Abstract
Peroxisome proliferator–activated receptor γ (Pparγ) is a master regulator of adipogenesis. Chronic pathologies such as obesity, cardiovascular diseases, and diabetes involve the dysfunction of this transcription factor. Here, we generated a zebrafish mutant in pparγ (KO) with CRISPR/Cas9 technology and revealed its regulatory network. We uncovered the hepatic phenotypes of these male and female KO, and then the male wild-type zebrafish (WT) and KO were fed with a high-fat (HF) or standard diet (SD). We next conducted an integrated analyze of the proteomics and phosphoproteomics profiles. Compared with WT, the KO showed remarkable hyalinization and congestion lesions in the liver of males. Strikingly, pparγ deletion protected against the influence of high-fat diet feeding on lipid deposition in zebrafish. Some protein kinases critical for lipid metabolism, including serine/threonine-protein kinase TOR (mTOR), ribosomal protein S6 kinase (Rps6kb1b), and mitogen-activated protein kinase 14A (Mapk14a), were identified to be highly phosphorylated in KO based on differential proteome and phosphoproteome analysis. Our study supplies a pparγ deletion animal model and provides a comprehensive description of pparγ-induced expression level alterations of proteins and their phosphorylation, which are vital to understand the defective lipid metabolism risks posed to human health.
![](http://media.springernature.com/m312/springer-static/image/art%3A10.1007%2Fs10142-022-00839-7/MediaObjects/10142_2022_839_Fig1_HTML.png)
![](http://media.springernature.com/m312/springer-static/image/art%3A10.1007%2Fs10142-022-00839-7/MediaObjects/10142_2022_839_Fig2_HTML.png)
![](http://media.springernature.com/m312/springer-static/image/art%3A10.1007%2Fs10142-022-00839-7/MediaObjects/10142_2022_839_Fig3_HTML.png)
![](http://media.springernature.com/m312/springer-static/image/art%3A10.1007%2Fs10142-022-00839-7/MediaObjects/10142_2022_839_Fig4_HTML.png)
![](http://media.springernature.com/m312/springer-static/image/art%3A10.1007%2Fs10142-022-00839-7/MediaObjects/10142_2022_839_Fig5_HTML.png)
![](http://media.springernature.com/m312/springer-static/image/art%3A10.1007%2Fs10142-022-00839-7/MediaObjects/10142_2022_839_Fig6_HTML.png)
![](http://media.springernature.com/m312/springer-static/image/art%3A10.1007%2Fs10142-022-00839-7/MediaObjects/10142_2022_839_Fig7_HTML.png)
Similar content being viewed by others
References
Adams M, Reginato MJ, Shao D, Lazar MA, Chatterjee VK (1997) Transcriptional activation by peroxisome proliferator-activated receptor γ is inhibited by phosphorylation art a consensus mitogen-activated protein kinase site. J Biol Chem 272:5128–5132. https://doi.org/10.1074/jbc.272.8.5128
Bedoucha M, Atzpodien E, Boelsterli UA (2001) Diabetic KKAy mice exhibit increased hepatic PPARgamma1 gene expression and develop hepatic steatosis upon chronic treatment with antidiabetic thiazolidinediones. J Hepatol 35:17–23. https://doi.org/10.1016/S0168-8278(01)00066-6
Burns KA, Heuvel JPV (2007) Modulation of PPAR activity via phosphorylation. BBA-Mol Cell Biol L 1771:952–960. https://doi.org/10.1016/j.bbalip.2007.04.018
Barak Y, Nelson MC, Ong ES, Jones YZ, Evans RM (1999) pparγ is required for placental, cardiac, and adipose tissue development. Mol Cell 4:585–595. https://doi.org/10.1016/S1097-2765(00)80209-9
