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99 results for “Mitophagy”

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zenodo36/100

Control of mitophagy initiation and progression by the TBK1 adaptors NAP1 and SINTBAD

Mitophagy preserves overall mitochondrial fitness by selectively targeting damaged mitochondria for degradation. The regulatory mechanisms that prevent PINK1/Parkin-dependent mitophagy and other selective autophagy pathways from overreacting while ensuring swift progression once initiated are largely elusive. Here, we demonstrate how the TBK1 adaptors NAP1 and SINTBAD restrict the initiation of OPTN-driven mitophagy by competing with OPTN for TBK1. Conversely, they promote the progression of NDP52-driven mitophagy by recruiting TBK1 to NDP52 and stabilizing its interaction with FIP200. Notably, OPTN emerges as the primary recruiter of TBK1 during mitophagy initiation, which in return boosts NDP52-mediated mitophagy. Our results thus define NAP1 and SINTBAD as cargo receptor rheostats, elevating the threshold for mitophagy initiation by OPTN while promoting the progression of the pathway once set in motion by supporting NDP52. These findings shed light on the cellular strategy to prevent pathway hyperactivity while still ensuring efficient progression.

opencc-by-4.0Feb 2024View details →

zenodo36/100

Impact of Type II LRRK2 inhibitors on signalling and mitophagy

Abstract Much effort has been devoted to the development of selective inhibitors of the LRRK2 as a potential treatment for LRRK2 driven Parkinson's disease. In this study we first compare the properties of Type I (GSK3357679A and MLi-2) and Type II (Ponatinib and GZD-824, Rebastinib and Ponatinib) kinase inhibitors that bind to the closed or open conformations of the LRRK2 kinase domain, respectively. We show that Type I and Type II inhibitors suppress phosphorylation of Rab10 and Rab12, key physiological substrates of LRRK2 and also promote mitophagy, a process suppressed by LRRK2. Type II inhibitors also display higher potency towards wild type LRRK2 compared to pathogenic mutants. Unexpectedly, we find that Type II inhibitors, in contrast to Type I compounds, fail to induce dephosphorylation of a set of well-studied LRRK2 biomarker phosphorylation sites at the N-terminal region of LRRK2, including Ser935. These findings emphasize that the biomarker phosphorylation sites on LRRK2 are likely reporting on the open- vs closed conformation of LRRK2 kinase and that only inhibitors which stabilize the closed conformation induce dephosphorylation of these biomarker sites. Finally, we demonstrate that the LRRK2[A2016T] mutant which is resistant to MLi-2 Type 1 inhibitor, also induces resistance to GZD-824 and Rebastinib suggestings this mutation could be exploited to distinguish off target effects of Type II inhibitors. Our observations provide a framework of knowledge to aide with the development of more selective Type II LRRK2 inhibitors. FILE DESCRIPTIONS The blots shown in the Figures were developed using the two fluorescent channels available in LI-COR (800 nM, green – 700 nM, red). Different contrasts of the same membranes have been uploaded. Figure 2           Figure_2A-quantitations.xls: raw data for charts in Figure 2A Figure_2A_700_1-LRRK2_Rab10_totals_GAPDH.png                                                 Top to