Single-cell analysis reveals an Angpt4-initiated EPDC-EC-CM cellular coordination cascade during heart regeneration
Received date: 11 Nov 2021
Accepted date: 19 Apr 2022
Published date: 15 May 2023
Copyright
Mammals exhibit limited heart regeneration ability, which can lead to heart failure after myocardial infarction. In contrast, zebrafish exhibit remarkable cardiac regeneration capacity. Several cell types and signaling pathways have been reported to participate in this process. However, a comprehensive analysis of how different cells and signals interact and coordinate to regulate cardiac regeneration is unavailable. We collected major cardiac cell types from zebrafish and performed high-precision single-cell transcriptome analyses during both development and post-injury regeneration. We revealed the cellular heterogeneity as well as the molecular progress of cardiomyocytes during these processes, and identified a subtype of atrial cardiomyocyte exhibiting a stem-like state which may transdifferentiate into ventricular cardiomyocytes during regeneration. Furthermore, we identified a regeneration-induced cell (RIC) population in the epicardium-derived cells (EPDC), and demonstrated Angiopoietin 4 (Angpt4) as a specific regulator of heart regeneration. angpt4 expression is specifically and transiently activated in RIC, which initiates a signaling cascade from EPDC to endocardium through the Tie2-MAPK pathway, and further induces activation of cathepsin K in cardiomyocytes through RA signaling. Loss of angpt4 leads to defects in scar tissue resolution and cardiomyocyte proliferation, while overexpression of angpt4 accelerates regeneration. Furthermore, we found that ANGPT4 could enhance proliferation of neonatal rat cardiomyocytes, and promote cardiac repair in mice after myocardial infarction, indicating that the function of Angpt4 is conserved in mammals. Our study provides a mechanistic understanding of heart regeneration at single-cell precision, identifies Angpt4 as a key regulator of cardiomyocyte proliferation and regeneration, and offers a novel therapeutic target for improved recovery after human heart injuries.
Key words: scRNA-seq; zebrafish; heart regeneration; Angpt4; EPDC
Zekai Wu , Yuan Shi , Yueli Cui , Xin Xing , Liya Zhang , Da Liu , Yutian Zhang , Ji Dong , Li Jin , Meijun Pang , Rui-Ping Xiao , Zuoyan Zhu , Jing-Wei Xiong , Xiangjun Tong , Yan Zhang , Shiqiang Wang , Fuchou Tang , Bo Zhang . Single-cell analysis reveals an Angpt4-initiated EPDC-EC-CM cellular coordination cascade during heart regeneration[J]. Protein & Cell, 2023 , 14(5) : 350 -368 . DOI: 10.1093/procel/pwac010
1 |
Bollini S, Vieira JM, Howard S et al. Re-activated adult epicardial progenitor cells are a heterogeneous population molecularly distinct from their embryonic counterparts. Stem Cells Dev 2014;23:1719–1730.
|
2 |
Butler A, Hoffman P, Smibert P et al. Integrating single-cell transcriptomic data across different conditions, technologies, and species. Nat Biotechnol 2018;36:411–420.
|
3 |
Cahill TJ, Choudhury RP, Riley PR. Heart regeneration and repair after myocardial infarction: translational opportunities for novel therapeutics. Nat Rev Drug Discov 2017;16:699–717.
|
4 |
Cai ZL, Liu C, Yao Q et al. The pro-migration and anti-apoptosis effects of HMGA2 in HUVECs stimulated by hypoxia. Cell Cycle 2020;19:3534–3545.
|
5 |
Cao J, Poss KD. The epicardium as a hub for heart regeneration. Nat Rev Cardiol 2018;15:631–647.
|
6 |
Chablais F, Veit J, Rainer G et al. The zebrafish heart regenerates after cryoinjury-induced myocardial infarction. BMC Dev Biol 2011;11:21.
|
7 |
Chang N, Sun C, Gao L et al. Genome editing with RNA-guided Cas9 nuclease in zebrafish embryos. Cell Res 2013;23:465–472.
|
8 |
Chi NC, Shaw RM, Jungblut B et al. Genetic and physiologic dissection of the vertebrate cardiac conduction system. PLoS Biol 2008;6:e109.
|
9 |
Cho CH, Sung HK, Kim KT et al. COMP-angiopoietin-1 promotes wound healing through enhanced angiogenesis, lymphangiogenesis, and blood flow in a diabetic mouse model. Proc Natl Acad Sci USA 2006;103:4946–4951.
|
10 |
Cui Y, Zheng Y, Liu X et al. Single-cell transcriptome analysis maps the developmental track of the human heart. Cell Rep 2019;26:1934–1950.e5.
|
11 |
Davis S, Aldrich TH, Jones PF et al. Isolation of angiopoietin-1, a ligand for the TIE2 receptor, by secretion-trap expression cloning. Cell 1996;87:1161–1169.
