Conceptual and theoretical analysis of immune activation, biological boundaries, and disease
The goal of our interdisciplinary group is to offer an enriched conceptualization, explanation, and modelling of biological processes, particularly through our ERC-funded IDEM project. We reach this aim through what we call « Philosophy in biology », an innovative way to combine the contributions of philosophy of biology, experimental biology, and medical biology. We are focused first and foremost on immunology, but also work on conceptual issues related to microbiology, evolutionary biology, ecology, developmental biology, physiology, cancer biology, and the medical sciences.
Our group currently works on four main projects:
Within Thomas Pradeu’s ERC Starting Grant project (2015-2020), entitled “IDEM” (for “Immunology, Development, and the Microbiota: Understanding the Continuous Construction of the Organism”), we aim at understanding how the microbiota is involved in the construction and maintenance of the host organism.
IDEM consists of four areas:
In total, 5 to 6 postdocs will be hired in this project. For further information, please visit the ERC IDEM’s webpage.
In collaboration with medical doctors of the Pellegrin Hospital, we formed two teams working on the microbiota: one works on immune-microbiota interactions; the other organizes meetings with internal and external speakers.
We attempt to propose a refined definition of the notion of tumor microenvironment, at the interface between cancer biology, developmental biology, immunology, and studies on angiogenesis.
We also explore the concept of cancer as a process of decohesion of the multicellular individual, an idea that combines cancer biology, immunology, developmental biology, evolutionary biology, and ecology. We investigate the role of the immune system as a system that maintains the cohesion of the biological individual, and how this process is disturbed in cancer.
With Maël Lemoine, we are interested in the connection between aging and cancer.
People from other labs involved: Andreas Bikfalvi (Inserm), Lucie Laplane (IHPST & IGR).
If one admits that disease is so widespread in nature to be a trait of the living in general, is there any scientifically informative description of this trait, or does it remain a purely commonsensical notion? What are the relations between this widespread phenomenon of nature, and immunity, also a phenomenon coextensive with the realm of the living? If a scientific description is possible, should disease be considered an irregularity in nature — an exception to laws of nature — or an event that will necessarily happen in the end, given the time? What are the consequences of both views on the conception of treatments, and reciprocally, how can understanding the mechanisms of treatment help answer the question? What are the consequences of both views on the conception of the relations between disease and aging?
This project is coordinated by Maël Lemoine, Professor at the University of Bordeaux.
Our group is a pillar of the Institute for Philosophy in Biology and Medicine (PhilInBioMed), an interdisciplinary institute located at the University of Bordeaux, France, and a national and international network of interdisciplinary institutes. PhilInBioMed aims at promoting philosophy in the biological and medical sciences.
Institute for Philosophy in Biology and Medicine (PhilInBioMed)
More information here.
Contact: Thomas Pradeu
Philosophy and Biology Seminar in Bordeaux
PhilBio Paper Work Group
Each week, a philosophy of biology postdoc of the Pradeu Group presents their work for feedback.
Contact: Lynn Chiu <email@example.com>
Pradeu Group Meetings
Twice a month, a Pradeu Group member presents their work.
Contact: Elena Rondeau
> Leonardo BICH (Now Ramon y Cajal senior researcher at the University of the Basque Country, Spain)
> Lynn CHIU (Associated Researcher of ImmunoConcept, University of Bordeaux/CNRS and Media and Communications Officer of the Extended Evolutionary Synthesis research project, University of St. Andrews)
> Katarzyna HOOKS (Postdoctoral researcher in Bordeaux)
> Valérie JOLIVEL (Postdoctoral researcher in Strasbourg)
> Paôline LAURENT (Postdoctoral research in Bordeaux)
> Maureen O’MALLEY (Senior researcher in Bordeaux and Sydney)
> Derek SKILLINGS (Starting from Fall 2019: Assistant Professor of Philosophy at UNC Greensboro, USA)
> William BECHTEL, Professor of Philosophy, University of California, San Diego, USA
> Fridolin GROSS, Postdoctoral researcher, University of Kassel, Germany
> Peter GODFREY-SMITH, Professor in Philosophy of Science, University of Sydney, Australia
> Valerie HARDCASTLE, Professor of Philosophy and Psychology, University of Cincinnati, USA
> Jacob STEGENGA, Lecturer in Philosophy of Science, University of Cambridge, UK
> Adrian STENCEL, Phd Student Jagiellonian University, Krakow, Poland
Nardini C, Moreau J-F, Gensous N, et al (2018) The epigenetics of inflammaging: The contribution of age-related heterochromatin loss and locus-specific remodelling and the modulation by environmental stimuli. Seminars in Immunology 40, 49–60. (Open access)
- Laplane L., Duluc D., Bikfalvi A, Larmonier N., and Pradeu T. (2019), Beyond the tumour microenvironment. International Journal of Cancer. (Open Access).
