EMBO/SourceData huggingface dataset:
Figure legend: "G) Coomassie-stained  protamine extracts from CTL and Dot1l-KO spermatozoa  following acid urea gel electrophoresis  (same gel, two different intensities). The same quantity of material has been loaded in each well (i.e. extracts from 1.4 million spermatozoa). Protamine 1  and 2 bands (PRM1  and PRM2, respectively) are detected at the bottom of the gel. The rectangle highlights the bands that are likely immature forms of Protamine 2 (i.e. non-cleaved precursor forms). The right panel shows a western blot detection using anti-PRM2  antibody which confirms that one of the high molecular weight band only observed in Dot1l-KO spermatozoa  is an immature form of  Protamine 2 (Pre-PRM2). The corresponding Coomassie-stained gel is also shown."
NCBI gene IDs:
"Dot1l: 208266"
Figure legend: "H) Quantification of histones TH2B  and H3  (N= 11 and 10 biological replicates for CTL and KO, respectively), of TNP2  (N= 8 biological replicates for CTL and for KO) and of PRM1/PRM2  ratio (N= 3 biological replicates for CTL and for KO) in Dot1l-KO and CTL spermatozoa, related to Fig 3E-G. The data shown are normalized to control mean values (± SEM). *p-value &lt;0.05, ***p-value &lt;0.0005 (unpaired t-tests). A.U. = arbitrary units."
NCBI gene IDs:
"Dot1l: 208266"
Figure legend: "C Representative renal H&amp;E images (left) with quantitative pathological scores (right) of WT (n = 8) and Ehmt2Ksp mice (n = 7) at day three after renal I/R injury (I/R 3D)."
NCBI gene IDs:
"Ehmt2: 110147"
Figure legend: "G, H Representative immunoblots (G) and quantitative results (H) of p-Rip3 and p-Mlkl of WT (n = 3) and Ehmt2Ksp mice (n = 3) under I/R 3D injury."
NCBI gene IDs:
"Ehmt2: 110147"
Figure legend: "I Representative Sirius Red staining (left) with quantitative results (right) on the kidney sections of WT (n = 7) and Ehmt2Ksp (n = 4) mice at day seven after renal I/R injury (I/R 7D)."
NCBI gene IDs:
"Ehmt2: 110147"
Figure legend: "K Representative TUNEL staining (left) with quantitative results (right) of WT (n = 8) and Ehmt2Ksp mice (n = 4) under I/R 7D injury."
NCBI gene IDs:
"Ehmt2: 110147"
Figure legend: "qPCR validation (C) of indicated genes related to fatty acid metabolism of WT+NI (n = 6), Ehmt2Ksp+NI (n = 6), WT+I/R 3D (n = 6) and Ehmt2Ksp+I/R 3D (n = 6) groups."
NCBI gene IDs:
"Ehmt2: 110147"
Figure legend: "qPCR validation (E) of indicated genes related to fatty acid beta-oxidation of WT+NI (n = 6), Ehmt2Ksp+NI (n = 6), WT+I/R 3D (n = 6) and Ehmt2Ksp+I/R 3D (n = 6) groups."
NCBI gene IDs:
"Ehmt2: 110147"
Figure legend: "H Representative immunoblots (left) with quantitative results (right) of Ces1 level in the kidneys of WT (n = 3) and Ehmt2Ksp (n = 3) mice at I/R 3D."
NCBI gene IDs:
"Ehmt2: 110147"
Figure legend: "C mRNA levels of Kim1 and Ngal of PBS+NI (n = 6), A366+NI (n = 5), PBS+I/R 3D (n = 6) and A366+I/R 3D (n = 5) groups."
NCBI gene IDs:
"Kim1: 171283
Ngal: 16819"
Figure legend: "Representative images (M) with quantitative results of lipid droplet areas (N) and percentage of different lipid droplet size (O), in labeled-PA treated mPTECs isolated from WT and Ehmt2Ksp mice at one hour after treatment. The results were obtained from three biological replicates; a total of 20 cells were imaged in each group for quantification of lipid droplet area (N, O)"
NCBI gene IDs:
"Ehmt2: 110147"
Figure legend: "Q-S Seahorse studies (Q) with quantitative results of basal (R) and maximal (S) respiration in PA-treated mPTECs isolated from WT and Ehmt2Ksp mice. OCR, oxygen consumption rate; n = 4 cultures."
