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Quaife-Ryan GA, Sim CB, Ziemann M, Kaspi A, Rafehi H, Ramialison M, El-Osta A, Hudson JE, Porrello ER. Multicellular Transcriptional Analysis of Mammalian Heart Regeneration. Circulation 2017; 136:1123-1139. [PMID: 28733351 PMCID: PMC5598916 DOI: 10.1161/circulationaha.117.028252] [Citation(s) in RCA: 175] [Impact Index Per Article: 25.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/07/2017] [Accepted: 06/27/2017] [Indexed: 11/16/2022]
Abstract
BACKGROUND The inability of the adult mammalian heart to regenerate following injury represents a major barrier in cardiovascular medicine. In contrast, the neonatal mammalian heart retains a transient capacity for regeneration, which is lost shortly after birth. Defining the molecular mechanisms that govern regenerative capacity in the neonatal period remains a central goal in cardiac biology. Here, we assemble a transcriptomic framework of multiple cardiac cell populations during postnatal development and following injury, which enables comparative analyses of the regenerative (neonatal) versus nonregenerative (adult) state for the first time. METHODS Cardiomyocytes, fibroblasts, leukocytes, and endothelial cells from infarcted and noninfarcted neonatal (P1) and adult (P56) mouse hearts were isolated by enzymatic dissociation and fluorescence-activated cell sorting at day 3 following surgery. RNA sequencing was performed on these cell populations to generate the transcriptome of the major cardiac cell populations during cardiac development, repair, and regeneration. To complement our transcriptomic data, we also surveyed the epigenetic landscape of cardiomyocytes during postnatal maturation by performing deep sequencing of accessible chromatin regions by using the Assay for Transposase-Accessible Chromatin from purified mouse cardiomyocyte nuclei (P1, P14, and P56). RESULTS Profiling of cardiomyocyte and nonmyocyte transcriptional programs uncovered several injury-responsive genes across regenerative and nonregenerative time points. However, the majority of transcriptional changes in all cardiac cell types resulted from developmental maturation from neonatal stages to adulthood rather than activation of a distinct regeneration-specific gene program. Furthermore, adult leukocytes and fibroblasts were characterized by the expression of a proliferative gene expression network following infarction, which mirrored the neonatal state. In contrast, cardiomyocytes failed to reactivate the neonatal proliferative network following infarction, which was associated with loss of chromatin accessibility around cell cycle genes during postnatal maturation. CONCLUSIONS This work provides a comprehensive framework and transcriptional resource of multiple cardiac cell populations during cardiac development, repair, and regeneration. Our findings define a regulatory program underpinning the neonatal regenerative state and identify alterations in the chromatin landscape that could limit reinduction of the regenerative program in adult cardiomyocytes.
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Affiliation(s)
- Gregory A Quaife-Ryan
- From School of Biomedical Sciences, University of Queensland, Brisbane, Australia (G.A.Q.-R., C.B.S., J.E.H., E.R.P.); Baker Heart and Diabetes Institute, Melbourne, Victoria, Australia (M.Z., A.K., H.R., A.E.-O.); Central Clinical School, Monash University, Melbourne, Victoria, Australia (M.Z., A.K., H.R., A.E.-O.); Australian Regenerative Medicine Institute, EMBL-Australia Collaborating Group, Systems Biology Institute Australia, Monash University, Melbourne, Victoria (M.R.); Hong Kong Institute of Diabetes and Obesity, Prince of Wales Hospital, Chinese University of Hong Kong (A.E.-O.); Murdoch Childrens Research Institute, Royal Children's Hospital, Melbourne, Victoria, Australia (E.R.P.); and Department of Physiology, School of Biomedical Sciences, University of Melbourne, Victoria, Australia (E.R.P.)
| | - Choon Boon Sim
- From School of Biomedical Sciences, University of Queensland, Brisbane, Australia (G.A.Q.-R., C.B.S., J.E.H., E.R.P.); Baker Heart and Diabetes Institute, Melbourne, Victoria, Australia (M.Z., A.K., H.R., A.E.-O.); Central Clinical School, Monash University, Melbourne, Victoria, Australia (M.Z., A.K., H.R., A.E.-O.); Australian Regenerative Medicine Institute, EMBL-Australia Collaborating Group, Systems Biology Institute Australia, Monash University, Melbourne, Victoria (M.R.); Hong Kong Institute of Diabetes and Obesity, Prince of Wales Hospital, Chinese University of Hong Kong (A.E.-O.); Murdoch Childrens Research Institute, Royal Children's Hospital, Melbourne, Victoria, Australia (E.R.P.); and Department of Physiology, School of Biomedical Sciences, University of Melbourne, Victoria, Australia (E.R.P.)