- Pradeu T. (2019), Philosophy of Biology: Immunology and individuality, eLIFE 8:e47384
- Laplane L.,
- Pradeu T. & Moreau J-F. (2019), CRISPR-Cas immunity: Beyond nonself and defence. Biology & Philosophy 34(6). (PDF of final draft).
- Laplane L., Duluc D., Larmonier N., Pradeu T. & Bikfalvi A. [co-senior authors] (2018), The Multiple Layers of the Tumor Environment. Trends in Cancer 4, 802–809. (PDF of final draft)
- Lemoine M. & Pradeu T. (2018), Dissecting the meanings of ‘Physiology’ to assess the vitality of the discipline. Physiology 33(4), 236-245. (Open Access PDF) (PDF of final draft).
- Pradeu T. & Du Pasquier L. (2018), Immunological memory: What’s in a name? Immunological Reviews 283(1) (Special Issue: Immunologic Memory), 7-20. (PDF of final draft).
- Truchetet M-E. & Pradeu T. (2018), Re-thinking our understanding of immunity: Robustness in the tissue reconstruction system. Seminars in Immunology 36, 45-55. (PDF of final draft).
- Eberl G. & Pradeu T. (2018), Towards a General Theory of Immunity? Trends in Immunology 39 (4), 261-263.
- Lemoine M. (2018), On the neurobiological redefinition of psychiatric symptoms: elimination, reduction, or what?, Synthese, online (doi: 10.1007/s11229-016-1270-2).
- Pradeu T. (2018), Genidentity and Biological Processes, in Nicholson, D. J. & Dupré, J. (eds.). Everything Flows: Towards a Processual Philosophy of Biology. Oxford: Oxford University Press.
- O’Malley M. A., Skillings D. J. (2018), Methodological strategies in microbiome research and their explanatory implications, Perspectives on Science 26(2): 239–265.
- Lemoine M. (2017), Neither from words, nor from vision: understanding p-medicine from innovative treatments, Lato sensu 4(2). (Open Access).
- Chiu L., Bazin T. (co-first authors), Truchetet M-E., Schaeverbeke T., Delhaes L. & Pradeu T. (2017), Protective Microbiota: From Localized to Long-Reaching Co-Immunity. Frontiers in Immunology, December 2017, Volume 8, Article 1678. (Open Access).
- Guay A. & Pradeu T. (in press) Right out of the box: How to situate metaphysics of science in relation to other metaphysical approaches. Forthcoming in Synthese, in a special issue on “New Metaphysics of Science” edited by Max Kistler. (PDF of final draft)
- Bich L. & Green S. (in press), Is defining life pointless? Operational definitions at the frontiers of biology. Synthese.
- Hooks K.B. & O’Malley M. (2017) Dysbiosis and Its Discontents. mBio 8:e01492-17. (Open Access).
- Ferner A. & Pradeu T. (eds., (2017) Special issue on “Ontologies of Living Beings“, Philosophy, Theory, and Practice in Biology, Volume 9. Editorial by A. Ferner & T. Pradeu. Contributors to this special issue: Stéphane Chauvier, Melinda Fagan, Fridolin Gross & Sara Green, Catherine Kendig & Todd Eckdahl, Rory Madden, John Perry, and Christopher Shields. (Open Access).
- Laurent P., Jolivel V., Manicki P., Chiu L., Cotin-Bordes C., Truchetet M-E. & Pradeu. T. (co-senior authors) (2017), Immune-Mediated Repair: A Matter of Plasticity. Frontiers in Immunology, April 2017, Volume 8, Article 454. (Open Access).
- Pradeu T. (2017), Thirty years of Biology & Philosophy: Philosophy of which biology? Biology & Philosophy 32(2), 149–167. (PDF of final draft).
- Lemoine M. (2017), Animal Extrapolation in Preclinical Studies. An analysis of the tragic case of TGN1412, Studies in the History and Philosophy of Biological and Biomedical Science, 61, 35-45.
- Lemoine M. (2017), Introduction à la philosophie des sciences médicales, Hermann, Paris.
- Moreau J-F., Pradeu T., Grignolio A., Nardini C., Castiglione F., Tieri P., Capri M., Salvioli S., Taupin J-L., Garagnani P. & Franceschi C. (2017), The re-emerging role of ECM crosslinking in T cell mobility as a hallmark of immunosenescence. Ageing Research Reviews 35, 322–335. (Open Access).
- Furman D., Chang J., Lartigue L., Bolen C.R., Haddad F., Gaudilliere B., Ganio E.A., Fragiadakis G.K., Spitzer M.H., Douchet I., Daburon S., Moreau J.F., Nolan G.P., Blanco P., Déchanet-Merville J., Dekker C.L., Jojic V., Kuo C.J., Davis M.M., & Faustin B. (2017), Expression of specific inflammasome gene modules stratifies older individuals into two extreme clinical and immunological states. Nature Medicine 23, 174-184.