NCBI gene IDs:
"Ehmt2: 110147"
Figure legend: "E Representative Oil Red O staining with quantification of WT+Veh (n = 5), WT+WWL (n = 4), Ehmt2Ksp+Veh (n = 4) and Ehmt2Ksp+WWL (n = 4) groups."
NCBI gene IDs:
"Ehmt2: 110147"
Figure legend: "F mRNA levels of fatty acid oxidation related genes of WT+Veh (n = 5), WT+WWL (n = 4), Ehmt2Ksp+Veh (n = 4) and Ehmt2Ksp+WWL (n = 4) groups."
NCBI gene IDs:
"Ehmt2: 110147"
Figure legend: "G Representative Cpt1a immunostaining with quantitative analysis in the kidneys of WT+Veh (n = 5), WT+WWL (n = 4), Ehmt2Ksp+Veh (n = 4) and Ehmt2Ksp+WWL (n = 4) groups. Scale bar = 50 μm. IOD, integral optical density."
NCBI gene IDs:
"Ehmt2: 110147"
Figure legend: "Representative immunostaining for CD3 and F4/80 (K) of WT+Veh (n = 5), WT+WWL (n = 4), Ehmt2Ksp+Veh (n = 4) and Ehmt2Ksp+WWL (n = 4) groups."
NCBI gene IDs:
"Ehmt2: 110147"
Figure legend: "Representative CD3 and F4/80 quantitative results (L) of WT+Veh (n = 5), WT+WWL (n = 4), Ehmt2Ksp+Veh (n = 4) and Ehmt2Ksp+WWL (n = 4) groups."
NCBI gene IDs:
"Ehmt2: 110147"
Figure legend: "M Representative immunoblots (left) with quantitative results (right) of p-Mlkl for WT+Veh (n = 3), WT+WWL (n = 3), Ehmt2Ksp+Veh (n = 3) and Ehmt2Ksp+WWL (n = 3) groups."
NCBI gene IDs:
"Ehmt2: 110147"
Figure legend: "B mRNA levels of Kim1 and Ngal of indicated groups."
NCBI gene IDs:
"Kim1: 171283
Ngal: 16819"
Figure legend: "D. Validation of selected CRISPR screening hits by targeted gene inactivation. Genes are plotted on the x-axis from lowest FDR value (IFIT1) to highest FDR value (CD163L1) as determined by MAGeCK analysis of the genome-wide screen. All samples were normalized to non-targeting controls (&quot;Non-Targ&quot;) for graphing. Graphs represent the mean with error bars representing standard deviation. One-way ANOVA with Dunnett's test comparing each group to the non-targeting control was performed on non-normalized data, n=3 biological replicates."
NCBI gene IDs:
"CRISPR: 
CD163L1: 283316
IFIT1: 3434"
Figure legend: "D. Heat maps of FPKM (Left) and log2FC (Right) values (from RNA-Seq) of IFN-induced CRISPR screening hits at 6 and 24 h post IFN-treatment. Heatmap intensity represents the mean of 3 independent biological replicates."
NCBI gene IDs:
"CRISPR: "
Figure legend: "E. Western Blots from lysates of U-2 OS cells treated with IFNβ (20 U/mL) for 6 and 24 h. Antibodies were used to probe for IFN-induced CRISPR screening hits."
NCBI gene IDs:
"CRISPR: "
Figure legend: "A. Effects of CRISPR-based gene inactivation of IRF9, STAT1, and STAT2 or ZC3HAV1, IFIT3, and IFIT1 on VEEV infection (MOI of 10 for 5 h) in U-2 OS cells with IFNβ pretreatment (20 U/mL for 24 h). B. Effects of CRISPR-based gene inactivation of IRF9, STAT1, and STAT2 or ZC3HAV1, IFIT3, and IFIT1 on VEEV infection (MOI of 10 for 4.5 h) in Huh7.5 cells with (+ symbols) and without (- symbols) IFNβ pretreatment (100 U/mL for 24 h). Data information: data are presented as mean +/- standard deviation. n=3 independent biological replicates, one-way ANOVA with Dunnett's test. ns p &gt; 0.05, **p &lt; 0.01, ***p &lt; 0.001, and ****p &lt; 0.0001."