Chen Z, Hutchison M, Cobb MH (1999) Isolation of the protein kinase tao2 and identification of its mitogen-activated protein kinase/extracellular signal-regulated kinase kinase binding domain. J Biol Chem 274:28803–28807. https://doi.org/10.1074/jbc.274.40.28803
Craig PM, Moon TW (2011) Fasted zebrafish mimic genetic and physiological responses in mammals: a model for obesity and diabetes? Zebrafish 8:109–117. https://doi.org/10.1089/zeb.2011.0702
Carmona-Antoñanzas G, Tocher DR, Martinez-Rubio L, Leaver MJ (2014) Conservation of lipid metabolic gene transcriptional regulatory networks in fish and mammals. Gene 534:1–9. https://doi.org/10.1016/j.gene.2013.10.040
Castro LFC, Tocher DR, Monroig O (2016) Long-chain polyunsaturated fatty acid biosynthesis in chordates: Insights into the evolution of Fads and Elovl gene repertoire. Prog Lipid Res 62:25–40. https://doi.org/10.1016/j.plipres.2016.01.001
Dutchak PA, Katafuchi T, Bookout AL, Choi JH, Ruth TY, Mangelsdorf DJ, Kliewer SA (2012) Fibroblast growth factor-21 regulates PPARγ activity and the antidiabetic actions of thiazolidinediones. Cell 148:556–567. https://doi.org/10.1016/j.cell.2011.11.062
Diskin R, Engelberg D, Livnah O (2008) A novel lipid binding site formed by the map kinase insert in p38 alpha. J Mol Biol 375:70–79. https://doi.org/10.1016/j.jmb.2007.09.002
Davis MS, Solbiati J, Cronan JE (2000) Overproduction of acetyl-CoA carboxylase activity increases the rate of fatty acid biosynthesis in Escherichia coli. J Biol Chem 275:28593–28598. https://doi.org/10.1074/jbc.M004756200
Esteves A, Knoll-Gellida A, Canclini L, Silvarrey MC, André M, Babin PJ (2015) Fatty acid-binding proteins have the potential to channel dietary fatty acid into enterocyte nuclei. J Lipid Res 57:219–232. https://doi.org/10.1194/jlr.M062232
Gao M, Huang X, Song BL, Yang H (2019) The biogenesis of lipid droplets: lipids take center stage. Prog Lipid Res 75:100989. https://doi.org/10.1016/j.plipres.2019.100989
Gao J, Koshio S, Ishikawa M, Yokoyama S, Mmauag REP, Han YZ (2012) Effects of dietary oxidized fish oil with vitamin E supplementation on growth performance and reduction of lipid peroxidation in tissues and blood of red sea bream Pagrus major. Aquaculture 356–357:73–79. https://doi.org/10.1016/j.aquaculture.2012.05.034
Giacomini C, Koo CY, Yankova N, Tavares IA, Wray S, Noble W, Hanger DP, Morris JDH (2018) A new tao kinase inhibitor reduces tau phosphorylation at sites associated with neurodegeneration in human tauopathies. Acta Neuropathol Commun 6:37. https://doi.org/10.1186/s40478-018-0539-8
Graifer D, Karpova G (2015) Roles of ribosomal proteins in the functioning of translational machinery of eukaryotes. Biochimie 109:1–17. https://doi.org/10.1016/j.biochi.2014.11.016
Grasselli E, Voci A, Canesi L, Salis A, Damonte G, Compalati AD, Goglia F, Gallo G, Vergani L (2014) 3, 5-diiodo-l-thyronine modifies the lipid droplet composition in a model of hepatosteatosis. Cell Physiol Biochem 33:344–356. https://doi.org/10.1159/000356674
Gratten J, Zhao Q, Benyamin B, Garton F, He J, Leo PJ, Mangelsdorf M, Anderson L, Zhang ZH, Chen L, Chen XD, Cremin K, Deng HW, Edson J, Han YY, Harris J, Henders AK, ** ZB, Li ZS, Lin Y, Liu XL, Marshall M, Mowry BJ, Ran S, Reutens DC, Song S, Tan LJ, Tang L, Wallace RH, Wheeler L, Wu JY, Yang J, Xu HJ, Visscher PM, Bartlett PF, Brown MA, Wray NR, Fan DS (2017) Whole-exome sequencing in amyotrophic lateral sclerosis suggests nek1 is a risk gene in Chinese. Genome Med 9:97. https://doi.org/10.1186/s13073-017-0487-0
