EMBO/SourceData huggingface dataset:
Figure legend: "C Genetically recovered flies of Ir25a2 and Ir76b1 driven by their own GAL4 or Gr64f-GAL4 with the wild-type cDNA transgene. +/- indicate the presence or absence of the transgene, respectively, n = 10-15."
NCBI gene IDs:
"GAL4: 855828
Gr64f: 117477
Ir25a: 33683
Ir76b: 40198"
Figure legend: "D Genetically recovered flies of Gr5a, Gr61a, Gr64b, Gr64c, and Gr64e mutants driven by their own GAL4 or Gr64f-GAL4. +/- indicate the presence or absence of the transgene, respectively, n = 10-21."
NCBI gene IDs:
"GAL4: 855828
Gr5a: 44873
Gr61a: 38098
Gr64b: 117480
Gr64c: 117479
Gr64e: 3771916
Gr64f: 117477"
Figure legend: "D Behavioral rescue of Gr5a∆5, Gr61a1, Gr64bLEXA, Gr64cLEXA, and Gr64eLEXA deficits in the vitamin C attraction via the expression of the respective UAS transgenes under the control of their specific GAL4s or Gr64f-GAL4, n = 6-8."
NCBI gene IDs:
"GAL4s: 855828
GAL4: 855828
Gr5a: 44873
Gr61a: 38098
Gr64b: 117480
Gr64c: 117479
Gr64e: 3771916
Gr64f: 117477"
Figure legend: "Death rate plotted versus growth rate on a semi-log scale for experiments in 'osmo-balanced' medium. Colors indicate carbon limitation (C, 'blue', acetate and glycerol), anabolic limitation (A, 'green', 3µM IPTG), ribosome limitation (R, 'yellow', 4µM Chloramphenicol), rich medium (L, 'red', LB), LacZ overexpression (O, 'grey', 10ng/ml cTc), stationary phase (S, 'white') and the glucose reference condition ('black'), as defined in Fig. 1A. The data shows weak anti-correlation with growth rate; solid black line is an exponential fit to the data (R2 = 0.34). Dashed lines are the exponential fits to the CARLOS data in Fig. 1A."
NCBI gene IDs:
"LacZ: "
Figure legend: "H NF2 and WWC2 interact with LATS1 as indicated by BioID labeling. HEK293A cells stably expressing BirA-NF2, WWC2, MOB1A, or SAV1 were labeled with biotin overnight, and endogenous kinases were immunoprecipitated and subjected to immunoblotting using Streptavidin-HRP. No biotinylation of MAP4K4 was detected."
NCBI gene IDs:
"BirA: 948469
MOB1A: 55233
NF2: 4771
SAV1: 60485
WWC2: 80014"
Figure legend: "B-D NF2 is required for the activation of LATS1/2 by RAP2A. WT and NF2 KO HEK293A cells were transfected with or without HA-RAP2A. Immunoprecipitated LATS1 (B), MAP4K4 (C) or MST1(D) was then subjected to in vitro kinase assays."
NCBI gene IDs:
"HA: 
NF2: 4771
RAP2A: 5911"
Figure legend: "E, F NF2 is required for the activation of LATS1/2 by MAP4K kinases. MST1/2 dKO or MST1/2;NF2 3KO cells were transfected with siRNAs against STRIP1/2. Immunoprecipitated MAP4K4 (E) or LATS1 (F) was then subjected to in vitro kinase assays."
NCBI gene IDs:
"MST1: 4485
NF2: 4771
STRIP1: 85369"
Figure legend: "B Concurrent deletion of Nf2 and Wwc1/2 at developmental stage driven by Alb-Cre results in liver dysfunction and perinatal death. Gross liver images, H&amp;E, IHC, and IF images of 3-day-old livers from WT and Nf2;Wwc1/2 compound KO mice were shown. Scale bars: 1 cm (gross liver image), 50 μm (H&amp;E and IHC), 20 μm (IF)."
NCBI gene IDs:
"Alb: 11657
Cre: 2777477
Nf2: 18016
Wwc1: 211652"
Figure legend: "E, F Activities of Hippo pathway kinases in Nf2;Wwc1/2 deficient livers. LATS1, MST2, and MAP4K4 were immunoprecipitated from control or Nf2F/F;Wwc1F/F;Wwc2F/F (Ad-Cre) mouse livers (4 each), and kinase assays were performed (E) and quantified (F). Four biological replicates were shown in F, error bars indicate SEM."
