1 Gerhardt, L. M. S. & McMahon, A. P. Multi-omic approaches to acute kidney injury and repair. Curr Opin Biomed Eng 20, doi:10.1016/j.cobme.2021.100344 (2021).
2 Chertow, G. M., Burdick, E., Honour, M., Bonventre, J. V. & Bates, D. W. Acute kidney injury, mortality, length of stay, and costs in hospitalized patients. Journal of the American Society of Nephrology 16, 3365-3370, doi:10.1681/ASN.2004090740 (2005).
3 Chawla, L. S., Eggers, P. W., Star, R. A. & Kimmel, P. L. Acute kidney injury and chronic kidney disease as interconnected syndromes. N Engl J Med 371, 58-66, doi:10.1056/NEJMra1214243 (2014).
4 Negi, S., Koreeda, D., Kobayashi, S., Iwashita, Y. & Shigematu, T. Renal replacement therapy for acute kidney injury. Renal Replacement Therapy 2, 31, doi:10.1186/s41100-016-0043-1 (2016).
5 Zuk, A. et al. Overcoming Translational Barriers in Acute Kidney Injury: A Report from an NIDDK Workshop. Clin J Am Soc Nephrol 13, 1113-1123, doi:10.2215/CJN.06820617 (2018).
6 Fiorentino, M. & Kellum, J. A. Improving Translation from Preclinical Studies to Clinical Trials in Acute Kidney Injury. Nephron 140, 81-85, doi:10.1159/000489576 (2018).
7 Mestas, J. & Hughes, C. C. Of mice and not men: differences between mouse and human immunology. J Immunol 172, 2731-2738, doi:10.4049/jimmunol.172.5.2731 (2004).
8 Park, J. G. et al. Immune cell composition in normal human kidneys. Sci Rep 10, 15678, doi:10.1038/s41598-020-72821-x (2020).
9 Bonventre, J. V. & Zuk, A. Ischemic acute renal failure: an inflammatory disease? Kidney Int 66, 480-485, doi:10.1111/j.1523-1755.2004.761_2.x (2004).
10 Simon, N. & Hertig, A. Alteration of Fatty Acid Oxidation in Tubular Epithelial Cells: From Acute Kidney Injury to Renal Fibrogenesis. Front Med (Lausanne) 2, 52, doi:10.3389/fmed.2015.00052 (2015).
11 Herman-Edelstein, M., Scherzer, P., Tobar, A., Levi, M. & Gafter, U. Altered renal lipid metabolism and renal lipid accumulation in human diabetic nephropathy. J Lipid Res 55, 561-572, doi:10.1194/jlr.P040501 (2014).
12 Li, S. et al. Transgenic expression of proximal tubule peroxisome proliferator-activated receptor-alpha in mice confers protection during acute kidney injury. Kidney Int 76, 1049-1062, doi:10.1038/ki.2009.330 (2009).
13 Kang, H. M. et al. Defective fatty acid oxidation in renal tubular epithelial cells has a key role in kidney fibrosis development. Nat Med 21, 37-46, doi:10.1038/nm.3762 (2015).
14 Al Asmari, A. K., Al Sadoon, K. T., Obaid, A. A., Yesunayagam, D. & Tariq, M. Protective effect of quinacrine against glycerol-induced acute kidney injury in rats. BMC Nephrol 18, 41, doi:10.1186/s12882-017-0450-8 (2017).
15 Chang, J. F. et al. Targeting ROS and cPLA2/COX2 Expressions Ameliorated Renal Damage in Obese Mice with Endotoxemia. Int J Mol Sci 20, doi:10.3390/ijms20184393 (2019).
16 Cui, X. L. et al. Oxidative signaling in renal epithelium: Critical role of cytosolic phospholipase A2 and p38(SAPK). Free Radic Biol Med 41, 213-221, doi:10.1016/j.freeradbiomed.2006.02.004 (2006).
17 Khan, N. S. et al. Cytosolic Phospholipase A2alpha Is Essential for Renal Dysfunction and End-Organ Damage Associated With Angiotensin II-Induced Hypertension. Am J Hypertens 29, 258-265, doi:10.1093/ajh/hpv083 (2016).
18 Bonventre, J. V. The 85-kD cytosolic phospholipase A2 knockout mouse: a new tool for physiology and cell biology. J Am Soc Nephrol 10, 404-412, doi:10.1681/asn.V102404 (1999).
19 Wang, T. et al. Arachidonic Acid Metabolism and Kidney Inflammation. Int J Mol Sci 20, doi:10.3390/ijms20153683 (2019).
20 Makino, H. et al. Prevention of diabetic nephropathy in rats by prostaglandin E receptor EP1-selective antagonist. J Am Soc Nephrol 13, 1757-1765, doi:10.1097/01.asn.0000019782.37851.bf (2002).