He AY, Ning LJ, Chen LQ, Chen YL, **ng Q, Li JM, Qiao F, Li DL, Zhang ML, Du ZY (2015) Systemic adaptation of lipid metabolism in response to low- and high-fat diet in Nile tilapia (Oreochromis niloticus). Physiol Rep 3:e12485. https://doi.org/10.14814/phy2.12485
Her GM, Pai WY, Lai CY (2013) Ubiquitous transcription factor YY1 promotes zebrafish liver steatosis and lipotoxicity by inhibiting CHOP-10 expression. Biochim Biophys Acta 1831:1037–1051. https://doi.org/10.1016/j.bbalip.2013.02.002
Javier RP, Ana RR, Carlos C, Manuel M, Ismael HC (2018) Phylogeny and expression patterns of two apolipoprotein E genes in the flatfish Senegalese sole. Gene 643:7–16. https://doi.org/10.1016/j.gene.2017.11.078
Jones JR, Barrick C, Kim KA, Lindner J, Blondeau B, Fujimoto Y, Shiota M, Kesterson RA, Kahn BB, Magnuson MA (2005) Deletion of ppar γ in adipose tissues of mice protects against high fat diet-induced obesity and insulin resistance. PNAS 102:6207–6212. https://doi.org/10.1073/pnas.0306743102
Kubota N, Terauchi Y, Miki H, Tamemoto H, Kadowaki T (1999) ppar γ mediates high-fat diet-induced adipocyte hypertrophy and insulin resistance. Mol Cell 4:597–609. https://doi.org/10.1016/S1097-2765(00)80210-5
Laplante M, Sabatini D (2012) mTOR signaling in growth control and disease. Cell 149:274–293. https://doi.org/10.1016/j.cell.2012.03.017
Li C, Brant E, Budak H, Zhang BH (2021) Crispr/Cas: a Nobel Prize award-winning precise genome editing technology for gene therapy and crop improvement. J Zhejiang Univ Sci B 22:253–284. https://doi.org/10.1631/jzus.B2100009
Lodd E, Wiggenhauser LM, Morgenstern J, Fleming TH, Poschet G, Büttner M, Tabler CT, Wohlfart DP, Nawroth PP, Kroll J (2019) The combination of loss of glyoxalase1 and obesity results in hyperglycemia. JCI Insight 4:e126-154. https://doi.org/10.1172/jci.insight.126154
Mumby M, Brekken D (2005) Phosphoproteomics: new insights into cellular signaling. Genome Biol 6:230. https://doi.org/10.1186/gb-2005-6-9-230
Magnuson B, Ekim B, Fingar DC (2011) Regulation and function of ribosomal protein S6 kinase (S6K) within mTOR signaling networks. Biochem J 441:1–21. https://doi.org/10.1042/BJ20110892
Matsusue K, Haluzik M, Lambert G, Yim SH, Gavrilova O, Ward JM, Brewer BJr, Reitman ML, Gonzalez FJ, (2003) Liver-specific disruption of PPAR gamma in leptin-deficient mice improves fatty liver but aggravates diabetic phenotypes. J Clin Invest 111:737–747. https://doi.org/10.1172/JCI17223
McCormick TW, Pincus D, Resnekov O, Reynolds KA (2020) Strategies for engineering and rewiring kinase regulation. Trends Biochem Sci 45:259–271. https://doi.org/10.1016/j.tibs.2019.11.005
Memon RA, Tecott LH, Nonogaki K, Beigneux A, Moser AH, Grunfeld C, Feingold KR (2000) Up-regulation of peroxisome proliferator-activated receptors (PPAR-alpha) and PPAR-gamma messenger ribonucleic acid expression in the liver in murine obesity: troglitazone induces expression of PPAR-gamma-responsive adipose tissue-specific genes in the liver of obese diabetic mice. Endocrinology 141:4021–4031. https://doi.org/10.1210/endo.141.11.7771
Nagaraj SH, Reverter A (2011) A Boolean-based systems biology approach to predict novel genes associated with cancer: Application to colorectal cancer. BMC Syst Biol 5:35. https://doi.org/10.1186/1752-0509-5-35
