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Duchesne R, Guillemin A, Crauste F, Gandrillon O. Calibration, Selection and Identifiability Analysis of a Mathematical Model of the in vitro Erythropoiesis in Normal and Perturbed Contexts. In Silico Biol 2019; 13:55-69. [PMID: 31006682 PMCID: PMC6597985 DOI: 10.3233/isb-190471] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
The in vivo erythropoiesis, which is the generation of mature red blood cells in the bone marrow of whole organisms, has been described by a variety of mathematical models in the past decades. However, the in vitro erythropoiesis, which produces red blood cells in cultures, has received much less attention from the modelling community. In this paper, we propose the first mathematical model of in vitro erythropoiesis. We start by formulating different models and select the best one at fitting experimental data of in vitro erythropoietic differentiation obtained from chicken erythroid progenitor cells. It is based on a set of linear ODE, describing 3 hypothetical populations of cells at different stages of differentiation. We then compute confidence intervals for all of its parameters estimates, and conclude that our model is fully identifiable. Finally, we use this model to compute the effect of a chemical drug called Rapamycin, which affects all states of differentiation in the culture, and relate these effects to specific parameter variations. We provide the first model for the kinetics of in vitro cellular differentiation which is proven to be identifiable. It will serve as a basis for a model which will better account for the variability which is inherent to the experimental protocol used for the model calibration.
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Affiliation(s)
- Ronan Duchesne
- Laboratoire de Biologie et Modélisation de la Cellule, CNRS UMR 5239, École Normale Supérieure de Lyon, 46 allée d'Italie, Lyon.,Inria team Dracula, Inria center Grenoble-Rhône Alpes, 56 Boulevard Niels Bohr, Villeurbanne
| | - Anissa Guillemin
- Laboratoire de Biologie et Modélisation de la Cellule, CNRS UMR 5239, École Normale Supérieure de Lyon, 46 allée d'Italie, Lyon
| | - Fabien Crauste
- Institut Mathématiques de Bordeaux, CNRS UMR5251, Université de Bordeaux, Talence, France
| | - Olivier Gandrillon
- Laboratoire de Biologie et Modélisation de la Cellule, CNRS UMR 5239, École Normale Supérieure de Lyon, 46 allée d'Italie, Lyon.,Inria team Dracula, Inria center Grenoble-Rhône Alpes, 56 Boulevard Niels Bohr, Villeurbanne
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Nguyen-Lefebvre AT, Leprun G, Morin V, Viñuelas J, Couté Y, Madjar JJ, Gandrillon O, Gonin-Giraud S. V-erbA generates ribosomes devoid of RPL11 and regulates translational activity in avian erythroid progenitors. Oncogene 2013; 33:1581-9. [PMID: 23563180 DOI: 10.1038/onc.2013.93] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2012] [Revised: 01/17/2013] [Accepted: 01/25/2013] [Indexed: 01/21/2023]
Abstract
The v-erbA oncogene transforms chicken erythrocytic progenitors (T2EC) by blocking their differentiation and freezing them in a state of self-renewal. Transcriptomes of T2EC, expressing either v-erbA or a non-transforming form of v-erbA (S61G), were compared using serial analysis of gene expression and some, but not all, mRNA-encoding ribosomal proteins were seen to be affected by v-erbA. These results suggest that this oncogene could modulate the composition of ribosomes. In the present study, we demonstrate, using two-dimensional difference in gel electrophoresis, that v-erbA-expressing cells have a lower amount of RPL11 associated with the ribosomes. The presence of ribosomes devoid of RPL11 in v-erbA-expressing cells was further confirmed by immunoprecipitation. In order to assess the possible impact of these specialized ribosomes on the translational activity, we analyzed proteomes of either v-erbA or S61G-expressing cells using 2D/mass spectrometry, and identified nine proteins present in differing amounts within these cells. Among these proteins, we focused on HSP70 because of its involvement in erythroid differentiation. Our results indicate that, in v-erbA-expressing cells, hsp70 is not only transcribed but also translated more efficiently, as shown by polyribosome fractionation experiments. We demonstrate here, for the first time, the existence of ribosomes with different protein components, notably ribosomes devoid of RPL11, and a regulation of mRNA translation depending on v-erbA oncogene expression.