NCBI gene IDs:
"Ad: 104253
Cre: 2777477
Nf2: 18016
Wwc1: 211652
Wwc2: 52357"
Figure legend: "Phenotypes of 1-week-old livers with HPO1 and/or HPO2 gene deletions. liver/body weight ratio (B) of WT, Nf2-/-, Sav1-/-, Wwc1-/-;Wwc2-/-, Mst1-/-;Mst2Δ/Δ and compound KO mice. Scale bar in A: 1cm. Each data point in B stands for one mouse, data shown are mean + SEM."
NCBI gene IDs:
"Mst1: 15235
Nf2: 18016
Sav1: 64010
Mst2: 56274
Wwc1: 211652
Wwc2: 52357"
Figure legend: "C HPO1 and HPO2 inactivation results in rapid iCCA. H&amp;E and CK19 staining for Nf2-/- (8-month-old), Nf2-/-;Sav1-/- (1-week-old) and Nf2-/-;Wwc1-/-;Wwc2+/- (1-week-old) livers. Nf2-/- liver displayed bile duct hyperplasia at 8 months, while Nf2-/-;Sav1-/- and Nf2-/-;Wwc1-/-;Wwc2+/- livers at 1 week exhibited massive expansion of cholangiocytes with enlarged nuclei, irregular shape, and invasive behaviors. Nf2-/-;Sav1-/- also exhibited cholestasis, as indicated by asterisk. Scale bar: 20 μm (H&amp;E and IHC)."
NCBI gene IDs:
"Nf2: 18016
Sav1: 64010
Wwc1: 211652
Wwc2: 52357"
Figure legend: "A Measurement of urinary albumin/creatinine by ELISA (albumin-to-creatinine ratio: day 14: Phb2fl/fl 0.09 ± 0.03 mg/mg, n = 4, versus Phb2pko 0.37 ± 0.21 mg/mg, n = 4, P = 0.2350; day 21: Phb2fl/fl 0.65 ± 0.16 mg/mg, n = 4, versus Phb2pko 193.10 ± 26.81 mg/mg, n = 4, ***P = 0.003; day 28: Phb2fl/fl 0.57 ± 0.07 mg/mg, n = 4, versus Phb2pko 470.40 ± 131.30 mg/mg, n = 4, *P = 0.0117)."
NCBI gene IDs:
"Phb2: 12034"
Figure legend: "B Appearance of Phb2fl/fl and Phb2pko mice at day 28."
NCBI gene IDs:
"Phb2: 12034"
Figure legend: "C Analysis of body weight from postnatal day 14 until day 32 (P-values for Phb2fl/fl or Phb2het versus Phb2pko: *P = 0.0372 at day 27, *P = 0.0311 at day 28, *P = 0.0157 at day 29, **P = 0.008 at day 30, **P = 0.0013 at day 31, **P = 0.0035 at day 32, n = 3 for Phb2fl/fl and n = 4 for Phb2het and Phb2pko)."
NCBI gene IDs:
"Phb2: 12034"
Figure legend: "D Measurement of serum creatinine levels of mice in their fifth week of life (Phb2fl/fl/het 14.74 ± 3.75 μmol/l versus Phb2pko 74.73 ± 2.20 μmol/l, n = 3 for both groups; ***P = 0.0002)."
NCBI gene IDs:
"Phb2: 12034"
Figure legend: "E Measurement of serum urea levels of mice in their fifth week of life (Phb2fl/fl/het 44.00 ± 7.02 mg/dl versus Phb2pko 493.70 ± 45.34 mg/dl, n = 3 for both groups; ***P = 0.006)."
NCBI gene IDs:
"Phb2: 12034"
Figure legend: "F Kaplan-Meier survival curve (n = 5 for Phb2fl/fl/het and n = 6 for Phb2pko)."