21 Nasrallah, R., Xiong, H. & Hébert, R. L. Renal prostaglandin E2 receptor (EP) expression profile is altered in streptozotocin and B6-Ins2Akita type I diabetic mice. Am J Physiol Renal Physiol 292, F278-284, doi:10.1152/ajprenal.00089.2006 (2007).
22 Ranganathan, P. V., Jayakumar, C., Mohamed, R., Dong, Z. & Ramesh, G. Netrin-1 regulates the inflammatory response of neutrophils and macrophages, and suppresses ischemic acute kidney injury by inhibiting COX-2-mediated PGE2 production. Kidney Int 83, 1087-1098, doi:10.1038/ki.2012.423 (2013).
23 Peters-Golden, M. & Henderson, W. R. Leukotrienes. New England Journal of Medicine 357, 1841-1854, doi:10.1056/NEJMra071371 (2007).
24 Wei, Q., Xiao, X., Fogle, P. & Dong, Z. Changes in metabolic profiles during acute kidney injury and recovery following ischemia/reperfusion. PLoS One 9, e106647, doi:10.1371/journal.pone.0106647 (2014).
25 Garcia-Pastor, C., Benito-Martinez, S., Bosch, R. J., Fernandez-Martinez, A. B. & Lucio-Cazana, F. J. Intracellular prostaglandin E2 contributes to hypoxia-induced proximal tubular cell death. Sci Rep 11, 7047, doi:10.1038/s41598-021-86219-w (2021).
26 Brennan, E., Kantharidis, P., Cooper, M. E. & Godson, C. Pro-resolving lipid mediators: regulators of inflammation, metabolism and kidney function. Nature Reviews Nephrology 17, 725-739, doi:10.1038/s41581-021-00454-y (2021).
27 Baek, J., He, C., Afshinnia, F., Michailidis, G. & Pennathur, S. Lipidomic approaches to dissect dysregulated lipid metabolism in kidney disease. Nat Rev Nephrol 18, 38-55, doi:10.1038/s41581-021-00488-2 (2022).
28 Lin, P. H. & Duann, P. Dyslipidemia in Kidney Disorders: Perspectives on Mitochondria Homeostasis and Therapeutic Opportunities. Front Physiol 11, 1050, doi:10.3389/fphys.2020.01050 (2020).
29 Muto, Y. et al. Single cell transcriptional and chromatin accessibility profiling redefine cellular heterogeneity in the adult human kidney. Nature Communications 12, 2190, doi:10.1038/s41467-021-22368-w (2021).
30 Liao, J. et al. Single-cell RNA sequencing of human kidney. Scientific Data 7, 4, doi:10.1038/s41597-019-0351-8 (2020).
31 Dannhorn, A. et al. Universal Sample Preparation Unlocking Multimodal Molecular Tissue Imaging. Analytical Chemistry 92, 11080-11088, doi:10.1021/acs.analchem.0c00826 (2020).
32 Swales, J. G. et al. Quantitation of Endogenous Metabolites in Mouse Tumors Using Mass-Spectrometry Imaging. Anal Chem 90, 6051-6058, doi:10.1021/acs.analchem.7b05239 (2018).
33 Dannhorn, A. et al. Evaluation of UV-C Decontamination of Clinical Tissue Sections for Spatially Resolved Analysis by Mass Spectrometry Imaging (MSI). Anal Chem 93, 2767-2775, doi:10.1021/acs.analchem.0c03430 (2021).
34 Takáts, Z., Wiseman, J. M., Gologan, B. & Cooks, R. G. Mass spectrometry sampling under ambient conditions with desorption electrospray ionization. Science 306, 471-473, doi:10.1126/science.1104404 (2004).
35 Adusumilli, R. & Mallick, P. Data Conversion with ProteoWizard msConvert. Methods Mol Biol 1550, 339-368, doi:10.1007/978-1-4939-6747-6_23 (2017).
36 Race, A. M., Styles, I. B. & Bunch, J. Inclusive sharing of mass spectrometry imaging data requires a converter for all. J Proteomics 75, 5111-5112, doi:10.1016/j.jprot.2012.05.035 (2012).
37 Pang, Z. et al. MetaboAnalyst 5.0: narrowing the gap between raw spectra and functional insights. Nucleic Acids Res 49, W388-W396, doi:10.1093/nar/gkab382 (2021).
38 Kanehisa, M. et al. Data, information, knowledge and principle: back to metabolism in KEGG. Nucleic Acids Res 42, D199-205, doi:10.1093/nar/gkt1076 (2014).
39 Okonechnikov, K., Conesa, A. & García-Alcalde, F. Qualimap 2: advanced multi-sample quality control for high-throughput sequencing data. Bioinformatics (Oxford, England) 32, 292-294, doi:10.1093/bioinformatics/btv566 (2016).