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Affiliation(s)
- A T Nguyen-Lefebvre
- Centre de Génétique et de Physiologie Moléculaire et Cellulaire, CNRS UMR 5534, Université de Lyon, Université Lyon1, Villeurbanne Cedex, France
| | - G Leprun
- Centre de Génétique et de Physiologie Moléculaire et Cellulaire, CNRS UMR 5534, Université de Lyon, Université Lyon1, Villeurbanne Cedex, France
| | - V Morin
- Centre de Génétique et de Physiologie Moléculaire et Cellulaire, CNRS UMR 5534, Université de Lyon, Université Lyon1, Villeurbanne Cedex, France
| | - J Viñuelas
- Centre de Génétique et de Physiologie Moléculaire et Cellulaire, CNRS UMR 5534, Université de Lyon, Université Lyon1, Villeurbanne Cedex, France
| | - Y Couté
- 1] CEA, IRTSV, Laboratoire Biologie à Grande Echelle, Grenoble, France [2] INSERM, U1038, Grenoble, France [3] Université Joseph Fourier, Grenoble 1, Grenoble, France
| | - J-J Madjar
- Centre de Génétique et de Physiologie Moléculaire et Cellulaire, CNRS UMR 5534, Université de Lyon, Université Lyon1, Villeurbanne Cedex, France
| | - O Gandrillon
- Centre de Génétique et de Physiologie Moléculaire et Cellulaire, CNRS UMR 5534, Université de Lyon, Université Lyon1, Villeurbanne Cedex, France
| | - S Gonin-Giraud
- Centre de Génétique et de Physiologie Moléculaire et Cellulaire, CNRS UMR 5534, Université de Lyon, Université Lyon1, Villeurbanne Cedex, France
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Mejia-Pous C, Damiola F, Gandrillon O. Cholesterol synthesis-related enzyme oxidosqualene cyclase is required to maintain self-renewal in primary erythroid progenitors. Cell Prolif 2011; 44:441-52. [PMID: 21951287 DOI: 10.1111/j.1365-2184.2011.00771.x] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
Abstract
OBJECTIVES Molecular mechanisms controlling cell fate decision making in self-renewing cells are poorly understood. A previous transcriptomic study, carried out in primary avian erythroid progenitor cells (T2ECs), revealed that the gene encoding oxidosqualene cyclase (OSC/LSS), an enzyme involved in cholesterol biosynthesis, is significantly up-regulated in self-renewing cells. The aim of the present work is to understand whether this up-regulation is required for self-renewal maintenance and what are the mechanisms involved. MATERIALS AND METHODS To investigate OSC function, we studied effects of its enzymatic activity inhibition using Ro48-8071, a specific OSC inhibitor. In addition, we completed this pharmacological approach by RNAi-mediated OSC/LSS knockdown. The study of OSC inhibition was carried out on both self-renewing and differentiating cells to observe any state-dependent effect. RESULTS Our data show that OSC acts both by protecting self-renewing T2EC cells from apoptosis and by blocking their differentiation program, as OSC inhibition is sufficient to trigger spontaneous commitment of self-renewing cells towards an early differentiation state. This is self-renewal specific, as OSC inhibition has no effect on erythroid progenitors that have already differentiated. CONCLUSIONS Taken together, our results suggest that OSC/LSS expression and activity are required to maintain cell self-renewal and may be involved in the self-renewal versus differentiation/apoptosis decision making, by keeping cells in a self-renewal state.