NCBI gene IDs:
"Phb2: 12034"
Figure legend: "Phb2pko mice develop glomerulosclerosisA PAS staining of kidney sections (scale bar: 20 μm).B Immunohistochemistry for podocin on kidney sections (scale bar: 20 μm).C Analysis of podocyte foot processes in electron micrographs (scale bar: 0.7 μm). FP, podocyte foot processes; GBM, glomerular basement membrane; EC, endothelial cells.D Analysis of mitochondrial morphology in electron micrographs (arrows; scale bar: 0.3 μm).E High-power view of mitochondria in electron micrographs (scale bar: 0.1 μm)."
NCBI gene IDs:
"Phb2: 12034"
Figure legend: "A PAS staining of tPod-Phb2pko and control mice 2.5 weeks after the end of tamoxifen treatment (scale bar: 20 μm).B Immunohistochemistry for podocin on kidney sections of tPod-Phb2pko and control mice 2.5 weeks after the end of tamoxifen treatment (scale bar: 20 μm)."
NCBI gene IDs:
"Pod: 170484
Phb2: 12034"
Figure legend: "C Coomassie stain of urinary samples of tPod-Phb2pko and control mice."
NCBI gene IDs:
"Pod: 170484
Phb2: 12034"
Figure legend: "A Kaplan-Meier survival curve showed that an additional knockout of the insulin receptor (Insr) prolonged survival of Phb2pko mice (n = 7 for Phb2pko/Insrpko, n = 4 for Phb2pko/Insrhet, and n = 6 for Phb2pko)."
NCBI gene IDs:
"Insr: 16337
Phb2: 12034"
Figure legend: "B Kaplan-Meier survival curve revealed that the survival time of Phb2pko mice is not changed by an additional Igf1r deficiency (n = 6 for Phb2pko/Igf1rpko, n = 4 for Phb2pko/Igf1rhet, and n = 6 for Phb2pko)."
NCBI gene IDs:
"Igf1r: 16001
Phb2: 12034"
Figure legend: "C Statistical analysis comparing all genotypes with Phb2pko mice."
NCBI gene IDs:
"Phb2: 12034"
Figure legend: "D Kaplan-Meier survival curve revealed prolonged survival of Phb2pko/Insrpko/Igf1rpko and Phb2pko/Insrpko/Igf1rhet mice (n = 19 for Phb2pko/Insrpko/Igf1rpko, n = 9 for Phb2pko/Insrhet/Igf1rpko, n = 11 for Phb2pko/Insrpko/Igf1rhet, n = 9 for Phb2pko/Insrhet/Igf1rhet, and n = 6 for Phb2pko).E Statistical analysis comparing all genotypes with Phb2pko mice."
NCBI gene IDs:
"Igf1r: 16001
Insr: 16337
Phb2: 12034"
Figure legend: "A Serum creatinine and urea levels in the fifth week of life (left graph: Phb2pko 74.73 ± 2.20 μmol/l versus Phb2pko/Insrpko/Igf1rpko 37.36 ± 8.83 μmol/l, n = 3 for Phb2pko and n = 4 for Phb2pko/Insrpko/Igf1rpko, *P = 0.0169; right graph: Phb2pko 493.70 ± 45.34 mg/dl versus Phb2pko/Insrpko/Igf1rpko 272.80 ± 49.29 mg/dl, n = 3 for Phb2pko and n = 4 for Phb2pko/Insrpko/Igf1rpko, *P = 0.0247)."
NCBI gene IDs:
"Igf1r: 16001
Insr: 16337
Phb2: 12034"
Figure legend: "B Abundance of deleted Phb2 gene in isolated glomeruli of Phb2fl/fl, Phb2het, Phb2pko and Phb2pko/Insrpko/Igf1rpko mice compared to the floxed Phb2 gene (left graph; quantified by qPCR: n = 3 for all groups, P = 0.83 for Phb2pko/Insrpko/Igf1rpko versus Phb2pko) and compared to a reference gene (right graph; quantified by qPCR: n = 3 for all groups, P = 0.58 for Phb2pko/Insrpko/Igf1rpko versus Phb2pko)."