|
12 |
de Bakker DEM, Bouwman M, Dronkers E et al. Prrx1b restricts fibrosis and promotes Nrg1-dependent cardiomyocyte proliferation during zebrafish heart regeneration. Development 2021;148:dev198937.
|
13 |
Dobin A, Davis CA, Schlesinger F et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics 2013;29:15–21.
|
14 |
Duan J, Gherghe C, Liu D et al. Wnt1/betacatenin injury response activates the epicardium and cardiac fibroblasts to promote cardiac repair. EMBO J 2012;31:429–442.
|
15 |
Elamaa H, Kihlstrom M, Kapiainen E et al. Angiopoietin-4-dependent venous maturation and fluid drainage in the peripheral retina. Elife 2018;7:e37776.
|
16 |
Fang W, He A, Xiang MX et al. Cathepsin K-deficiency impairs mouse cardiac function after myocardial infarction. J Mol Cell Cardiol 2019;127:44–56.
|
17 |
Feng L, Hernandez RE, Waxman JS et al. Dhrs3a regulates retinoic acid biosynthesis through a feedback inhibition mechanism. Dev Biol 2010;338:1–14.
|
18 |
Fernandez CE, Bakovic M, Karra R. Endothelial contributions to zebrafish heart regeneration. J Cardiovasc Dev Dis 2018;5:56.
|
19 |
Fink M, Callol-Massot C, Chu A et al. A new method for detection and quantification of heartbeat parameters in Drosophila, zebrafish, and embryonic mouse hearts. Biotechniques 2009;46:101–113.
|
20 |
Gamba L, Amin-Javaheri A, Kim J et al. Collagenolytic activity is associated with scar resolution in zebrafish hearts after cryoinjury. J Cardiovasc Dev Dis 2017;4:2.
|
21 |
Gemberling M, Karra R, Dickson AL et al. Nrg1 is an injury-induced cardiomyocyte mitogen for the endogenous heart regeneration program in zebrafish. Elife 2015;4:e05871.
|
22 |
Gene Ontology C. The Gene Ontology resource: enriching a GOld mine. Nucleic Acids Res 2021;49:D325–D334.
|
23 |
Gonzalez-Rosa JM, Burns CE, Burnss CG. Zebrafish heart regeneration: 15 years of discoveries. Regeneration (Oxf) 2017;4:105–123.
|
24 |
Gonzalez-Rosa JM, Martin V, Peralta M et al. Extensive scar formation and regression during heart regeneration after cryoinjury in zebrafish. Development 2011;138:1663–1674.
|
25 |
Grajevskaja V, Camerota D, Bellipanni G et al. Analysis of a conditional gene trap reveals that tbx5a is required for heart regeneration in zebrafish. PLoS One 2018;13:e0197293.
|
26 |
Grun D, Muraro MJ, Boisset JC et al. De novo prediction of stem cell identity using single-cell transcriptome data. Cell Stem Cell 2016;19:266–277.
|
27 |
Han P, Zhou XH, Chang N et al. Hydrogen peroxide primes heart regeneration with a derepression mechanism. Cell Res 2014;24:1091–1107.
|
28 |
Honkoop H, de Bakker DE, Aharonov A et al. Single-cell analysis uncovers that metabolic reprogramming by ErbB2 signaling is essential for cardiomyocyte proliferation in the regenerating heart. Elife 2019;8:e50163.
|
29 |
Huang H, Bhat A, Woodnutt G et al. Targeting the ANGPT-TIE2 pathway in malignancy. Nat Rev Cancer 2010;10:575–585.
|
30 |
Huang S, Li X, Zheng H et al. Loss of super-enhancer-regulated cir-cRNA Nfix induces cardiac regeneration after myocardial infarction in adult mice. Circulation 2019;139:2857–2876.
|
31 |
Ieda M, Tsuchihashi T, Ivey KN et al. Cardiac fibroblasts regulate myocardial proliferation through beta1 integrin signaling. Dev Cell 2009;16:233–244.
|
32 |
Itou J, Oishi I, Kawakami H et al. Migration of cardiomyocytes is essential for heart regeneration in zebrafish. Development 2012;139:4133–4142.
|
33 |
Jessup M, Brozena S. Heart failure. N Engl J Med 2003;348:2007–2018.
|
34 |
Jopling C, Sleep E, Raya M et al. Zebrafish heart regeneration occurs by cardiomyocyte dedifferentiation and proliferation. Nature 2010;464:606–609.
|
35 |
Ju BG, Kim WS. Upregulation of cathepsin D expression in the dedifferentiating salamander limb regenerates and enhancement of its expression by retinoic acid. Wound Repair Regen 1998;6:349–357.