40 Dobin, A. et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics 29, 15-21, doi:10.1093/bioinformatics/bts635 (2013).
41 Ewels, P., Magnusson, M., Lundin, S. & Käller, M. MultiQC: summarize analysis results for multiple tools and samples in a single report. Bioinformatics 32, 3047-3048, doi:10.1093/bioinformatics/btw354 (2016).
42 Gaspar, J. M. NGmerge: merging paired-end reads via novel empirically-derived models of sequencing errors. BMC Bioinformatics 19, 536, doi:10.1186/s12859-018-2579-2 (2018).
43 Patro, R., Duggal, G., Love, M. I., Irizarry, R. A. & Kingsford, C. Salmon provides fast and bias-aware quantification of transcript expression. Nat Methods 14, 417-419, doi:10.1038/nmeth.4197 (2017).
44 Ashburner, M. et al. Gene Ontology: tool for the unification of biology. Nature Genetics 25, 25-29, doi:10.1038/75556 (2000).
45 Yu, G., Wang, L. G., Han, Y. & He, Q. Y. clusterProfiler: an R package for comparing biological themes among gene clusters. OMICS 16, 284-287, doi:10.1089/omi.2011.0118 (2012).
46 Luo, W. & Brouwer, C. Pathview: an R/Bioconductor package for pathway-based data integration and visualization. Bioinformatics 29, 1830-1831, doi:10.1093/bioinformatics/btt285 (2013).
47 Jenkins, B., Ronis, M. & Koulman, A. LC–MS Lipidomics: Exploiting a Simple High-Throughput Method for the Comprehensive Extraction of Lipids in a Ruminant Fat Dose-Response Study. Metabolites 10, 296 (2020).
48 Elaldi, R. et al. High Dimensional Imaging Mass Cytometry Panel to Visualize the Tumor Immune Microenvironment Contexture. Front Immunol 12, 666233, doi:10.3389/fimmu.2021.666233 (2021).
49 Bass, J. J. et al. An overview of technical considerations for Western blotting applications to physiological research. Scand J Med Sci Sports 27, 4-25, doi:10.1111/sms.12702 (2017).
50 Al-Lamki, R. S. et al. Tumor necrosis factor receptor expression and signaling in renal cell carcinoma. Am J Pathol 177, 943-954, doi:10.2353/ajpath.2010.091218 (2010).
51 Al-Lamki, R. S., Bradley, J. R. & Pober, J. S. Human Organ Culture: Updating the Approach to Bridge the Gap from In Vitro to In Vivo in Inflammation, Cancer, and Stem Cell Biology. Front Med (Lausanne) 4, 148, doi:10.3389/fmed.2017.00148 (2017).
52 Sparrow, H. G., Swan, J. T., Moore, L. W., Gaber, A. O. & Suki, W. N. Disparate outcomes observed within Kidney Disease: Improving Global Outcomes (KDIGO) acute kidney injury stage 1. Kidney Int 95, 905-913, doi:10.1016/j.kint.2018.11.030 (2019).
53 Han, W. K., Bailly, V., Abichandani, R., Thadhani, R. & Bonventre, J. V. Kidney Injury Molecule-1 (KIM-1): A novel biomarker for human renal proximal tubule injury. Kidney International 62, 237-244, doi:https://doi.org/10.1046/j.1523-1755.2002.00433.x (2002).
54 Alge, J. L. & Arthur, J. M. Biomarkers of AKI: a review of mechanistic relevance and potential therapeutic implications. Clin J Am Soc Nephrol 10, 147-155, doi:10.2215/CJN.12191213 (2015).
55 Kurzhagen, J. T., Dellepiane, S., Cantaluppi, V. & Rabb, H. AKI: an increasingly recognized risk factor for CKD development and progression. J Nephrol 33, 1171-1187, doi:10.1007/s40620-020-00793-2 (2020).
56 Kalhorn, T. & Zager, R. A. Renal cortical ceramide patterns during ischemic and toxic injury: assessments by HPLC-mass spectrometry. Am J Physiol 277, F723-733, doi:10.1152/ajprenal.1999.277.5.F723 (1999).
57 Zager, R. A., Conrad, D. S. & Burkhart, K. Ceramide accumulation during oxidant renal tubular injury: mechanisms and potential consequences. J Am Soc Nephrol 9, 1670-1680, doi:10.1681/asn.V991670 (1998).
58 Stahelin, R. V., Subramanian, P., Vora, M., Cho, W. & Chalfant, C. E. Ceramide-1-phosphate Binds Group IVA Cytosolic Phospholipase a2 via a Novel Site in the C2 Domain*. Journal of Biological Chemistry 282, 20467-20474, doi:https://doi.org/10.1074/jbc.M701396200 (2007).