NCBI gene IDs:
"Igf1r: 16001
Insr: 16337
Phb2: 12034"
Figure legend: "A Immunofluorescence staining of mPhb2 shRNA and control podocytes with a Tom20 antibody revealed a disturbed mitochondrial network in Phb2-deficient podocytes (scale bar: 10 μm).B Quantification of tubular and fragmented mitochondrial morphology mPhb2 shRNA versus control podocytes seen in (A) (mitochondrial network of n = 100 individual cells of mPhb2 shRNA podocytes and n = 108 individual cells of scrambled shRNA podocytes was assessed).C Morphometric image analysis revealed an increased ratio of mitochondrial count versus mitochondrial area in Phb2-deficient podocytes compared to control podocytes (n = 75 cell patches for scrambled shRNA, n = 58 cell patches for mPhb2 shRNA).D Morphometric image analysis showed a decrease in branch numbers in Phb2-deficient podocytes compared to control podocytes (n = 75 cell patches for scrambled shRNA, n = 58 cell patches for mPhb2 shRNA).E Morphometric image analysis detected a decrease in mitochondrial size in Phb2-deficient podocytes compared to control podocytes (n = 75 cell patches for scrambled shRNA, n = 58 cell patches for mPhb2 shRNA)."
NCBI gene IDs:
"Phb2: 12034"
Figure legend: "F Measurements of mitochondrial respiration with complex II substrates (succinate and glycerol-3-phosphate) did not show significant differences between Phb2-deficient and control podocytes (n = 6)."
NCBI gene IDs:
"Phb2: 12034"
Figure legend: "G Quantification of mtDNA as a measure for mitochondrial mass showed similar levels of mtDNA in Phb2-deficient podocytes compared to control podocytes (n = 3)."
NCBI gene IDs:
"Phb2: 12034"
Figure legend: "H FACS analysis of MitoTracker- and MitoSOX-stained Phb2-deficient podocytes and control podocytes.I Quantification of mean fluorescence intensity of MitoTracker and MitoSOX by FACS analysis revealed the same mitochondrial mass and the same ROS levels in Phb2-deficient podocytes compared to control podocytes (n = 3, P = 0.7782 for MitoTracker, P = 0.1088 for MitoSOX)."
NCBI gene IDs:
"Phb2: 12034"
Figure legend: "A Phb2-deficient mouse podocytes showed higher levels of phosphorylated S6 ribosomal protein than control podocytes, which could be blocked by treatment with rapamycin (n = 5, bars represent mean ± SEM, Student's t-test, **P = 0.0036). pS6RP, phosphorylated S6 ribosomal protein; S6RP, S6 ribosomal protein."
NCBI gene IDs:
"Phb2: 12034"
Figure legend: "B Immunohistochemistry for phosphorylated S6 ribosomal protein (pS6RP) on kidney sections revealed increased levels of pS6RP in glomeruli of Phb2pko compared to Phb2fl/fl mice (arrows point to cells showing a signal for pS6RP; scale bar: 20 μm)."
NCBI gene IDs:
"Phb2: 12034"
Figure legend: "C Kaplan-Meier survival curve revealed that treatment of Phb2pko mice with rapamycin prolonged survival for several days compared to vehicle-treated Phb2pko mice (n = 11 for Phb2fl/fl + rapamycin, n = 15 for Phb2pko + vehicle, n = 16 for Phb2pko + rapamycin).D Statistical analysis comparing rapamycin-treated Phb2pko mice with vehicle-treated Phb2pko mice."
NCBI gene IDs:
"Phb2: 12034"
Figure legend: "WT or MARCO-/- C57BL/6 mice were inoculated s.c. in the left rear footpad with 103 PFU of CHIKV. (E) Viral tissue burdens were analyzed at 1 day post inoculation (dpi) by FFA. Mean ± SEM."
NCBI gene IDs:
"MARCO: 17167"
Figure legend: "WT or MARCO-/- C57BL/6 mice were inoculated s.c. in the left rear footpad with 103 PFU of ONNV (F) Tissues and serum were collected at 1 dpi and analyzed by plaque assay."
NCBI gene IDs:
"MARCO: 17167"
Figure legend: "WT or MARCO-/- C57BL/6 mice were inoculated s.c. in the left rear footpad with 103 PFU of RRV (G). Tissues and serum were collected at 1 dpi and analyzed by plaque assay."