bottom 1: total LRRK2 blot shown in Figure 2A 2: GPDH loading control for blots in Figure 2A and total Rab10 shown in Figure 2A. Antibodies for GAPDH and Rab10 were incubated together: GAPDH is detected below 37 kDa and total Rab10 below 25 kDa Figure_2A_700_2-Rab12_total.png Total Rab12 shown in Figure 2A Figure_2A_700_3-tubulin.png Top to bottom 3: alpha-tubulin loading control for blots in Figure 2A Figure_2A_800_1-LRRK2pS935_Rab10pT73.png Top to bottom 1: LRRK2 pSer935 blot shown in Figure 2A 2: Rab10 pThr73 blot shown in Figure 2A Figure_2A_800_2-Rab12pS105.png Phospho-Rab12 pSer105 shown in Figure 2A Figure_2B-quantitations.xls: raw data for charts in Figure 2B Figure_2B_700_1-LRRK2_Rab10_totals_GAPDH_tubulin.png Top to bottom 1: total LRRK2 blot shown in Figure 2B 2: GPDH loading control for blots in Figure 2B and total Rab10 shown in Figure 2B. Antibodies for GAPDH and Rab10 were incubated together: GAPDH is detected below 37 kDa and total Rab10 below 25 kDa 3: alpha-tubulin loading control for blots in Figure 2B Figure_2B_700_2-Rab12_total.png Total Rab12 shown in Figure 2B Figure-2B_800_1-LRRK2pS935_Rab10pT73.png Top to bottom 1: LRRK2 pSer935 blot shown in Figure 2B 2: Rab10 pThr73 blot shown in Figure 2B Figure-2B_800_2-Rab12pS105.png Phospho-Rab12 pSer105 shown in Figure 2B Figure_2C-quantitations: raw data for charts in Figure 2C Figure_2C_700_1-LRRK2_Rab10_totals_GAPDH.png Top to bottom 1: total LRRK2 blot shown in Figure 2C 2: GPDH loading control for blots in Figure 2C and total Rab10 shown in Figure 2C. Antibodies for GAPDH and Rab10 were incubated together: GAPDH is detected below 37 kDa and total Rab10 below 25 kDa 3: alpha-tubulin loading control for blots in Figure 2C – higher contrast of Figure-2C 700-3-alpha_tubulin – low contrast) Figure_2C_700_2-Rab12_total.png Total Rab12 shown in Figure 2C Figure_2C_700_3-tubulin.png Top to bottom 1-2: lower contrast of Figure-2C 680-1 LRRK2_Rab10_totals_GAPDH 3: alpha-tubulin loading control for blots in Figure 2C Figure_2C_800_1-LRRK2pS935_Rab10pT73.png Top to bottom 1: LRRK2 pSer935 blot shown in Figure 2C 2: Rab10 pThr73 blot shown in Figure 2C Figure_2C_800_2-Rab12pS105.png Phospho-Rab12 pSer105 shown in Figure 2C Figure_2D-quantitations.xls: raw data for charts in Figure 2D Figure_2D_700_1-LRRK2_total_tubulin.png Top to bottom 1: total LRRK2 blot shown in Figure 2D 2: lower contrast of total Rab10 blot show in Figure 2D 3: alpha-tubulin loading control for blots in Figure 2D Figure_2D_700_2-Rab10_total_1.png Top to bottom 1-3: higher contrast of Figure_2D_700_1-LRRK2_total_tubulin 2: total Rab10 blot show in Figure 2D Figure_2D_700_3-Rab12_total_1.png Total Rab12 shown in Figure 2C Figure_2D_700_4-Rab12_total_2.png Total Rab12 shown in Figure 2C, membrane incubated with the total Rab12 rabbit antibody from Proteintech Figure_2D_800_1_LRRK2pS935.png LRRK2 pSer935 blot shown in Figure 2D Figure_2D_800_2_Rab10pT73.png Rab10 pThr73 blot shown in Figure 2D Figure_2D_800_3_Rab10_total_2.png Total Rab10 shown in Figure 2D, membrane incubated with the rabbit anti-total Rab10 antibody from Abcam Figure_2D_800_4-Rab12pS105.png Phospho-Rab12 pSer105 shown in Figure 2D Figure 3 Figure_3_700_1-LRRK2_Rab10_totals_GAPDH.png Top to bottom 1: total LRRK2 blot shown in Figure 3. This total was multiplex with anti LRRK2 phospho-Ser935 antibody. 