- Marlin R, Pappalardo A, Kaminski H, Willcox CR, Pitard V, Netzer S, Khairallah C, Lomenech AM, Harly C, Bonneville M, Moreau JF, Scotet E, Willcox BE, Faustin B and Dechanet-Merville J. (2017), Sensing of cell stress by human γδ TCR-dependent recognition of Annexin A2. Proceedings of the National Academy of Sciences (USA) 114, 3163-3168.
- Howard J, Loizon S, Tyler CJ, Duluc D, Moser B, Mechain M, Duvingnaud A, Malvy D, Troye-Blomberg M, Moreau JF, Eberl M, Mercereau-Puijlon O, Dechanet-Merville J, Behr C and Mamani-Matsuda M. (2017), The antigen presenting potential of Vγ9Vδ2 T cells during Plasmodium falciparum blood stage infection. Journal of infectious Diseases, accepted for publication DOI : 10.1093/infdis/jix149.
- Lemoine MP. (2016) Extrapolation from animal model of depressive disorders: what’s lost in translation?, in S. Demazeux & J. Wakefield (eds), Sadness or Depression? International Perspectives on the Depression Epidemic and Its Meaning, Springer, 157-172.
- Lemoine M. & Giroux E. (2016) Is Boorse’s Biostatistical Theory of Health naturalistic?, in E. Giroux (ed), Naturalism in philosophy of health: challenges, issues and implications, Springer, 19-38.
- Lemoine M. (2016) « Molecular complexity: Why has psychiatry not been revolutionized by genomics (yet)? », in G. Boniolo & M. Nathan (eds.), Foundational Issues in Molecular Medicine, Routledge, London, 81-99.
- Lemoine M. (2016) « Explanation in Medicine », in M. Solomon, H. Kincaid and J. Simon (eds.), The Routledge Companion to Philosophy of Medicine, Routledge, New York, 296-310.
- Pradeu T. (2016), Editorial introduction: The many faces of biological individuality. Special issue on biological individuality, T. Pradeu, ed., Biology & Philosophy 31(6), 761-773.
- Pradeu T. (2016), Organisms or biological individuals? Combining physiological and evolutionary individuality. Biology and Philosophy 31(6), 797–817.
- Chiu L. & Eberl G. (2016), Microorganisms as scaffolds of host individuality: an eco-immunity account of the holobiont. Biology and Philosophy 31(6), 819-837.
- Skillings D. (2016), Holobionts and the ecology of organisms: Multi-species communities or integrated individuals? Biology & Philosophy 31(6), 875-892.
- Pradeu T. & Vivier E. (2016), The Discontinuity Theory of Immunity, Science Immunology Vol. 1, Issue 1, pp. aag0479.
- Bich, L. and Moreno, A. (2016). The role of regulation in the origin and synthetic modelling of minimal cognition. BioSystems, 148, 12-21.
- Bich, L., Mossio, M., Ruiz-Mirazo, K. and Moreno, A. (2016). Biological regulation: controlling the system from within. Biology & Philosophy, 31(2), 237-265
- Guay A. & Pradeu T. (eds.) (2016) Individuals Across the Sciences. New York: Oxford University Press.
- Pradeu T. (2016), Mutualistic viruses and the heteronomy of life, Studies in History and Philosophy of Biological and Biomedical Sciences 59, 80-88.
- Pradeu T., Kostyrka G., and Dupré J (2016), Understanding viruses: Philosophical investigations, Studies in History and Philosophy of Biological and Biomedical Sciences 59, 57-63.
- O’Malley MA (2016). The ecological virus. Studies in History and Philosophy of Biological and Biomedical Sciences 59: 71–79.
- O’Malley MA, Wideman JG, Ruiz-Trillo I. (2016), Losing complexity: The role of simplification in macroevolution. Trends in Ecology and Evolution 31: 608–621.
- O’Malley MA (2016, in press), Reproduction expanded: Multigenerational and multilineal units of evolution, Philosophy of Science.
Selection of Past Publications
- Pradeu T., Jaeger S., Vivier E. (2013,) The Speed of Change: Towards a Discontinuity Theory of Immunity? Nature Reviews Immunology 13, 764–769.
- Pradeu T. (2012), The Limits of the Self: Immunology and Biological Identity. New York: Oxford University Press (2015 Lakatos Award)
- Pradeu T., Cooper E.L. (2012), The Danger Theory: Twenty Years Later. Frontiers in Immunology 3: 287.
- Pradeu T. (2010), What is an organism? An immunological answer. History and Philosophy of the Life Sciences 32: 247-268.
- Pradeu T. & Carosella E.D. (2006), On the definition of a criterion of immunogenicity. Proceedings of the National Academy of the Sciences USA (PNAS), 103(47): 17858-61.
- Carosella E.D., Pradeu T. (2006), Transplantation and Identity: A Dangerous Split. The Lancet 368(9531): 183-184.