NCBI gene IDs:
"MARCO: 17167"
Figure legend: "(B) WT or MARCO-/- C57BL/6 mice were inoculated s.c. in the left rear footpad with 108 particles of WT CHIKV or CHIKV E2 K200R. Viral genomes in the dLN and serum at 2 hpi were quantified by RT-qPCR. Mean ± SD. Data are pooled from two experiments, n=10. Two-way ANOVA with Bonferroni's multiple comparisons test; ***P &lt; 0.001, ****P &lt; 0.0001."
NCBI gene IDs:
"E2: 
MARCO: 17167"
Figure legend: "(C) WT or MARCO-/- C57BL/6 mice were inoculated s.c. in the left rear footpad with 108 particles of RRV. Viral genomes in the dLN and serum were quantified by RT-qPCR. Mean ± SD. Data are pooled from two experiments, n=8-9. Mann-Whitney test; ***P &lt; 0.001, ****P &lt; 0.0001."
NCBI gene IDs:
"MARCO: 17167"
Figure legend: "WT or MARCO-/- C57BL/6 mice were inoculated s.c. in the rear feet with 5*104 PFU of CHIKV-E2-mCherry and the popliteal dLNs were collected at 2 hpi. (A) Frozen dLN sections were stained for Lyve-1+ LECs (white), MARCO (green), B220 (blue) and mCherry+ CHIKV particles (red). Scale bars: 200 μm. "
NCBI gene IDs:
"MARCO: 17167"
Figure legend: "B, C Kinetic change of mRNA expression  of Top1, Btbd1, Tdp1, and Srsf1  in microglia  following LPS/IFNγ  stimulation (n = 6, technical replicates). Data information: Data are presented as the mean ± s.e.m. *P &lt; 0.05; **P &lt; 0.01; ***P &lt; 0.001; Statistical analyses were performed using two-way ANOVA with Dunnett's Multiple Comparison test for (B and C),"
NCBI gene IDs:
"Btbd1: 83962
Srsf1: 110809
Tdp1: 104884
Top1: 21969"
Figure legend: "O Microglia  were sorted from LPS  challenged mice  (i.p) after 4 h or naive mice, and the mRNA expression  of TOP1  was graphed (n = 5 or 6 biological samples). Data information: Data are presented as the mean ± s.e.m. *P &lt; 0.05; **P &lt; 0.01; ***P &lt; 0.001 Statistical analyses were performed using the student's unpaired two-tailed t-test."
NCBI gene IDs:
"TOP1: 21969"
Figure legend: "B. Fold repression of Renilla expression (compared to reporter plasmid transfection alone) versus the amount of transfected siRNA duplex, wild-type HsAGO2-siRNA complex, or HsAGO2+At-loop-siRNA complex. The 2-8 target (left panel) indicates miRNA-like targeting. The 2-19 target (right panel) indicates siRNA-like targeting. Dotted line indicates the normalized expression level of the positive control (no repression). Graphed data in B represent the individual and the ratio of mean values of n=3 independent biological trials, respectively. Error bars indicate s.e.m. ANOVA with Dunnett's posthoc test P values: ** = 0.0062, * = 0.0363. No data points were excluded from the analyses."
NCBI gene IDs:
"AGO2: 27161"
Figure legend: "B. Prey specificity graph for BioID interactome of TRUB2 protein. Prey specificity was calculated as the relative enrichment of interaction of individual preys and TRUB2, compared to their interaction with 138 other baits (42 mitochondrial baits, 96 baits from other cellular compartments)."
NCBI gene IDs:
"TRUB2: 26995"
Figure legend: "D, E. Pulse-labeling mitochondrial translation experiment of the 13 mitochondria-encoded polypeptides (seven subunits of complex I [ND], three subunits of complex IV [COX], two subunits of complex V [ATP] and one subunit of complex III [cyt b]) in control and siRNA treated cells. (E) Detail of a mitochondrial pulse-labeling experiment showing a severe decrease in the translation of ATP6 and ATP8 in TRUB2 depleted cells."
NCBI gene IDs:
"TRUB2: 26995"
Figure legend: "A, B. Identification of mitochondrial ribosomal proteins and pseudouridine synthase interacting proteins by sucrose gradient centrifugation in control cells (A) Individual fractions were separated by SDS-PAGE and immunoblotted with the indicated antibodies. The migration of the mt-SSU (28S), the mt-LSU (39S) and the mitochondrial monosome (55S) are shown."