NCBI gene IDs:
"CRISPR: 
IFIT1: 3434
IFIT3: 3437
IRF9: 10379
STAT1: 6772
STAT2: 6773
ZC3HAV1: 56829"
Figure legend: "D. Dose response curve of IFNβ pretreatment (Left, 2-fold dilutions from 200 U/mL to 1.6 U/mL for 24 h) or IFNλ pretreatment (Right, 2-fold dilutions from 500 ng/mL to 3.9 ng/mL for 24 h) demonstrating inhibition of VEEV infection (MOI of 5 for 5 h) in control (circles), IRF9/STAT1/STAT2-targeted (squares), or ZAP/IFIT3/IFIT1-targeted (triangles) U-2 OS cells. Graphs represent the mean of normalized and transformed (from %Infection to %Inhibition) data for 3 biological replicates with error bars representing standard deviation."
NCBI gene IDs:
"IFIT1: 3434
IFIT3: 3437
IRF9: 10379
STAT1: 6772
STAT2: 6773
ZAP: 56829"
Figure legend: "A. U-2 OS control, IRF9/STAT1/STAT2-targeted, and ZAP/IFIT3/IFIT1-targeted cells were infected with GFP-expressing ONNV virus (left) or ZIKV (right) after IFNβ pretreatment (20 U/mL). Data information: In data are presented as mean +/- standard deviation. n=3 independent biological replicates, one-way ANOVA with Dunnett's test. ns p &gt; 0.05, **p &lt; 0.01, ***p &lt; 0.001, and ****p &lt; 0.0001."
NCBI gene IDs:
"IFIT1: 3434
IFIT3: 3437
IRF9: 10379
STAT1: 6772
STAT2: 6773
ZAP: 56829"
Figure legend: "B. Huh7.5 control, IRF9/STAT1/STAT2-targeted, and ZAP/IFIT3/IFIT1-targeted cells were infected with GFP-expressing Sindbis virus (AR86 strain, left) or vesicular stomatitis virus (right) after IFNβ pretreatment (100 U/mL). The percentage of infected (GFP+) cells was quantified by flow cytometry. Data information: In data are presented as mean +/- standard deviation. n=3 independent biological replicates, one-way ANOVA with Dunnett's test. ns p &gt; 0.05, **p &lt; 0.01, ***p &lt; 0.001, and ****p &lt; 0.0001."
NCBI gene IDs:
"IFIT1: 3434
IFIT3: 3437
IRF9: 10379
STAT1: 6772
STAT2: 6773
ZAP: 56829"
Figure legend: "A. Heatmaps showing the ratio of infected cells at 6, 9, and 12 h of infection with VEEV-GFP. U-2 OS control, IRF9/STAT1/STAT2-targeted, or ZAP/IFIT3/IFIT1-targeted cells were treated with or without IFNβ (20 U/mL for 24 h) and infected with an MOI of 0.5 (left), 1 (middle), or 5 (right) of VEEV-GFP. Infection was quantified by flow cytometry. Heatmap intensity represents the mean of 3 independent biological replicates."
NCBI gene IDs:
"IFIT1: 3434
IFIT3: 3437
IRF9: 10379
STAT1: 6772
STAT2: 6773
ZAP: 56829"
Figure legend: "B. (Top) Quantification of VEEV production (12 h post-infection, MOI of 2, titered in BHK-21J cells) by plaque assay of control (far left: without IFN-pretreatment), IRF9/STAT1/STAT2-targeted, or ZAP/IFIT3/IFIT1-targeted cells after IFNβ pretreatment (IFNβ 20 U/mL for 24 h). (Bottom) Western blot shows IFN-mediated induction and CRISPR-based targeting of IRF9, STAT1, STAT2, ZAP, IFIT3, and IFIT1. Red asterisks denote long (**) and short (*) isoform of ZAP. Data information: data are presented as mean +/- standard deviation. n=3 independent biological replicates, one-way ANOVA with Dunnett's test on log transformed data. ns p &gt; 0.05, ***p &lt; 0.001, and ****p &lt; 0.0001."