| | - Mark Ziemann
- From School of Biomedical Sciences, University of Queensland, Brisbane, Australia (G.A.Q.-R., C.B.S., J.E.H., E.R.P.); Baker Heart and Diabetes Institute, Melbourne, Victoria, Australia (M.Z., A.K., H.R., A.E.-O.); Central Clinical School, Monash University, Melbourne, Victoria, Australia (M.Z., A.K., H.R., A.E.-O.); Australian Regenerative Medicine Institute, EMBL-Australia Collaborating Group, Systems Biology Institute Australia, Monash University, Melbourne, Victoria (M.R.); Hong Kong Institute of Diabetes and Obesity, Prince of Wales Hospital, Chinese University of Hong Kong (A.E.-O.); Murdoch Childrens Research Institute, Royal Children's Hospital, Melbourne, Victoria, Australia (E.R.P.); and Department of Physiology, School of Biomedical Sciences, University of Melbourne, Victoria, Australia (E.R.P.)
| | - Antony Kaspi
- From School of Biomedical Sciences, University of Queensland, Brisbane, Australia (G.A.Q.-R., C.B.S., J.E.H., E.R.P.); Baker Heart and Diabetes Institute, Melbourne, Victoria, Australia (M.Z., A.K., H.R., A.E.-O.); Central Clinical School, Monash University, Melbourne, Victoria, Australia (M.Z., A.K., H.R., A.E.-O.); Australian Regenerative Medicine Institute, EMBL-Australia Collaborating Group, Systems Biology Institute Australia, Monash University, Melbourne, Victoria (M.R.); Hong Kong Institute of Diabetes and Obesity, Prince of Wales Hospital, Chinese University of Hong Kong (A.E.-O.); Murdoch Childrens Research Institute, Royal Children's Hospital, Melbourne, Victoria, Australia (E.R.P.); and Department of Physiology, School of Biomedical Sciences, University of Melbourne, Victoria, Australia (E.R.P.)
| | - Haloom Rafehi
- From School of Biomedical Sciences, University of Queensland, Brisbane, Australia (G.A.Q.-R., C.B.S., J.E.H., E.R.P.); Baker Heart and Diabetes Institute, Melbourne, Victoria, Australia (M.Z., A.K., H.R., A.E.-O.); Central Clinical School, Monash University, Melbourne, Victoria, Australia (M.Z., A.K., H.R., A.E.-O.); Australian Regenerative Medicine Institute, EMBL-Australia Collaborating Group, Systems Biology Institute Australia, Monash University, Melbourne, Victoria (M.R.); Hong Kong Institute of Diabetes and Obesity, Prince of Wales Hospital, Chinese University of Hong Kong (A.E.-O.); Murdoch Childrens Research Institute, Royal Children's Hospital, Melbourne, Victoria, Australia (E.R.P.); and Department of Physiology, School of Biomedical Sciences, University of Melbourne, Victoria, Australia (E.R.P.)
| | - Mirana Ramialison
- From School of Biomedical Sciences, University of Queensland, Brisbane, Australia (G.A.Q.-R., C.B.S., J.E.H., E.R.P.); Baker Heart and Diabetes Institute, Melbourne, Victoria, Australia (M.Z., A.K., H.R., A.E.-O.); Central Clinical School, Monash University, Melbourne, Victoria, Australia (M.Z., A.K., H.R., A.E.-O.); Australian Regenerative Medicine Institute, EMBL-Australia Collaborating Group, Systems Biology Institute Australia, Monash University, Melbourne, Victoria (M.R.); Hong Kong Institute of Diabetes and Obesity, Prince of Wales Hospital, Chinese University of Hong Kong (A.E.-O.); Murdoch Childrens Research Institute, Royal Children's Hospital, Melbourne, Victoria, Australia (E.R.P.); and Department of Physiology, School of Biomedical Sciences, University of Melbourne, Victoria, Australia (E.R.P.)
| | - Assam El-Osta
- From School of Biomedical Sciences, University of Queensland, Brisbane, Australia (G.A.Q.-R., C.B.S., J.E.H., E.R.P.); Baker Heart and Diabetes Institute, Melbourne, Victoria, Australia (M.Z., A.K., H.R., A.E.-O.); Central Clinical School, Monash University, Melbourne, Victoria, Australia (M.Z., A.K., H.R., A.E.-O.); Australian Regenerative Medicine Institute, EMBL-Australia Collaborating Group, Systems Biology Institute Australia, Monash University, Melbourne, Victoria (M.R.); Hong Kong Institute of Diabetes and Obesity, Prince of Wales Hospital, Chinese University of Hong Kong (A.E.-O.); Murdoch Childrens Research Institute, Royal Children's Hospital, Melbourne, Victoria, Australia (E.R.P.); and Department of Physiology, School of Biomedical Sciences, University of Melbourne, Victoria, Australia (E.R.P.)