NCBI gene IDs:
"28S: 100008589///106632264///106632265///106632266///106632267"
Figure legend: "A, B. Identification of mitochondrial ribosomal proteins and pseudouridine synthase interacting proteins by sucrose gradient centrifugation in cells treated with siRNA (B). Individual fractions were separated by SDS-PAGE and immunoblotted with the indicated antibodies. The migration of the mt-SSU (28S), the mt-LSU (39S) and the mitochondrial monosome (55S) are shown."
NCBI gene IDs:
"28S: 100008589///106632264///106632265///106632266///106632267"
Figure legend: "C. Quantification of the levels of the mt-SSU (28S), the mt-LSU (39S) and the mitochondrial monosome (55S) normalized to the SDHA levels. The graph represents the relative abundance of individual subunits in cells treated with specified siRNA versus controls. The bars represent the mean ± SEM."
NCBI gene IDs:
"28S: 100008589///106632264///106632265///106632266///106632267"
Figure legend: "(A, B) Representative Western blot (A) and quantification (B) of p62 associated with mitochondria from spinal cords. Protein levels are normalized by subunit ATPβ of mitochondria (Complex V). Mitochondrial p62 levels are increased at 120 days (symptomatic stage) in SOD1-G93A spinal cord relative to Non Tg and wild type SOD1 (wtSOD1). Results are expressed as mean ± SEM relative to Non Tg at 30 days; n=8 mice (4 males and 4 females). At 120 days, **p= 0.0018 (Non Tg vs. SOD1-G93A) and **p= 0.0011 (SOD1-G93A vs. wtSOD1) by paired one-way ANOVA with Tukey's correction. No other statistically significant differences were found (paired Friedman's test with Dunn's correction at 30 days and paired one-way ANOVA with Tukey's correction at 60 and 90 days)."
NCBI gene IDs:
"SOD1: 6647"
Figure legend: "(C, D) Representative Western blot (C) and quantification (D) of Tim23 in homogenates from spinal cords using β-actin as normalizer. Results are expressed as mean ± SEM and relative to Non Tg at 30 days; n=6 mice (3 males and 3 females). ***p= 0.0002 (Non Tg vs. SOD1-G93A at 120 days) by paired one-way ANOVA with Tukey's correction. No other statistically significant differences were found (paired Friedman's test with Dunn's correction at 30 days and paired one-way ANOVA with Tukey's correction at 60 and 90 days). Tim23 is decreased in SOD1-G93A spinal cord relative to Non Tg at 120 days."
NCBI gene IDs:
"SOD1: 6647"
Figure legend: "(E, F) Western blot (E) and quantification (F) of COXI in homogenates from spinal cords. Protein levels are normalized by β-actin. Results are expressed as mean ± SEM and relative to Non Tg at 30 days; n=6 mice (3 males and 3 females). *p= 0.017 (Non Tg vs. SOD1-G93A at 120 days) by paired Friedman's test with Dunn's correction. No other statistically significant differences were found (paired Friedman's test with Dunn's correction at 30 and 60 days and paired one-way ANOVA with Tukey's correction at 90 days). COX1 is decreased in SOD1-G93A spinal cord relative to Non Tg at 120 days."
NCBI gene IDs:
"SOD1: 6647"
Figure legend: "G) qPCR (fold change) of PGC1α mRNA normalized by β-actin mRNA. Results are expressed as mean ± SEM and fold change of Non Tg at 30 days; n= 6 (3 males and 3 females) for 30 and 120 days, n= 4 (2 males and 2 females) for 60 days and n= 5 (3 males and 2 females) for 90 days. *p= 0.035 at 90 days and ***p= 0.0007 at 120 days. Paired Student's t test (for 60, 90 and 120 days) and paired Wilcoxon's test (for 30 days) were used for comparisons."
NCBI gene IDs:
"β-actin: 11461
PGC1α: 19017"
Figure legend: "A) Representative images of mt-Keima expressing spinal cord sections of SOD1-G93A and Non Tg mice at 90 days. Mt-Keima fluorescence with excitation at 458nm is pseudocolored in green and at 543nm is pseudocolored in red. Emissions were recorded sequentially at 600-650nm. Scale bar, 150 µm."