59 Zager, R. A., Johnson, A. C. & Hanson, S. Y. Renal tubular triglyercide accumulation following endotoxic, toxic, and ischemic injury. Kidney Int 67, 111-121, doi:10.1111/j.1523-1755.2005.00061.x (2005).
60 Mishra, J. et al. Neutrophil gelatinase-associated lipocalin (NGAL) as a biomarker for acute renal injury after cardiac surgery. Lancet 365, 1231-1238, doi:10.1016/s0140-6736(05)74811-x (2005).
61 de Caestecker, M. et al. Bridging Translation by Improving Preclinical Study Design in AKI. J Am Soc Nephrol 26, 2905-2916, doi:10.1681/ASN.2015070832 (2015).
62 Girling, B. J., Channon, S. W., Haines, R. W. & Prowle, J. R. Acute kidney injury and adverse outcomes of critical illness: correlation or causation? Clin Kidney J 13, 133-141, doi:10.1093/ckj/sfz158 (2020).
63 Ronco, C., Bellomo, R. & Kellum, J. A. Acute kidney injury. The Lancet 394, 1949-1964, doi:10.1016/s0140-6736(19)32563-2 (2019).
64 Nath, K. A. & Norby, S. M. Reactive oxygen species and acute renal failure. The American Journal of Medicine 109, 665-678, doi:https://doi.org/10.1016/S0002-9343(00)00612-4 (2000).
65 Bhargava, P. & Schnellmann, R. G. Mitochondrial energetics in the kidney. Nature Reviews Nephrology 13, 629-646, doi:10.1038/nrneph.2017.107 (2017).
66 Faivre, A., Verissimo, T., Auwerx, H., Legouis, D. & de Seigneux, S. Tubular Cell Glucose Metabolism Shift During Acute and Chronic Injuries. Frontiers in Medicine 8, doi:10.3389/fmed.2021.742072 (2021).
67 Rehan, A., Johnson, K. J., Wiggins, R. C., Kunkel, R. G. & Ward, P. A. Evidence for the role of oxygen radicals in acute nephrotoxic nephritis. Lab Invest 51, 396-403 (1984).
68 Hoeck, W. G., Ramesha, C. S., Chang, D. J., Fan, N. & Heller, R. A. Cytoplasmic phospholipase A2 activity and gene expression are stimulated by tumor necrosis factor: dexamethasone blocks the induced synthesis. Proceedings of the National Academy of Sciences 90, 4475-4479, doi:10.1073/pnas.90.10.4475 (1993).
69 Yang, C. M. et al. TNF-alpha induces cytosolic phospholipase A2 expression via Jak2/PDGFR-dependent Elk-1/p300 activation in human lung epithelial cells. Am J Physiol Lung Cell Mol Physiol 306, L543-551, doi:10.1152/ajplung.00320.2013 (2014).
70 Wilson, P. C. et al. The single-cell transcriptomic landscape of early human diabetic nephropathy. Proc Natl Acad Sci U S A 116, 19619-19625, doi:10.1073/pnas.1908706116 (2019).
71 Huwiler, A. et al. The ω3-polyunsaturated fatty acid derivatives AVX001 and AVX002 directly inhibit cytosolic phospholipase A2and suppress PGE2formation in mesangial cells. British Journal of Pharmacology 167, 1691-1701, doi:10.1111/j.1476-5381.2012.02114.x (2012).
72 Wu, H. et al. Single-Cell Transcriptomics of a Human Kidney Allograft Biopsy Specimen Defines a Diverse Inflammatory Response. Journal of the American Society of Nephrology : JASN 29, 2069-2080, doi:10.1681/ASN.2018020125 (2018).
73 Menon, R. et al. Single cell transcriptomics identifies focal segmental glomerulosclerosis remission endothelial biomarker. JCI Insight 5, doi:10.1172/jci.insight.133267 (2020).
74 Dabral, D. & van den Bogaart, G. The Roles of Phospholipase A2 in Phagocytes. Front Cell Dev Biol 9, 673502, doi:10.3389/fcell.2021.673502 (2021).
75 Gijón, M. A., Spencer, D. M., Siddiqi, A. R., Bonventre, J. V. & Leslie, C. C. Cytosolic phospholipase A2 is required for macrophage arachidonic acid release by agonists that Do and Do not mobilize calcium. Novel role of mitogen-activated protein kinase pathways in cytosolic phospholipase A2 regulation. J Biol Chem 275, 20146-20156, doi:10.1074/jbc.M908941199 (2000).
76 Montford, J. R. et al. Bone marrow-derived cPLA2alpha contributes to renal fibrosis progression. J Lipid Res 59, 380-390, doi:10.1194/jlr.M082362 (2018).
77 Spadaro, O. et al. Caloric restriction in humans reveals immunometabolic regulators of health span. Science 375, 671-677, doi:10.1126/science.abg7292 (2022).