NCBI gene IDs:
"CRISPR: 
IFIT1: 3434
IFIT3: 3437
IRF9: 10379
STAT1: 6772
STAT2: 6773
ZAP: 56829"
Figure legend: "C. (Top) Quantification of VEEV production (12 h post-infection, MOI of 2, titered in BHK-21J cells) by plaque assay in control (far left: without IFN-pretreatment), IRF9/STAT1/STAT2-targeted, ZAP/IFIT3/IFIT1-targeted, or ZAP/IFIT3/IFIT1-targeted cells that were subsequently CRISPR targeted with a guide targeting BST2, RSAD2, ISG20, or IFITM3  after IFNβ pretreatment (IFNβ 20 U/mL for 24 h). (Bottom) Western blot shows IFN-mediated induction and CRISPR-based targeting of BST2, RSAD2, ISG20, and IFITM3. Black squares denote non-specific bands. Data information data are presented as mean +/- standard deviation. n=3 independent biological replicates, one-way ANOVA with Dunnett's test on log transformed data. ns p &gt; 0.05, ***p &lt; 0.001, and ****p &lt; 0.0001."
NCBI gene IDs:
"CRISPR: 
BST2: 684
IFIT1: 3434
IFIT3: 3437
IFITM3: 66141
IRF9: 10379
ISG20: 3669
RSAD2: 91543
STAT1: 6772
STAT2: 6773
ZAP: 56829"
Figure legend: "Growth phenotypes of the wild-type (WT, Col-0), bri1-null mutant, and two independent ubp12i/ubp13 double mutant lines grown on 1/2MS medium supplemented with 10 μM DEX (DEX medium) for 10 days and transferred to DEX medium containing 1 μM BL or mock solution (0.1% [v/v] EtOH) for additionally 8 days. Scale bars: 10 mm."
NCBI gene IDs:
"bri1: 830095
ubp12: 830548
ubp13: 820364"
Figure legend: "Phenotype of the WT and ubp12i/ubp13 double mutant grown on DEX medium in the presence of increasing concentrations of BL in the light for 6 days. Scale bars: 10 mm.   Hypocotyl length relative to the mock control of seedlings (B). Experiments were done in triplicate (n &gt;15 seedlings for each line).  "
NCBI gene IDs:
"ubp12: 830548
ubp13: 820364"
Figure legend: "Western blot analysis of BRI1 protein amount in ubp12i/ubp13 plants with the α-BRI1 antibody. Total proteins were isolated from 18-day-old plants grown on 1/2MS medium supplemented with 10 μM DEX (+) or not (-).   Western blot analysis of BRI1 protein level in concanamycin A (ConcA)-treated plants. Eighteen-day-old plants were grown on DEX medium and exposed to 1 μM ConcA for 4 h before total protein isolation.  "
NCBI gene IDs:
"ubp12: 830548
ubp13: 820364"
Figure legend: "Growth phenotype comparison of BRI1-mCit/bri1/ubp12i/ubp13 and BRI125KR-mCit/bri1/ubp12i/ubp13. The indicated transgenic lines were grown on DEX medium for 18 days. Scale bars: 10 mm."
NCBI gene IDs:
"mCit: 
BRI1: 830095
bri1: 830095
ubp12: 830548
ubp13: 820364"
Figure legend: "Western blot analysis monitoring the BRI1 protein accumulation in BRI125KR-mCit/bri1/ubp12i/ubp13 plants with the α-BRI1 antibody. Total proteins were isolated from the roots of the lines indicated (A). PEPC was used as a loading control."
NCBI gene IDs:
"mCit: 
BRI1: 830095
bri1: 830095
ubp12: 830548
ubp13: 820364"
Figure legend: "A-D Analysis of the BRI1 vacuolar targeting on Arabidopsis seedlings expressing BRI1 (A) or BRI125KR (C) tagged with mCitrine (mCit) in either bri1/UBP12/UBP13 or bri1/ubp12i/ubp13 background. Six-day-old seedlings were grown on DEX medium, and kept in the dark for 2 h in the presence of 50 μM CHX before imaging. Confocal images of epidermal cells from root meristem are shown. Scale bars: 10 μm. Measurements of the relative PM/intracellular BRI1-mCit fluorescence intensity. For each line, at least 55 and 25 cells from over 25 and 15 seedlings were measured in (B) and (D), respectively."