NCBI gene IDs:
"SOD1: 6647"
Figure legend: "B) Representative images of mt-Keima expressing motor neurons in the ventral horn of SOD1-G93A and Non Tg mice at 90 days, imaged and pseudocolored Scale bar, 20 µm."
NCBI gene IDs:
"SOD1: 6647"
Figure legend: "C) Quantification of the rate of mitophagy in motor neurons expressed as the percentage of area with high ratio (543/458nm) signal normalized by the total mitochondria area. Data were collected from mice at 60 days (n= 3, 1 male and 2 females), 90 days (n= 4, 2 males and 2 females), and 120 days (n= 4, 2 males and 2 females). Number of neurons imaged: 60 days, n= 77 Non Tg and 87 SOD1-G93A; 90 days, n= 118 Non Tg and 173 SOD1-G93A; 120 days, n= 110 Non Tg and 130 SOD1-G93A. Comparisons within pairs showed that mitophagy is increased in SOD1-G93A spinal cords at 60 and 90 days compared to Non Tg. Results are expressed as mean ± SEM. For 60 days, **p= 0.0022; for 90 days, ***p= 0.0001; for 120 days, p= 0.094, all by unpaired Mann-Whitney test. Comparisons along time showed that mitophagy increases over time in both genotypes. For Non Tg, by unpaired Kruskal-Wallis's test with Dunn's correction, **p= 0.0046 and ***p= 0.0001. For SOD1-G93A, by unpaired Kruskal-Wallis's test with Dunn's correction, **p=0.0077 and *** p= 0.0001."
NCBI gene IDs:
"SOD1: 6647"
Figure legend: "Representative Western blot (A) of Parkin levels in spinal cord homogenates. Protein levels are normalized by β-actin. Results are expressed as mean ± SEM and relative to Non Tg control at 30 days; n= 8 (4 males and 4 females). Parkin levels are decreased in SOD1-G93A at 90 and 120 days compared to Non Tg."
NCBI gene IDs:
"SOD1: 6647"
Figure legend: "quantification (B) of Parkin levels in spinal cord homogenates. Protein levels are normalized by β-actin. Results are expressed as mean ± SEM and relative to Non Tg control at 30 days; n= 8 (4 males and 4 females). Paired Wilcoxon's test at 90 days, **p= 0.0078; paired Student's t test at 120 days, **p= 0.0054. Paired Wilcoxon's test for 30 and 60 days showed no statistically significant differences. Parkin levels are decreased in SOD1-G93A at 90 and 120 days compared to Non Tg."
NCBI gene IDs:
"SOD1: 6647"
Figure legend: "C) qPCR (fold change) of Parkin mRNA normalized by β-actin mRNA. Results are expressed as mean ± SEM and fold change relative to Non Tg at 30 days of age; n= 6 (3 males and 3 females) for 30 and 120 days, n= 4 (2 males and 2 females) for 60 days and n= 5 (3 males and 2 females) for 90 days. No statistically significant differences were found by paired Student's t test (90 days) and Wilcoxon's test (30, 60 and 120 days)."
NCBI gene IDs:
"β-actin: 11461
Parkin: 50873"
Figure legend: "D, E) Representative Western blot (D) and quantification (E) of Parkin levels in spinal cord mitochondria at 120 days. Protein levels are normalized by Complex V. Parkin is reduced in spinal cord mitochondria of SOD1-G93A mice at 120 days. Results are expressed as mean ± SEM and shown as percent of Non Tg; n=8 (4 males and 4 females); **p= 0.0078, by Wilcoxon's t test."
NCBI gene IDs:
"SOD1: 6647"
Figure legend: "C) Quantification of SOD1 at 130 days indicates that Parkin knockout does not affect the levels of transgenic mutant human SOD1 expressed in SOD1-G93A spinal cord. Results are expressed as mean ± SEM and as percent of Non Tg; n= 8 (4 males and 4 females); no statistically significant differences relative to SOD1 expression were found between G93A and PKO/G93A, p= 0.214, by paired Student's t test. Differences between Non Tg and G93A (by paired Friedman's test with Dunn's correction), *p= 0.020 and PKO and PKO/G93A (by paired one-way ANOVA with Tukey's correction), ***p= 0.0001."
NCBI gene IDs:
"Parkin: 50873
SOD1: 6647"