| | - James E Hudson
- From School of Biomedical Sciences, University of Queensland, Brisbane, Australia (G.A.Q.-R., C.B.S., J.E.H., E.R.P.); Baker Heart and Diabetes Institute, Melbourne, Victoria, Australia (M.Z., A.K., H.R., A.E.-O.); Central Clinical School, Monash University, Melbourne, Victoria, Australia (M.Z., A.K., H.R., A.E.-O.); Australian Regenerative Medicine Institute, EMBL-Australia Collaborating Group, Systems Biology Institute Australia, Monash University, Melbourne, Victoria (M.R.); Hong Kong Institute of Diabetes and Obesity, Prince of Wales Hospital, Chinese University of Hong Kong (A.E.-O.); Murdoch Childrens Research Institute, Royal Children's Hospital, Melbourne, Victoria, Australia (E.R.P.); and Department of Physiology, School of Biomedical Sciences, University of Melbourne, Victoria, Australia (E.R.P.).
| | - Enzo R Porrello
- From School of Biomedical Sciences, University of Queensland, Brisbane, Australia (G.A.Q.-R., C.B.S., J.E.H., E.R.P.); Baker Heart and Diabetes Institute, Melbourne, Victoria, Australia (M.Z., A.K., H.R., A.E.-O.); Central Clinical School, Monash University, Melbourne, Victoria, Australia (M.Z., A.K., H.R., A.E.-O.); Australian Regenerative Medicine Institute, EMBL-Australia Collaborating Group, Systems Biology Institute Australia, Monash University, Melbourne, Victoria (M.R.); Hong Kong Institute of Diabetes and Obesity, Prince of Wales Hospital, Chinese University of Hong Kong (A.E.-O.); Murdoch Childrens Research Institute, Royal Children's Hospital, Melbourne, Victoria, Australia (E.R.P.); and Department of Physiology, School of Biomedical Sciences, University of Melbourne, Victoria, Australia (E.R.P.).
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Nakamoto T, Izu Y, Kawasaki M, Notomi T, Hayata T, Noda M, Ezura Y. Mice Deficient in CIZ/NMP4 Develop an Attenuated Form of K/BxN-Serum Induced Arthritis. J Cell Biochem 2015; 117:970-7. [PMID: 26378628 DOI: 10.1002/jcb.25382] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2015] [Accepted: 09/15/2015] [Indexed: 01/08/2023]
Abstract
CIZ/NMP4 (Cas interacting zinc finger protein, Nmp4, Zfp384) is a transcription factor that is known to regulate matrix related-proteins. To explore the possible pathophysiological role of CIZ/NMP4 in arthritis, we examined CIZ/NMP4 expression in articular cartilage in arthritis model. CIZ/NMP4 was expressed in the articular chondrocytes of mice at low levels while its expression was enhanced when arthritis was induced. Arthritis induction increased clinical score in wild type mice. In contrast, CIZ/NMP4 deficiency suppressed such rise in the levels of arthritis score and swelling of soft tissue. CIZ/NMP4 deficiency also reduced invasion of inflammatory cells in joint tissue. Quantitative PCR analyses of mRNA from joints revealed that arthritis-induced increase in expressions of IL-1β was suppressed by CIZ/NMP4 deficiency. CIZ/NMP4 bound to IL-1β promoter and activated its transcription. The increase in CIZ/NMP4 in arthritis was also associated with enhancement in bone resorption and cartilage matrix degradation. In fact, RANKL, a signaling molecule prerequisite for osteoclastogenesis and, MMP-3, a clinical marker for arthritis were increased in joints upon arthritis induction. In contrast, CIZ/NMP4 deficiency suppressed the arthritis-induced increase in bone resorption, expression of RANKL and MMP-3 mRNA. Thus, CIZ/NMP4 plays a role in the development of arthritis at least in part through regulation of key molecules related to the arthritis.
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Affiliation(s)
- Tetsuya Nakamoto
- Department of Molecular Pharmacology, Medical Research Institute, Tokyo Medical and Dental University, Tokyo, 113-8510, Japan
| | - Yayoi Izu
- Department of Molecular Pharmacology, Medical Research Institute, Tokyo Medical and Dental University, Tokyo, 113-8510, Japan
| | - Makiri Kawasaki
- Department of Molecular Pharmacology, Medical Research Institute, Tokyo Medical and Dental University, Tokyo, 113-8510, Japan
| | - Takuya Notomi
- Department of Molecular Pharmacology, Medical Research Institute, Tokyo Medical and Dental University, Tokyo, 113-8510, Japan
| | - Tadayoshi Hayata
- Department of Molecular Pharmacology, Medical Research Institute, Tokyo Medical and Dental University, Tokyo, 113-8510, Japan
| | - Masaki Noda
- Department of Molecular Pharmacology, Medical Research Institute, Tokyo Medical and Dental University, Tokyo, 113-8510, Japan
| | - Yoichi Ezura
- Department of Molecular Pharmacology, Medical Research Institute, Tokyo Medical and Dental University, Tokyo, 113-8510, Japan
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