Oka T, Nishimura Y, Zang L, Hirano M, Tanaka T (2010) Diet-induced obesity in zebrafish shares common pathophysiological pathways with mammalian obesity. BMC Physiol 10:21. https://doi.org/10.1186/1472-6793-10-21
Passeri MJ, Cinaroglu A, Gao C, Sadler KC (2009) Hepatic steatosis in response to acute alcohol exposure in zebrafish requires sterol regulatory element binding protein activation. Hepatology 49:443–452. https://doi.org/10.1002/hep.22667
Pigott C, Mikolajek H, Moore C, Finn SJ, Phippen CW, Werner JM, Proud CG (2012) Insights into the regulation of eukaryotic elongation factor 2 kinase and the interplay between its domains. Biochem J 442:105–118. https://doi.org/10.1042/BJ20111536
Rahimian R, Masih-Khan E, Lo M, van Breemen C, Mcmanus BM, Dubé GP (2001) Hepatic over-expression of peroxisome proliferator activated receptor gamma2 in the ob/ob mouse model of non–insulin dependent diabetes mellitus. Mol Cell Biochem 224:29–37. https://doi.org/10.1023/A:1011927113563
Siino V, Amato A, Di Salvo F, Caldara GF, Filogamo M, James P, Vasto S (2018) Impact of diet-induced obesity on the mouse brain phosphoproteome. J Nutr Biochem 58:102–109. https://doi.org/10.1016/j.jnutbio.2018.04.015
Schlaepfer IR, Joshi M (2020) CPT1A-mediated fat oxidation, mechanisms, and therapeutic potential. Endocrinology 161:bqz046. https://doi.org/10.1210/endocr/bqz046
Sun SX, Ren TY, Li X, Cao XJ, Gao J (2020) Polyunsaturated fatty acids synthesized by freshwater fish: A new insight to the roles of elovl2 and elovl5 in vivo. Biochem Biophys Res Commun 532:414–419. https://doi.org/10.1016/j.bbrc.2020.08.074
Tontonoz P, Hu E, Spiegelman BM (1994) Stimulation of adipogenesis in fibroblasts by ppar gamma 2, a lipid-activated transcription factor. Cell 79:1147–1156. https://doi.org/10.1371/journal.pone.0006112
Topisirovic I, Sonenberg N, Thomas G, Kozma SC (2010) S6K1 plays a critical role in early adipocyte differentiation. Dev Cell 18:763–774. https://doi.org/10.1016/j.devcel.2010.02.018
Um SH, Frigerio F, Watanabe M, Picard F, Joaquin M, Sticker M, Fumagalli S, Allegrini PR, Kozma SC, Auwerx J, Thomas G (2004) Absence of S6K1 protects against age- and diet-induced obesity while enhancing insulin sensitivity. Nature 431:200–205. https://doi.org/10.1038/nature02866
Ubersax JA, Ferrell JE (2007) Mechanisms of specificity in protein phosphorylation. Nat Rev Mol Cell Biol 8:530–541. https://doi.org/10.1038/nrm2203
Vargas R, Vásquez IC (2017) Effects of overfeeding and high-fat diet on cardiosomatic parameters and cardiac structures in young and adult zebrafish. Fish Physiol Biochem 43:1761–1773. https://doi.org/10.1007/s10695-017-0407-7
Wiggenhauser LM, Kroll J (2019) Vascular damage in obesity and diabetes: Highlighting links between endothelial dysfunction and metabolic disease in zebrafish and man. Curr Vasc Pharmacol 17:476–490. https://doi.org/10.2174/1570161116666181031101413
Wang F, Mullican SE, Dispirito JR, Peed LC, Lazar MA (2013) Lipoatrophy and severe metabolic disturbance in mice with fat-specific deletion of pparγ. PNAS 110:18656–18661. https://doi.org/10.1073/pnas.1314863110
Yeliz B, Andrew PB, Andrew JT, Qian D, Elsbeth JR, Adam CP, Sebastian JM, Nathan EH, Tanya AJC, Annie YN (2013) Autophagy induction is a tor- and tp53-independent cell survival response in a zebrafish model of disrupted ribosome biogenesis. PLoS Genet 9:e1003279. https://doi.org/10.1371/journal.pgen.1003279
