to detect the primary antibodies.
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3

Immunoprecipitation and Western Blot Analysis

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Intervertebral disc tissue samples were treated with ice-cold IP lysis buffer on ice for 30 min, centrifuged at 12,000 g for 30 min. The supernatant of the lysate was collected. About 1 μg protein antibody and 50 μL protein A-agarose beads were added to the appropriate amount of lysate and incubated at 4°C overnight. Afterwards, the agarose beads were centrifuged to the bottom of the tube at 4°C, 3,000 rpm for 3 min. The supernatant was extracted out and the agarose beads were washed 3–4 times with 1 ml lysis buffer. Lysis buffers were carefully collected and added 2 × SDS loading buffer and boiled for 10 min. Finally, western blot was used for analysis.
Mouse Anti-rabbit IgG (Conformation Specific) (1:5,000, No. 5127, Cell Signaling Technology, Beverly, MA, United States) was used as second antibody.
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4

Antibody Profiling of Nutrient Sensing Pathways

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Antibodies used were SLC38A9 (HPA043785 Sigma), LAMTOR1 (8975 Cell Signaling), LAMTOR3 (8169 Cell Signaling), RAGA (4357 Cell Signaling), RAGC (5466 Cell Signaling), phospho-p70 S6 Kinase (Thr389) (9234 Cell Signaling), phospho-S6 (Ser240/244) (2215 Cell Signaling), phospho-ULK1 (Ser757) (6888 Cell Signaling), raptor (2280 Cell Signaling), ATP6V1B2 (ab73404 Abcam), ATP6V1A (GTX110815 GeneTex), mouse anti-rabbit IgG (conformation specific) (3678 Cell Signaling), LAMP1 (555798 Pharmingen and ab25630 Abcam), LAMP2 (sc-18822 Santa Cruz), CD63 (H5C6 DSHB), LBPA (Z-PLBPA Echelon, Tebu-bio), EEA1 (sc33585 Santa Cruz), Giantin (ab24586 Abcam), p70 S6 kinase (sc-230 Santa Cruz), ULK1 (8054 Cell Signaling), Tubulin (ab7291 Abcam), RCC1 (sc55559 Santa Cruz), HA (H6533 Sigma, 3724 Cell Signaling, MMS-101P Covance or sc-805 Santa Cruz), V5 (ab9116 Abcam), His (A7058 Sigma), FLAG (F7425 Sigma). The secondary antibodies used were goat anti-mouse AlexaFluor568 (A-11004 and A-11031 Molecular probes), goat anti-rabbit AlexaFluor568 (A-11036 Molecular probes), goat anti-mouse AlexaFluor488 (A-11001 Molecular probes), goat anti-rabbit AlexaFluor488 (A-11008 Molecular probes) and HRP-conjugated antibodies (Jackson ImmunoResearch).
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5

Comprehensive Immunoblotting Protocol

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Cleaved caspase 3, JNK1, phospho JNK1 (Thr183/Tyr185), IKKα, phospho IKKα/β (Ser176/180), IKKε, phospho IKKε (Ser172), IκB, NFκB, PKC phospho substrate, Akt, phospho Akt (Ser473), PKCα, PKCζ, phospho PKC pan (βII Ser660), TNFR1, TNFR2, Fas, DR3, DR5, TRAF2, TRADD, FADD and mouse anti-rabbit IgG (conformation specific) antibodies were obtained from Cell Signaling Technology. PTPRN2 (HPA026656, SAB4502542 and HPA006900), FLAG(M2), HA, β-actin, MEMO1, PARP1 monoclonal (C-2-10), and α-tubulin monoclonal antibodies were obtained from Sigma. Ki-67 antibody was obtained from Abcam. c-Myc antibody was obtained from Santa Cruz Biotechnology. μ-calpain antibody was obtained from EMD Millipore. Sintaxin 6, Calnexin and E cadherin antibodies were obtained from BD Biosciences. Phospho TRAF2 (Ser11) antibody was kindly provided by Dr. Hasem Habelhah at the University of Iowa (USA).
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