2: GPDH loading control for blots in Figure 3 and total Rab10 shown in Figure 3. Antibodies for GAPDH and Rab10 were incubated together: GAPDH is detected below 37 kDa and total Rab10 below 25 kDa. Figure_3_700_2-Rab10_total_2.png Total Rab10 shown in Figure 3, membrane incubated with the rabbit anti-total Rab10 antibody from Abcam. Figure_3_700_3-LRRK2_total_for_LRRK2pS910.png Total LRRK2 blot, not shown in the paper, multiplexed with the anti LRRK2 phospho-Ser910 antibody shown in Figure 3 Figure_3_700_4-LRRK2_totals_for_LRRK2pS955_pS973.png Total LRRK2 blots, not shown in the paper, multiplexed with the anti LRRK2 phospho-Ser955 and phospho-Ser973 antibodies shown in Figure 3 Figure_3_800_1-LRRK2pS935.png Top to bottom 1: LRRK2 pSer935 blot shown in Figure 3 2: lower contrast of Rab10 pThr73 blot shown in Figure 3 Figure_3_800_2-Rab10pT73.png Top to bottom 1: higher contrast of LRRK2 pSer935 blot shown in Figure 3 2: Rab10 pThr73 blot shown in Figure 3 Figure_3_800_3-LRRK2pS910.png LRRK2 pSer910 blot shown in Figure 3 Figure_3_800_4-LRRK2pS955.png LRRK2 pSer955 blot shown in Figure 3 Figure_3_800_5-LRRK2pS973.png LRRK2 pSer973 blot shown in Figure 3 Figure_3-quantitations.xls: raw data for charts in Figure 3 Figure 4 Figure_4A_4B_700_1-LRRK2_Rab10_totals_tubulin.png Top to bottom 1: total LRRK2 blot shown in Figure 4A 2: total Rab10 shown in Figure 4A 3: alpha-tubulin loading control for blots in Figure 4A 4: total LRRK2 blot shown in Figure 4B 5: total Rab10 shown in Figure 4B 6: alpha-tubulin loading control for blots in Figure 4B Figure_4A_4B_800_1-LRRK2pS935_Rab10pT73.png Top to bottom 1: LRRK2 pSer935 blot shown in Figure 4A 2: Rab10 pThr73 blot shown in Figure 4A 4: LRRK2 pSer935 blot shown in Figure 4B 5: Rab10 pThr73 blot shown in Figure 4B Figure_4A_4B-quantitations.xls: raw data for charts in Figure 4A_4B Figure_4C_700_1-LRRK2_Rab10_totals_GAPDH_tubulin.png Top to bottom 1: total LRRK2 blot shown in Figure 4C. This total was multiplex with anti LRRK2 phospho-Ser935 antibody. 2: GPDH loading control for blots in Figure 4C and total Rab10 shown in Figure 4C. Antibodies for GAPDH and Rab10 were incubated together: GAPDH is detected below 37 kDa and total Rab10 below 25 kDa Figure_4C_800_1-LRRK2pS935_Rab10pT73.png Top to bottom 1: LRRK2 pSer935 blot shown in Figure 4C 2: higher contrast of Rab10 pThr73 blot shown in Figure 4C Figure_4C_800_2-LRRK2pS935_Rab10pT73.png Top to bottom 1: lower contrast of LRRK2 pSer935 blot shown in Figure 4C 2: Rab10 pThr73 blot shown in Figure 4C Figure_4C-quantitations.xls: raw data for charts in Figure 4C Figure_4D-quantitations.xls: raw data for charts in Figure 4D Figure_4D_700_1-LRRK2_total_tubulin.png Top to bottom 1: total LRRK2 blot shown in Figure 4D 2: lower contrast of GAPDH and total Rab10 blot show in Figure 4D 3: alpha-tubulin loading control for blots in Figure 4D Figure_4D_700_2-Rab10_total_GAPDH.png     Top to bottom 1: higher contrast of total LRRK2 blot shown in Figure 4D 2: GAPDH loading control for blots in Figure 4D and total Rab10 blot show in Figure 4D 3: higher contrast of alpha-tubulin loading control for blots in Figure 4D Figure_4D_800_1-LRRK2pS935.png 1: LRRK2 pSer935 blot shown in Figure 4D 2: higher contrast of Rab10 pThr73 blot shown in Figure 4D Figure_4D_800_2-Rab10pT73.png 1: lower contrast of LRRK2 pSer935 blot shown in Figure 4D 2: Rab10 pThr73 blot shown