Yu S, Matsusue K, Kashireddy P, Cao WQ, Yeldandi V, Yeldandi AV, Rao MS, Gonzalez FJ, Reddy JK (2003) Adipocyte-specific gene expression and adipogenic steatosis in the mouse liver due to peroxisome proliferator–activated receptor gamma1 (PPARgamma1) overexpression. J Biol Chem 278:498–505. https://doi.org/10.1074/jbc.M210062200
Zimmet P, Alberti KGM, Shaw J (2001) Global and societal implications of the diabetes epidemic. Nature 414:782–787. https://doi.org/10.1038/414782a
Zhao Y, Cao XJ, Fu LL, Gao J (2020a) n-3 PUFA reduction caused by fabp2 deletion interferes with triacylglycerol metabolism and cholesterol homeostasis in fish. Appl Microbiol Biotechnol 104:2149–2161. https://doi.org/10.1007/s00253-020-10366-9
Zhao Y, Yang G, Wu NY, Cao XJ, Gao J (2020b) Integrated transcriptome and phosphoproteome analyses reveal that fads2 is critical for maintaining body LC-PUFA homeostasis. J Proteomics 229:103967. https://doi.org/10.1016/j.jprot.2020.103967
Zhang Y, Fonslow BR, Shan B, Baek MC, Yates JR (2013) Protein analysis by shotgun/bottom-up proteomics. Chem Rev 113:2343–2394. https://doi.org/10.1021/cr3003533
Acknowledgements
We thank Dr. Wang from University of California Davis for revising the English writing of this manuscript.
Funding
This study was supported by the National Natural Science Foundation of China (31872579) and State Key Laboratory of Freshwater Ecology and Biotechnology (Y119011F01).
Author information
Authors and Affiliations
Contributions
J.G. FC.C., and Ó.M., designed research; Y.Z. and J.G. conducted the experiment, sample analysis, analyzed data, and wrote the paper; FC.C., Ó.M., X.C., and Y.S. revised the manuscript; Y.Z. and J.G. had primary responsibility for final content. All authors have read and approved the final manuscript.
Corresponding author
Ethics declarations
Conflict of interest
The authors declare no competing interests.
Ethical approval
All procedures were approved by the Guidelines of the Institutional Animal Ethics Committee and the Use of Laboratory Animals of Huazhong Agricultural University (Wuhan, China) and the ethical standards stipulated in the Declaration of Helsinki in 1964 and its amendments.
Data availability
All proteome and phosphoproteome data are available in the PRoteomics IDEntifications Database (PRIDE) under accession PXD017737.
Ethics approval and consent to participate
This study was conducted in strict accordance with the recommendations in the guide for the Care and Use of Laboratory Animals of Huazhong Agricultural University. All efforts were made to minimize the suffering of the zebrafish.
Consent for publication
The authors consent to the manuscript published.
Additional information
Publisher’s note
Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Supplementary Information
Below is the link to the electronic supplementary material.
Rights and permissions
About this article
Cite this article
Zhao, Y., Castro, L.F.C., Monroig, Ó. et al. A zebrafish pparγ gene deletion reveals a protein kinase network associated with defective lipid metabolism. Funct Integr Genomics 22, 435–450 (2022). https://doi.org/10.1007/s10142-022-00839-7
Received:
Revised:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s10142-022-00839-7