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Affiliation(s)
- C Mejia-Pous
- Bases Moléculaires de l'Autorenouvellement et de ses Altérations" Group, Université de Lyon, Université Lyon 1, Villeurbanne, Centre de Génétique Moléculaire et Cellulaire, Lyon, France
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Bondzi C, Brunner AM, Munyikwa MR, Connor CD, Simmons AN, Stephens SL, Belt PA, Roggero VR, Mavinakere MS, Hinton SD, Allison LA. Recruitment of the oncoprotein v-ErbA to aggresomes. Mol Cell Endocrinol 2011; 332:196-212. [PMID: 21075170 PMCID: PMC4634111 DOI: 10.1016/j.mce.2010.10.012] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/02/2010] [Accepted: 10/14/2010] [Indexed: 02/01/2023]
Abstract
Aggresome formation, a cellular response to misfolded protein aggregates, is linked to cancer and neurodegenerative disorders. Previously we showed that Gag-v-ErbA (v-ErbA), a retroviral variant of the thyroid hormone receptor (TRα1), accumulates in and sequesters TRα1 into cytoplasmic foci. Here, we show that foci represent v-ErbA targeting to aggresomes. v-ErbA colocalizes with aggresomal markers, proteasomes, hsp70, HDAC6, and mitochondria. Foci have hallmark characteristics of aggresomes: formation is microtubule-dependent, accelerated by proteasome inhibitors, and they disrupt intermediate filaments. Proteasome-mediated degradation is critical for clearance of v-ErbA and T(3)-dependent TRα1 clearance. Our studies highlight v-ErbA's complex mode of action: the oncoprotein is highly mobile and trafficks between the nucleus, cytoplasm, and aggresome, carrying out distinct activities within each compartment. Dynamic trafficking to aggresomes contributes to the dominant negative activity of v-ErbA and may be enhanced by the viral Gag sequence. These studies provide insight into novel modes of oncogenesis across multiple cellular compartments.
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Affiliation(s)
- Cornelius Bondzi
- Department of Biological Sciences, Hampton University, Hampton, VA 23668
| | - Abigail M. Brunner
- Department of Biology, College of William and Mary, Williamsburg, VA 23187
| | | | - Crystal D. Connor
- Department of Biological Sciences, Hampton University, Hampton, VA 23668
| | - Alicia N. Simmons
- Department of Biological Sciences, Hampton University, Hampton, VA 23668
| | | | - Patricia A. Belt
- Department of Biological Sciences, Hampton University, Hampton, VA 23668
| | - Vincent R. Roggero
- Department of Biology, College of William and Mary, Williamsburg, VA 23187
| | | | - Shantá D. Hinton
- Department of Biology, College of William and Mary, Williamsburg, VA 23187
| | - Lizabeth A. Allison
- Department of Biology, College of William and Mary, Williamsburg, VA 23187
- Corresponding author: Lizabeth A. Allison, Department of Biology, College of William and Mary, Integrated Science Center Room 3035B, 540 Landrum Drive, Williamsburg, VA 23187, Tele: 757-221-2232, Fax: 757-221-6483,
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Aranda A, Martínez-Iglesias O, Ruiz-Llorente L, García-Carpizo V, Zambrano A. Thyroid receptor: roles in cancer. Trends Endocrinol Metab 2009; 20:318-24. [PMID: 19716314 DOI: 10.1016/j.tem.2009.03.011] [Citation(s) in RCA: 79] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 02/20/2009] [Revised: 03/18/2009] [Accepted: 03/24/2009] [Indexed: 11/16/2022]
Abstract
The thyroid hormone receptors, encoded by the TRalpha and TRbeta genes, are ligand-dependent transcription factors that belong to the nuclear receptor superfamily. In addition to the role of these receptors in growth, development and metabolism, there is increasing evidence that they also inhibit transformation and act as tumor suppressors. Aberrant TR action, as well as receptor silencing, are common events in human cancer, and TRs also have an important role in tumor progression in experimental animal models, suggesting that these receptors constitute a novel therapeutic target in cancer. This review highlights recent studies on mechanisms by which loss of expression and/or function of these receptors results in a selective advantage for cellular transformation, tumor development and metastatic growth.