in Figure 4D Figure 5 Figure_5A-quantitations.xls: raw data for charts in Figure 5A Figure_5A_700_1-LRRK2_total.png Top to bottom 1: total LRRK2 blot shown in Figure 5A 2: higher contrast of total Rab10 blot show in Figure 5A 3: higher contrast of alpha-tubulin loading control for blots in Figure 5A Figure_5A_700_2-Rab10_total.png Top to bottom 1: lower contrast of total LRRK2 blot shown in Figure 5A 2: total Rab10 blot show in Figure 5A 3: higher contrast of alpha-tubulin loading control for blots in Figure 5A Figure_5A_700_3-tubulin.png Top to bottom 1: lower contrast of total LRRK2 blot shown in Figure 5A 2: lower contrast of total Rab10 blot show in Figure 5A 3: alpha-tubulin loading control for blots in Figure 5A Figure_5A_800_1-LRRK2pS935.png Top to bottom 1: LRRK2 pSer935 blot shown in Figure 5A 2: higher contrast of Rab10 pThr73 blot shown in Figure 5A Figure_5A_800_2-Rab10pT73.png Top to bottom 1: lower contrast of LRRK2 pSer935 blot shown in Figure 5A 2: Rab10 pThr73 blot shown in Figure 5A Figure_5B_700_1-LRRK2_total.png Top to bottom 1: total LRRK2 blot shown in Figure 5B 2: higher contrast of total Rab10 blot show in Figure 5B 3: higher contrast of alpha-tubulin loading control for blots in Figure 5B Figure_5B_700_2-Rab10_total.png Top to bottom 1: lower contrast of total LRRK2 blot shown in Figure 5B 2: total Rab10 blot show in Figure 5B 3: higher contrast of alpha-tubulin loading control for blots in Figure 5B Figure_5B_700_3-tubulin.png Top to bottom 1: lower contrast of total LRRK2 blot shown in Figure 5B 2: lower contrast of total Rab10 blot show in Figure 5B 3: alpha-tubulin loading control for blots in Figure 5B Figure_5B_800_1-LRRK2pS935.png Top to bottom 1: LRRK2 pSer935 blot shown in Figure 5B 2: higher contrast of Rab10 pThr73 blot shown in Figure 5B Figure_5B_800_2-Rab10pT73.png Top to bottom 1: lower contrast of LRRK2 pSer935 blot shown in Figure 5B 2: Rab10 pThr73 blot shown in Figure 5B Figure_5B-quantitations.xls: raw data for charts in Figure 5B Figure 6 Figure_6A-quantitations.xls: raw data for charts in Figure 6A Figure-6A_700_1-LRRK2_Rab10_totals.png Top to bottom 1: total LRRK2 blot shown in Figure 6A 2: total Rab10 shown in Figure 6A 3: higher contrast of alpha-tubulin loading control for blots in Figure 6A Figure_6A_700_2-tubulin.png Top to bottom 1: lower contrast of total LRRK2 blot shown in Figure 6A 2: lower contrast of total Rab10 shown in Figure 6A 3: alpha-tubulin loading control for blots in Figure 6A Figure_6A_800_1-LRRK2pS935.png Top to bottom 1: LRRK2 pSer935 blot shown in Figure 6A 2: higher contrast of Rab10 pThr73 blot shown in Figure 6A Figure_6A_800_2-Rab10pT73.png Top to bottom 1: lower contrast of LRRK2 pSer935 blot shown in Figure 6A 2: Rab10 pThr73 blot shown in Figure 6A Figure_6B-quantitations.xls: raw data for charts in Figure 6B Figure_6B_700_1-LRRK2_Rab10_totals.png Top to bottom 1: total LRRK2 blot shown in Figure 6B 2: total Rab10 shown in Figure 6B 3: higher contrast of alpha-tubulin loading control for blots in Figure 6B Figure_6B_700_2-tubulin.png Top to bottom 1: lower contrast of total LRRK2 blot shown in Figure 6B 2: lower contrast of total Rab10 shown in Figure 6B 3: alpha-tubulin loading control for blots in Figure 6B Figure_6B_800_1-LRRK2pS935.png Top to bottom 1: LRRK2 pSer935 blot shown in Figure 6B 2: higher contrast of Rab10 pThr73 blot