NCBI gene IDs:
"mCit: 
mCitrine: 
bri1: 830095
UBP12: 830548
ubp12: 830548
UBP13: 820364
ubp13: 820364"
Figure legend: "A-C. CHO  cells expressing   PD-L1 alone (A) or co-expressing CD80  (B) or CD86   (C) were stained  with CD80  Ig,  PD-1 Ig, CTLA-4 Ig or anti-PD-L1  Ab clones MIH1, MIH3, 29E.2A3) at 1µg/ml for 30 min at 37°C. Representative FACS  plots show staining  plotted against total PD-L1 mCherry  levels."
NCBI gene IDs:
"PD-L1: 919
CD80: 941
CD86: 942"
Figure legend: "A. Transendocytosis  assays were carried out overnight using CHO  donor cells (CD80GFP alone or CD80GFP with PD-L1mCherry co-expression) incubated with  CTLA-4 recipient cells at a ratio of 1:1. Recipient cells either lacked CTLA-4 (No CTLA-4) or expressed  CTLA-4. FACS  plots show  CD80GFP ligand loss from donor cells highlighted in blue quadrants in the presence of CTLA-4+ recipients."
NCBI gene IDs:
"GFP: 
mCherry: 
PD-L1: 919
CD80: 941
CTLA-4: 1493"
Figure legend: "C-F. Transendocytosis  assays were performed at a ratio of 2 donor:1  CTLA-4 recipient for the times  indicated. (C), Representative FACS  plots showing CD80GFP levels and (D) full kinetic  analysis of CD80  or CD86  downregulation on donor cells quantified as a percentage relative to no  CTLA-4  control (mean ± SEM, 3 independent experiments, ns - not significant: two-way ANOVA with Tukey's multiple comparisons test). (E) Representative FACS  plots showing PD-L1mCherry level at time points indicated. (F) Full kinetic  analysis of PD-L1mCherry level on donor cells (mean ± SEM, 3 independent experiments)."
NCBI gene IDs:
"CTLA-4: 1493"
Figure legend: "D. Levels of CD86GFP and PD-L1mCherry remaining on donor cells over a 24h transendocytosis  period with CTLA-4 WT or Del36 plotted relative to no  CTLA-4 control (mean ± SEM, 6 independent experiments). ****P≤0.0001, RM one-way ANOVA."
NCBI gene IDs:
"CTLA-4: 1493"
Figure legend: "A-B. APC-labelled PD-1 Ig (0.75µg/ml) was used to detect PD-L1 in DG-75 cells co-expressing CD80GFP  (A) or CD86GFP (B). Staining  was carried out following transendocytosis  using Jurkat  cells expressing no CTLA-4, CTLA-4 WT or CTLA-4  Del36 (at a ratio of 1:1) for the indicated durations. (A) shows representative FACS  plots of CD80GFP  vs.  PD-1 Ig at the time points indicated, with full kinetic  data plotted below (mean ± SEM, 3 independent experiments, ***P≤0.001, ****P≤0.0001: two-way ANOVA with Tukey's multiple comparisons test). (B) As for (A) except using CD86-PD-L1  expressing cells."
NCBI gene IDs:
"CTLA-4: 1493"
Figure legend: "A. Staining  of free PD-L1  with APC-conjugated PD-1 Ig in DG-75 cells expressing only PD-L1mCherry, using cell lines with increasing ratios of CD80GFP:  PD-L1mCherry compared to CD80GFP only. FACS  plots are representative of 4 independent experiments."
NCBI gene IDs:
"GFP: 
mCherry: 
PD-L1: 919
CD80: 941"
Figure legend: "A. DG-75 B cells expressing CD80GFP  or  CD86GFP (green) and PD-L1mCherry (red) were incubated with Jurkat  cells (nuclei  shown in grey) expressing CTLA-4  WT or mutant  CTLA-4 Del36 for the indicated durations and analysed by  confocal microscopy. 2 hours prior to assay endpoint, APC-labelled  PD-1  Ig (0.75µg/ml) was added. CD80/CD86  and PD-L1 co-localisation  at the immune synapse is shown in yellow with PD-1 Ig binding  shown in purple. Scale bar, 10µm."