|
36 |
Kalfon R, Friedman T, Eliachar S et al. JDP2 and ATF3 deficiencies dampen maladaptive cardiac remodeling and preserve cardiac function. PLoS One 2019;14:e0213081.
|
37 |
Kawakami K, Takeda H, Kawakami N et al. A transposon-mediated gene trap approach identifies developmentally regulated genes in zebrafish. Dev Cell 2004;7:133–144.
|
38 |
Kesler CT, Pereira ER, Cui CH et al. Angiopoietin-4 increases permeability of blood vessels and promotes lymphatic dilation. FASEB J 2015;29:3668–3677.
|
39 |
Kikuchi K, Gupta V, Wang J et al. tcf21+ epicardial cells adopt non-myocardial fates during zebrafish heart development and regeneration. Development 2011a;138:2895–2902.
|
40 |
Kikuchi K, Holdway JE, Major RJ et al. Retinoic acid production by endocardium and epicardium is an injury response essential for zebrafish heart regeneration. Dev Cell 2011b;20:397–404.
|
41 |
Lee HJ, Bae SW, Koh GY et al. COMP-Ang1, angiopoietin-1 variant protects radiation-induced bone marrow damage in C57BL/6 mice. J Radiat Res 2008;49:313–320.
|
42 |
Lepilina A, Coon AN, Kikuchi K et al. A dynamic epicardial injury response supports progenitor cell activity during zebrafish heart regeneration. Cell 2006;127:607–619.
|
43 |
Li L, Dong J, Yan L et al. Single-Cell RNA-Seq Analysis Maps Development of Human Germline Cells and Gonadal Niche Interactions. Cell Stem Cell 2017;20:891–892.
|
44 |
Li W, Zhang Y, Han B et al. One-step efficient generation of dual-function conditional knockout and geno-tagging alleles in zebrafish. Elife 2019;8:e48081.
|
45 |
Lie-Venema H, van den Akker NM, Bax NA et al. Origin, fate, and function of epicardium-derived cells (EPDCs) in normal and abnormal cardiac development. ScientificWorldJournal 2007;7:1777–1798.
|
46 |
Liu P, Zhong TP. MAPK/ERK signalling is required for zebrafish cardiac regeneration. Biotechnol Lett 2017;39:1069–1077.
|
47 |
Lourenco AB, Artal-Sanz M. The mitochondrial prohibitin (PHB) complex in C. elegans metabolism and ageing regulation. Metabolites 2021;11:636.
|
48 |
Lu CJ, Fan XY, Guo YF et al. Single-cell analyses identify distinct and intermediate states of zebrafish pancreatic islet development. J Mol Cell Biol 2019;11:435–447.
|
49 |
Missinato MA, Saydmohammed M, Zuppo DA et al. Dusp6 attenuates Ras/MAPK signaling to limit zebrafish heart regeneration. Development 2018;145:dev157206.
|
50 |
Mosimann C, Kaufman CK, Li P et al. Ubiquitous transgene expression and Cre-based recombination driven by the ubiquitin promoter in zebrafish. Development 2011;138:169–177.
|
51 |
Paffett-Lugassy N, Novikov N, Jeffrey S et al. Unique developmental trajectories and genetic regulation of ventricular and outflow tract progenitors in the zebrafish second heart field. Development 2017;144:4616–4624.
|
52 |
Parmar D, Apte M. Angiopoietin inhibitors: a review on targeting tumor angiogenesis. Eur J Pharmacol 2021;899:174021.
|
53 |
Picelli S, Faridani OR, Bjorklund AK et al. Full-length RNA-seq from single cells using Smart-seq2. Nat Protoc 2014;9:171–181.
|
54 |
Porrello ER, Mahmoud AI, Simpson E et al. Transient regenerative potential of the neonatal mouse heart. Science 2011;331:1078–1080.
|
55 |
Poss KD, Wilson LG, Keating MT. Heart regeneration in zebrafish. Science 2002;298:2188–2190.
|
56 |
Ren P, Xing L, Hong X et al. LncRNA PITPNA-AS1 boosts the proliferation and migration of lung squamous cell carcinoma cells by recruiting TAF15 to stabilize HMGB3 mRNA. Cancer Med 2020;9:7706–7716.
|
57 |
Sallin P, de Preux Charles AS, Duruz V et al. A dual epimorphic and compensatory mode of heart regeneration in zebrafish. Dev Biol 2015;399:27–40.
|
58 |
Saneshige S, Mano H, Tezuka K et al. Retinoic acid directly stimulates osteoclastic bone resorption and gene expression of cathepsin K/OC-2. Biochem J 1995;309:721–724.
|
59 |
Schindler YL, Garske KM, Wang J et al. Hand2 elevates cardiomyocyte production during zebrafish heart development and regeneration. Development 2014;141:3112–3122.