shown in Figure 6B Figure_6B_800_2-Rab10pT73.png Top to bottom 1: lower contrast of LRRK2 pSer935 blot shown in Figure 6B 2: Rab10 pThr73 blot shown in Figure 6B Figure_6C-quantitations.xls: raw data for charts in Figure 6C Figure_6C_700_1-LRRK2_Rab10_totals.png Top to bottom 1: total LRRK2 blot shown in Figure 6C 2: total Rab10 blot shown in Figure 6C 3: higher contrast of alpha-tubulin loading control for blots in Figure 6C Figure_6C_700_2-tubulin.png Top to bottom 1: lower contrast of total LRRK2 blot shown in Figure 6C 2: lower contrast of Rab10 shown in Figure 6C 3: alpha-tubulin loading control for blots in Figure 6C Figure_6C_800_1-LRRK2pS935.png Top to bottom 1: LRRK2 pSer935 blot shown in Figure 6C 2: higher contrast of Rab10 pThr73 blot shown in Figure 6C Figure_6C_800_2-Rab10pT73.png Top to bottom 1: lower contrast of LRRK2 pSer935 blot shown in Figure 6C 2: Rab10 pThr73 blot shown in Figure 6C Figure_6D-quantitations.xls: raw data for charts in Figure 6D Figure_6D_700_1-LRRK2_Rab10_totals.png Top to bottom 1: total LRRK2 blot shown in Figure 6D 2: total Rab10 blot shown in Figure 6D 3: higher contrast of alpha-tubulin loading control for blots in Figure 6D Figure_6D_700_2-tubulin.png Top to bottom 1: lower contrast of total LRRK2 blot shown in Figure 6D 2: lower contrast of total Rab10 shown in Figure 6D 3: alpha-tubulin loading control for blots in Figure 6D Figure_6D_800_1-LRRK2pS935.png Top to bottom 1: LRRK2 pSer935 blot shown in Figure 6D 2: higher contrast of Rab10 pThr73 blot shown in Figure 6D Figure_6D_800_2-Rab10pT73.png Top to bottom 1: lower contrast of LRRK2 pSer935 blot shown in Figure 6D 2: Rab10 pThr73 blot shown in Figure 6D Figure 7 Figure_7A-quantitations.xls: raw data for charts in Figure 7A Figure_7A_700_1_LRRK2_total_CoIp.png Immunoprecipitated total LRRK2 shown in Figure 7A Figure_7A_700_2_LRRK2_total_Lysates.png (Input for the CoIp) Top to bottom 1: total LRRK2 blot shown in Figure 7A 2: higher contrast of total Rab10 blot shown in Figure 7A 3: higher contrast of alpha-tubulin loading control for blots in Figure 7A Figure_7A_700_3_Rab10_total_tubulin_Lysates.png (Input for the CoIp) Top to bottom 1: lower contrast of total LRRK2 blot shown in Figure 7A 2: total Rab10 shown in Figure 7A 3: alpha-tubulin loading control for blots in Figure 7A Figure_7A_800_1_14-3-3_CoIp.png Blot of 14-3-3 co-immunoprecipitated with LRRK2 shown in Figure 7A Figure_7A_800_2_LRRK2pS935_CoIp.png Immunoprecipitated LRRK2pSer935 shown in Figure 7A Figure_7A_800_3_LRRK2pS935_Lysates.png Top to bottom 1: LRRK2 pSer935 blot shown in Figure 7A 2: higher contrast of Rab10 pThr73 blot shown in Figure 7A Figure_7A_800_4_Rab10pT73_Lysates.png Top to bottom 1: lower contrast of LRRK2 pSer935 blot shown in Figure 7A 2: Rab10 pThr73 blot shown in Figure 7A Figure_7A_800_5_14-3-3_Lysates.png 14-3-3 blot shown in Figure 7A (Input for the CoIp) Figure_7A_merge-700_800_LRRK2_total_LRRK2pS935.png Merged picture (in red LRRK2 total and in green LRRK2pS935) shown in Figure 7A Figure 7B: LSM710 laser scanning confocal microscope (Carl Zeiss) output files .lsm used to prepare Figure 7B Figure_7B_LRRK2_HA-empty_DMSO.lsm Figure_7B_LRRK2_HA-empty_GSK3357679A.lsm Figure_7B_LRRK2_HA-empty_GZD-824.lsm Figure_7B_LRRK2_HA-empty_MLi-2.lsm Figure_7B_LRRK2_Rab29_DMSO.lsm Figure_7B_LRRK2_ Rab29_GSK3357679A.lsm Figure_7B_LRRK2_ Rab29_GZD-824.lsm Figure_7B_LRRK2_ Rab29_MLi-2.lsm Figure_7C-quantitations.xls: raw data for charts in Figure 7C Top to bottom 1: LRRK2pSer1292 (800) 2: HA-Rab29 (700), Rab29 pThr71 (800) 3: alpha-tubulin (700) loading control for Figure 7C 4: LRRK2 total (700), LRRK2 pSer935 (800) 5: Rab10 total (700), Rab10 pThr73 (800) 6: alpha-tubulin (700) loading control for Figure 7C Figure_7C_700_1-HA-Rab29_LRRK2_total_tubulin.png: HA-Rab29, LRRK2 total and alpha-tubulin blot loading control shown in Figure 7C Figure_7C_700_2-Rab10_total.png: Rab10 total shown in Figure 7C Figure_7C_800_1-LRRK2pS1292_low_contrast_Rab10pT73.png: LRRK2 pSer1292 and Rab10 pThr73 blots shown in Figure 7C Figure_7C_800_2-LRRK2pS1292_high_contrast.png: LRRK2 pS1292 blot shown in Figure 7C Figure_7C_800_3-LRRK2pS935.png: LRRK2 pS935 blot shown in Figure 7C Figure_7C_800_4-Rab29pT71.png: Rab29 pThr71 blot shown in Figure 7C Figure 8: Nikon Eclipse Ti-S fluorescence microscope output files .nd2 used to prepare Figure 8 Figure_8-quantitations-Mitophagy.xls: raw data for charts in Figure 8 Figure_8_G2019S_CTL.nd2 Figure_8_G2019S_GSK3357679A_100nM.nd2 Figure_8_G2019S_GZD-824_30nM.nd2 Figure_8_KO_CTL.nd2 Figure_8_KO_GSK3357679A_100nM.nd2 Figure_8_KO_GZD-824_30nM.nd2 Figure_8_WT_CTL.nd2 Figure_8_WT_GSK3357679A_100nM.nd2 Figure_8_WT_GZD-824_30nM.nd2 Supplementary_Figure 1_Kinase_profiling_Kinase_list.xls: code for kinase screened in Supplementary Figures 1A, 1B, 1C, 1D. Each of the enzymes has been assigned to a 2 letter code and then an abbreviation. Supplementary_Figure 1A_Kinase_profiling_GZD-824.xls: raw data for the charts shown in Supplementary Figure 1A Supplementary_Figure 1B_Kinase_profiling_Rebastinib.xls: raw data for the chart shown in Supplementary Figure 1B Supplementary_Figure 1C_1D_Kinase_profiling_Ponatinib_ GSK3357679A.xls: raw data for the charts shown in Supplementary Figure 1C and 1D The first tab on each workbook shows the layout and the position of the inhibitor in the plates used for the screen and the final assay concentration. The inhibitors are in the same well positions throughout all the individual screen and raw data for each of the 140 kinase are reported in separated tabs. Underneath the plate layout of every kinase table is the mean for the control and blanks. Supplementary Figure 2 Supplementary_Figure_2-700_01-LRRK2_Rab10_totals_tubulin_GAPDH.png Top to bottom 1: total LRRK2 blot shown in Supplementary Figure 2 2: total Rab10 and GPDH loading control for blots shown in Supplementary Figure 2. Antibodies for GAPDH and Rab10 were incubated together: GAPDH is detected below 37 kDa and total Rab10 below 25 kDa. 3: alpha-tubulin loading control for blots in Supplementary Figure 2 Supplementary_Figure_2-800_01-LRRK2pS935_Rab10pT73.png Top to bottom 1: LRRK2 pSer935 blot shown in Supplementary Figure 2 2: Rab10 pThr73 blot shown in Supplementary Figure 2 Supplementary_Figure_2-800_02- Rab10pT73_total_Abcam.png Total Rab10 shown in Supplementary Figure 2, membrane incubated with the rabbit anti-total Rab10 antibody from Abcam Supplementary_Figure_2-quantitations.xls: raw data for charts in Supplementary Figure 2 Table 1 Table-1_01_Ponatinib_GZD-824.xls: raw data for the IC50 values in Table 1 Table-1_02_GSK3357679A_MLi-2.xls: raw data for the IC50 values in Table 1 Table-1_03_Rebastinib.xls: raw data for the IC50 values in Table 1