NCBI gene IDs:
"CTLA-4: 1493"
Figure legend: "B.  Flow cytometry plots of CD80GFP levels on DG-75 B-cells (gated on CTFR+ cells) at 24h with graphical representation of the MFI in each condition (RH graph). The Jreg  cells used, and the anti-PD-1 status is indicated above the plot. C. Flow cytometry  plots of CD28  levels indicating contact between the CD80+ APC  and the PD-1+ CD28+ responder Jurkat T-cells, following CD80 transendocytosis. Graphical representation of the CD28  MFI in each condition is shown on the right. D.  Flow cytometry of CD69  levels on responder Jurkat T-cells and graphical representation of CD69  MFI in each condition. E. Flow cytometry  of CD69  levels on  CD28KO (PD-1+) responder Jurkat T-cells and graphical representation of the CD69+ cells MFI in each condition. Cartoons on the left of B-E illustrate the cell type analysed. Data information: Data is representative of 3 independent experiments showing mean ± SEM. *P≤0.05, **P≤0.01, ns - not significant: two-way ANOVA with Tukey's multiple comparisons test."
NCBI gene IDs:
"CD28: 940"
Figure legend: "B. Titration  of Abatacept staining  (left hand panel) and EC50  values of Abatacept  (right hand panel) for CD80  only or PD-L1/CD80  co-expressing  DG-75. Data information: Data is representative of 3 independent experiments showing mean ± SEM. *P≤0.05, **P≤0.01, ns - not significant: paired t-test (B)"
NCBI gene IDs:
"PD-L1: 919
CD80: 941"
Figure legend: "A. Total lipids were extracted from PfCDPK7-KO or 3D7 parasites and separated by HPTLC. After quantification by GC-MS content relative to total fatty acids was determined. Relative abundance of individual  phospholipids  was quantified. Disruption of  PfCDPK7  caused a significant decrease in  PC (mean± SEM, n=3; biological replicates, ***p&lt;0.001, t-test)."
NCBI gene IDs:
"PfCDPK7: "
Figure legend: "E. 3D7 or PfCDPK7-KO parasites were cultured in the presence or absence of 200 μM choline in culture medium. After 3 days,  parasitemia was determined by counting parasites on thin blood  smears (mean± SEM, n=6; biological replicates, *p&lt; 0.05, ***p&lt;0.001, ANOVA)."
NCBI gene IDs:
"PfCDPK7: "
Figure legend: "A-B. 3D7 (A) or parasites overexpressing EK-GFP  (B) were used to prepare protein lysates followed by  immunoprecipitation  using anti-PfCDPK7 or anti-GFP  antibody, respectively. Subsequently, protein lysate or indicated IP  were subjected to Western blotting using anti-PMT (A), anti-GFP (B). PMT was found to  co-IP with PfCDPK7 (A, lane 2) and EK-GFP  with PfCDPK7 (B, lane 3)."
NCBI gene IDs:
"GFP: 
EK: 810500"
Figure legend: "C. 3D7 and PfCDPK7-KO parasites at schizont stage (~40 h) were used for  Western blotting using anti-PMT antisera. Actin served as a loading control. Right panel: Densitometry was performed for bands corresponding to PMT in Western blots and the measurements were normalized to  Actin. Fold change in  PMT  was determined with respect to  3D7 (mean± SEM, n=4; biological replicates, **p&lt;0.01, t-test)."
NCBI gene IDs:
"PfCDPK7: "
Figure legend: "A. Parasites overexpressing  EK-GFP or its S37A mutant were synchronized and parasitemia was determined at the end of first (48 h.p.i) and second cycle (96 h.p.i). Fold change in  parasitemia of EK_S37A parasites with respect to WT EK overexpressing parasites was compared, which was significantly reduced (mean± SEM, n=3; biological replicates, *p&lt;0.05, ANOVA)."
NCBI gene IDs:
"GFP: 
EK: 810500"
Figure legend: "C. IFA was performed on parasites expressing WT  EK-GFP  or its S37A mutant 6-12h post-invasion to detect (i) RAP1, which is transferred to  PV post invasion, and (ii) MSP1 which is located at the  PVM. Parasite expressing WT  EK-GFP exhibited typical round ring like shape. In contrast, several parasites expressing the S37A mutant exhibited irregular morphology  with much smaller vacuolar space and in some parasites RAP1  was found outside the  PV (Scale bar-1 μm)."