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Affiliation(s)
- Ana Aranda
- Instituto de Investigaciones Biomédicas, Consejo Superior de Investigaciones Científicas and Universidad Autónoma de Madrid, Arturo Duperier 4, 28029 Madrid, Spain.
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Erickson RA, Liu X. Association of v-ErbA with Smad4 disrupts TGF-beta signaling. Mol Biol Cell 2009; 20:1509-19. [PMID: 19144825 PMCID: PMC2649266 DOI: 10.1091/mbc.e08-08-0836] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2008] [Revised: 12/15/2008] [Accepted: 01/05/2009] [Indexed: 11/11/2022] Open
Abstract
Disruption of the transforming growth factor-beta (TGF-beta) pathway is observed in the majority of cancers. To further understand TGF-beta pathway inactivation in cancer, we stably expressed the v-ErbA oncoprotein in TGF-beta responsive cells. v-ErbA participates in erythroleukemic transformation of cells induced by the avian erythroblastosis virus (AEV). Here we demonstrate that expression of v-ErbA was sufficient to antagonize TGF-beta-induced cell growth inhibition and that dysregulation of TGF-beta signaling required that v-ErbA associate with the Smad4 which sequesters Smad4 in the cytoplasm. We also show that AEV-transformed erythroleukemia cells were resistant to TGF-beta-induced growth inhibition and that TGF-beta sensitivity could be recovered by reducing v-ErbA expression. Our results reveal a novel mechanism for oncogenic disruption of TGF-beta signaling and provide a mechanistic explanation of v-ErbA activity in AEV-induced erythroleukemia.
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Affiliation(s)
- Richard A. Erickson
- Department of Chemistry and Biochemistry, University of Colorado-Boulder, Boulder, CO 80309
| | - Xuedong Liu
- Department of Chemistry and Biochemistry, University of Colorado-Boulder, Boulder, CO 80309
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Bresson-Mazet C, Gandrillon O, Gonin-Giraud S. Stem cell antigen 2: a new gene involved in the self-renewal of erythroid progenitors. Cell Prolif 2008; 41:726-38. [PMID: 18823497 DOI: 10.1111/j.1365-2184.2008.00554.x] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023] Open
Abstract
OBJECTIVES Stem cell antigen 2 (SCA2), also known as TSA1 and LY6E, is a glycosylphosphatidylinositol-anchored molecule that belongs to the Ly-6 family and whose function remains largely unknown. We have previously shown that SCA2 is overexpressed in self-renewing avian erythroid progenitors (T2ECs) as opposed to differentiating T2ECs. The aim of this study was to define the role of SCA2 in the switch between self-renewal and differentiation of erythroid progenitors. MATERIALS AND METHODS We have investigated the cellular processes controlled by SCA2 in T2ECs by RNA interference and overexpression approaches. Moreover, we have used a SAGE Querying and analysis tools developed in our laboratory, to investigate the expression level of SCA2 gene in different human cell types. RESULTS We demonstrate the regulation of SCA2 expression by TGF-beta, a growth factor essential for self-renewal of T2ECs. We establish that SCA2 knockdown by RNA interference reduced the proliferation and promoted the differentiation of T2ECs. In contrast, SCA2 overexpression inhibited differentiation of T2ECs only. Furthermore, by using a bioinformatic approach, we found that SCA2 is highly expressed in a variety of human cancer cells. We confirmed this result by quantitative PCR on human colon and kidney tissues. CONCLUSIONS Altogether, these findings imply that SCA2 may function in a dose-dependent manner to support the self-renewal state and that its deregulation might contribute to the development of some human cancers.
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