opencc-by-4.0Sep 2021View details →

zenodo36/100

PARK15/FBXO7 is dispensable for PINK1/Parkin mitophagy in iNeurons and HeLa cell systems

The protein kinase PINK1 and ubiquitin ligase Parkin promote removal of damaged mitochondria via a feed-forward mechanism involving ubiquitin (Ub) phosphorylation, Parkin activation, and ubiquitylation of mitochondrial outer membrane proteins to support recruitment of mitophagy receptors. The ubiquitin ligase substrate receptor FBXO7/PARK15 is mutated in an early-onset parkinsonian-pyramidal syndrome. Previous studies have proposed a role for FBXO7 in promoting Parkin-dependent mitophagy. Here, we systematically examine the involvement of FBXO7 in depolarization-dependent mitophagy in the well-established HeLa and induced-neurons cell systems. We find that FBXO7-/- cells have no demonstrable defect in: 1) kinetics of pUb accumulation, 2) pUb puncta on mitochondria by super-resolution imaging, 3) recruitment of Parkin and autophagy machinery to damaged mitochondria, 4) mitophagic flux, and 5) mitochondrial clearance as quantified by global proteomics. Moreover, global proteomics of neurogenesis in the absence of FBXO7 reveals no obvious alterations in mitochondria or other organelles. These results argue against a general role for FBXO7 in Parkin-dependent mitophagy and point to the need for additional studies to define how FBXO7 mutations promote parkinsonian-pyramidal syndrome.

opencc-by-4.0Oct 2022View details →

zenodo32/100

Figure 1: Rubicon KO Starvation and Mitophagy HaloTag processing assay [FINAL]

Open the record for dataset details and reuse information.

opencc-by-4.0Oct 2023View details →

ClinicalTrials.gov32/100

Role of Mitophagy in Myeloid Cells During Coronary Atherosclerosis.

ClinicalTrials.gov study NCT05708547. IPD Sharing: Not stated. Countries: 1. Publications: 0.

restrictedIPD-UNDECIDEDFeb 2026View details →

zenodo28/100

Baicalein Activates Parkin-Dependent Mitophagy through NDP52 and OPTN

These supplemental videos are only for reviewing processing in the manuscript submitted to Cells

opencc-by-4.0Feb 2022View details →

geo24/100

Combined loss of obscurin and obscurin-like 1 in murine hearts results in diastolic dysfunction, altered metabolism and deregulated mitophagy.