NCBI gene IDs:
"GFP: 
EK: 810500"
Figure legend: "E. Parasites EK-GFP  or its S37A mutant were synchronized and parasites were allowed to mature to schizonts/segmentors. The graph shows average number of merozoites per schizont  from three biological replicates. Each replicate represents an average of merozoites from 30-40 schizonts. (mean± SEM, n=3; biological replicates, *p&lt;0.05, t-test)."
NCBI gene IDs:
"GFP: 
EK: 810500"
Figure legend: "C-D. UCT943  and MMV048 treated 3D7 (C) or EK-GFP overexpressing parasites (D) were subjected to Western blotting using anti-PMT (C) and anti-GFP (D) antibodies (left panels). Right Panels:  densitometry  was performed for bands corresponding to  PMT (C) or EK-GFP (D), which were normalized with respect to Actin. Fold change in PMT or  EK was determined with respect to DMSO treated parasites (Mean± SEM, n=4; biological replicates, *p&lt;0.05, ***p&lt;0.001, ANOVA)."
NCBI gene IDs:
"GFP: 
EK: 810500"
Figure legend: "D. Trophozoite stage infected erythrocytes were incubated with FM4-64 and DAPI  to assess lipid uptake by 3D7  or PfCDPK7-KO parasites. Subsequently, FM4-64  associated fluorescence was visualized by live microscopy (top panel) and also analyzed by FACS  and % change in FM4-64 uptake in KO parasites was determined (bottom panel) (mean± SEM, n=3; biological replicates, *p&lt;0.05, t-test; Scale bar-1 μm)."
NCBI gene IDs:
"PfCDPK7: "
Figure legend: "Apoptosis levels in cultured control (Cnt) and Atg12cKO HSCs and GMPs (n = 3). Results are expressed as percent caspase activation compared to +cytokines Cnt HSCs (100%)."
NCBI gene IDs:
"Atg12: 67526"
Figure legend: "Absolute number of HSCs in fed and starved Cnt and Atg12cKO mice (n = 4-8 mice per group). Results are expressed as percent of HSCs in fed mice. Data are means ± s.d. Hatching indicates starved conditions. *P ≤ 0.05, **P ≤ 0.01."
NCBI gene IDs:
"Atg12: 67526"
Figure legend: "b, c, qRT-PCR analyses of pro-autophagic genes in WT (b) and FoxO3a−/− (c) HSCs (n = 3). Results are expressed as log2 fold expression compared to WT GMPs (b) or FoxO3a+/+ HSCs (c) (set to 0)."
NCBI gene IDs:
"FoxO3a: 56484"
Figure legend: "Autophagy flux in cultured FoxO3a−/−::Gfp-Lc3 HSCs (n = 3). Results are expressed as percent GFP-LC3 MFI in -BafA vs. +BafA conditions, and normalized to FoxO3a+/+−::Gfp-Lc3 HSCs. Data are means ± s.d. *P ≤ 0.05, **P ≤ 0.01, ***P ≤ 0.001."
NCBI gene IDs:
"FoxO3a: 56484"
Figure legend: "B Expression (cells) and secretion  (media) of VgrG1 from  V. parahaemolyticus RIMD 2210633 derivative POR1  (Vpara; T6SS1+) and its T6SS1- mutant (Vpara/∆hcp1), and from  V. natriegens  (Vnat) carrying the indicated plasmids. Samples were treated (+) or not (-) with 20 µM phenamil  to activate surface sensing in media containing 3% NaCl at 30 °C for 5 h. Loading control (LC) is shown for total protein lysates. Arrows denote bands corresponding to VgrG1. Asterisks denote non-specific bands detected in  Vnat samples."
NCBI gene IDs:
"hcp1: 1188694"
Figure legend: "C  Expression (cells) and secretion  (media) of  VgrG1  from V. natriegens containing an arabinose-inducible vp1407 in the  chromosomal dns  locus (VnatReg) and harboring an empty plasmid (pEmpty) or plasmids containing VpT6SS1 that lacks vp1407 (pT6SS1Ind) or both vp1407  and hcp1 (pT6SS1Ind/∆hcp1;  T6SS-). Samples were grown in media containing 3% NaCl and either supplemented (+) or not (-) with 0.1%  arabinose  (Ara) at 30 °C. Loading control (LC) is shown for total protein lysates."
NCBI gene IDs:
"vp1407: 
hcp1: 1188694"