|
60 |
Schnabel K, Wu CC, Kurth T et al. Regeneration of cryoinjury induced necrotic heart lesions in zebrafish is associated with epicardial activation and cardiomyocyte proliferation. PLoS One 2011;6:e18503.
|
61 |
Sierpinski R, Josiak K, Suchocki T et al. High soluble transferrin receptor in patients with heart failure: a measure of iron deficiency and a strong predictor of mortality. Eur J Heart Fail 2021;23:919–932.
|
62 |
Smith T, Heger A, Sudbery I. UMI-tools: modeling sequencing errors in Unique Molecular Identifiers to improve quantification accuracy. Genome Res 2017;27:491–499.
|
63 |
Song Y, Xu C, Liu J et al. Heterodimerization With 5-HT2BR Is Indispensable for beta2AR-Mediated Cardioprotection. Circ Res 2021;128:262–277.
|
64 |
Tahara N, Brush M, Kawakami Y. Cell migration during heart regeneration in zebrafish. Dev Dyn 2016;245:774–787.
|
65 |
Tao G, Kahr PC, Morikawa Y et al. Pitx2 promotes heart repair by activating the antioxidant response after cardiac injury. Nature 2016;534:119–123.
|
66 |
Tarnavski O, McMullen JR, Schinke M et al. Mouse cardiac surgery: comprehensive techniques for the generation of mouse models of human diseases and their application for genomic studies. Physiol Genomics 2004;16:349–360.
|
67 |
Thiery JP, Acloque H, Huang RY et al. Epithelial-mesenchymal transitions in development and disease. Cell 2009;139:871–890.
|
68 |
Tirosh I, Izar B, Prakadan SM et al. Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq. Science 2016;352:189–196.
|
69 |
Tong X, Zu Y, Li Z et al. Kctd10 regulates heart morphogenesis by repressing the transcriptional activity of Tbx5a in zebrafish. Nat Commun 2014;5:3153.
|
70 |
Trapnell C, Cacchiarelli D, Grimsby J et al. The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells. Nat Biotechnol 2014;32:381–386.
|
71 |
Uygur A, Lee RT. Mechanisms of Cardiac Regeneration. Dev Cell 2016;36:362–374.
|
72 |
Vieira JM, Howard S, Villa Del Campo C et al. BRG1-SWI/SNF-dependent regulation of the Wt1 transcriptional landscape mediates epicardial activity during heart development and disease. Nat Commun 2017;8:16034.
|
73 |
Wang J, Cao J, Dickson AL et al. Epicardial regeneration is guided by cardiac outflow tract and Hedgehog signalling. Nature 2015;522:226–230.
|
74 |
Wang J, Karra R, Dickson AL et al. Fibronectin is deposited by injury- activated epicardial cells and is necessary for zebrafish heart regeneration. Dev Biol 2013a;382:427–435.
|
75 |
Wang J, Panakova D, Kikuchi K et al. The regenerative capacity of zebrafish reverses cardiac failure caused by genetic cardiomyocyte depletion. Development 2011;138:3421–3430.
|
76 |
Wang L, Liu T, Xu L et al. Fev regulates hematopoietic stem cell development via ERK signaling. Blood 2013b;122:367–375.
|
77 |
Wu RS, Lam II, Clay H et al. A Rapid Method for Directed Gene Knockout for Screening in G0 Zebrafish. Dev Cell 2018;46:112–125.
|
78 |
Xu W, Barrientos T, Mao L et al. Lethal Cardiomyopathy in Mice Lacking Transferrin Receptor in the Heart. Cell Rep 2015;13:533–545.
|
79 |
Youn SW, Lee HC, Lee SW et al. COMP-Angiopoietin-1 accelerates muscle regeneration through N-cadherin activation. Sci Rep 2018;8:12323.
|
80 |
Zhang C, Chen Y, Sun B et al. m(6)A modulates haematopoietic stem and progenitor cell specification. Nature 2017;549:273–276.
|
81 |
Zhang R, Han P, Yang H et al. In vivo cardiac reprogramming contributes to zebrafish heart regeneration. Nature 2013;498:497–501.
|
82 |
Zhao L, Borikova AL, Ben-Yair R et al. Notch signaling regulates cardiomyocyte proliferation during zebrafish heart regeneration. Proc Natl Acad Sci USA 2014;111:1403–1408.
|
83 |
Zhong S, Zhang S, Fan X et al. A single-cell RNA-seq survey of the developmental landscape of the human prefrontal cortex. Nature 2018;555:524–528.
|
84 |
Zhou Y, Zhou B, Pache L et al. Metascape provides a biologist-oriented resource for the analysis of systems-level datasets. Nat Commun 2019;10:1523.
|
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