GEO Series GSE283745. Mus musculus. 12 samples. Type: Expression profiling by high throughput sequencing.

openGEO-OpenFeb 2025View details →

geo24/100

Urolithin A rewires inter-organellar communication via calcium signaling to promote mitophagy and longevity

GEO Series GSE279559. Caenorhabditis elegans. 8 samples. Type: Expression profiling by high throughput sequencing.

openGEO-OpenJan 2026View details →

geo24/100

Mitophagy promotes resistance to BH3 mimetics in acute myeloid leukemia

GEO Series GSE182401. Homo sapiens. 7 samples. Type: Expression profiling by high throughput sequencing.

openGEO-OpenJul 2023View details →

geo24/100

Mitochondrial GpC and CpG DNA hypermethylation cause metabolic stress induced mitophagy and cholestophagy [RNA-seq]

GEO Series GSE241526. Homo sapiens. 23 samples. Type: Expression profiling by high throughput sequencing.

openGEO-OpenDec 2023View details →

geo24/100

The short-chain dehydrogenases/reductase DHRS13 suppresses differentiation and mitophagy in glioma cells by modulating retinoic acid signaling and mitochondrial ROS

GEO Series GSE271448. Homo sapiens. 6 samples. Type: Expression profiling by high throughput sequencing.

openGEO-OpenAug 2024View details →

geo24/100

Mesenchymal stem cells use extracellular vesicles to outsource mitophagy and shuttle micro RNAs

GEO Series GSE71241. Homo sapiens. 18 samples. Type: Non-coding RNA profiling by array.

openGEO-OpenAug 2015View details →

geo24/100

Defective Mitophagy in XPA via PARP1 activation and NAD+/SIRT1-depletion: Implications for neurodegeneration (human)

GEO Series GSE55484. Homo sapiens. 16 samples. Type: Expression profiling by array.

openGEO-OpenJun 2015View details →

geo24/100

Parkin-mediated mitophagy evokes perinatal cardiac mitochondria maturation

GEO Series GSE68921. Mus musculus. 63 samples. Type: Expression profiling by high throughput sequencing.

openGEO-OpenDec 2015View details →

geo24/100

Mitophagy ameliorates Aβ and p-Tau pathologies, and cognitive deficits, in experimental models of Alzheimer’s disease

GEO Series GSE111737. Mus musculus. 19 samples. Type: Expression profiling by array.

openGEO-OpenNov 2018View details →

geo24/100

Regulatory circuits of mitophagy restricts cell death for mounting memory CD8+ T cell formation

GEO Series GSE223004. Mus musculus. 10 samples. Type: Expression profiling by high throughput sequencing.

openGEO-OpenMay 2025View details →

geo24/100

A unified mechanism for mitochondrial damage sensing in PINK1-Parkin-mediated mitophagy

GEO Series GSE298056. Homo sapiens. 24 samples. Type: Other.

openGEO-OpenAug 2025View details →

geo24/100

NAD+ supplementation counteracts senescence mediated by STING in Ataxia Telangiectasia models by improving mitophagy (Mouse)

GEO Series GSE152286. Mus musculus. 16 samples. Type: Expression profiling by array.

openGEO-OpenMay 2021View details →

geo24/100

Tomatidine enhances lifespan and healthspan in C. elegans through mitophagy induction via the SKN-1/Nrf2 pathway.

GEO Series GSE85237. Caenorhabditis elegans. 7 samples. Type: Expression profiling by array.

openGEO-OpenAug 2017View details →

geo24/100

DNA damage invokes mitophagy through a pathway involving Spata18

GEO Series GSE150273. Mus musculus. 40 samples. Type: Expression profiling by array.

openGEO-OpenMay 2020View details →

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Allen Brain Atlas

Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.

allen-brain-atlas

neuroscienceopenDocumentation, web resources, and API references are available online.

Last verified 2026-04-30Open record

Annotated Behaviour and Observability Dataset (ABODe)

ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.

abode-home-cage

behavioral-neuroscienceopenThe DataShare record exposes download links for annotations, documentation, license text, and the zipped per-snippet data directory.

Last verified 2026-04-30Open record

DANDI Archive for NWB datasets

DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.

dandi-nwb

electrophysiologyopenPublished Dandiset metadata and archive endpoints are available through the production DANDI API.

Last verified 2026-04-30Open record

International Brain Laboratory public data

The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.

ibl

behavioral-neuroscienceopenPublic sessions can be searched and loaded from the IBL public data server through ONE.

Last verified 2026-04-29Open record

OpenNeuro

OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.

openneuro

neuroscienceopenPublished datasets are available on demand over the internet.

Last verified 2026-04-29Open record