Articles (peer reviewed)
2023
[92]     Danesh G, Saulnier E, Gascuel O, Choisy M, Alizon S (2023) TiPS: rapidly simulating trajectories and phylogenies from compartmental models. Methods in Ecology and Evolution. in press: [bibtex] [url]
2022
[91]     Uysal IB, Boué V, Murall CL, Graf C, Selinger C, Hirtz C, Bernat C, Ravel J, Reynes J, Bonneau M, Rahmoun M, Segondy M, Boulle N, Grasset S, Groc S, Waterboer T, Tribout V, Bravo IG., Burrel S, Foulongne V, Alizon S, Tessandier N (2022) Concomitant and productive genital infections by HSV-2 and HPV in two young women: A case report. IDCases. 30: e01604. [bibtex] [url]
[90]     Tessandier N, Uysal IB, Elie B, Selinger C, Bernat C, Boué V, Grasset S, Groc S, Rahmoun M, Reyné B, Bender N, Bonneau M, Graf C, Tribout V, Foulongne V, Ravel J, Waterboer T, Hirtz C, Bravo IG., Reynes J, Segondy M, Murall CL, Boulle N, Kamiya T, Alizon S (2022) Does exposure to different menstrual products affect the vaginal environment? Molecular Ecology. in press: [bibtex] [url]
[89]     Sofonea MT, Roquebert B, Foulongne V, Morquin D, Verdurme L, Trombert-Paolantoni S, Roussel M, Bonetti JC, Zerah J, Haim-Boukobza S, Alizon S (2022) Analyzing and modeling the spread of SARS-CoV-2 Omicron lineages BA.1 and BA.2 in France (September 1, 2021, to February 28, 2022). Emerg Infect Dis. 28(7): 1355-1365. [bibtex] [pdf]
[88]     Reyné B, Richard Q, Selinger C, Sofonea MT., Djidjou-Demasse R, Alizon S (2022) Non-Markovian modelling highlights the importance of age structure on Covid-19 epidemiological dynamics. Math. Model. Nat. Phenom.. 17(7): 1-24. [bibtex] [pdf]
[87]     Elie B, Lecorche E, Sofonea MT, Trombert-Paolantoni S, Verdurme L, Guedj J, Foulongne V, Haim-Boukobza S, Roquebert B, Alizon S (2022) Variant-specific SARS-CoV-2 within-host kinetics. J Med Virol. 94(8): 3625-3633. [bibtex] [url]
[86]     Elie B, Selinger C, Alizon S (2022) The source of individual heterogeneity shapes infectious disease outbreaks. Proceedings B. 289(1974): 20220232. [bibtex] [url]
[85]     Crépey P, Noël H, Alizon S (2022) Challenges for mathematical epidemiological modelling. Anaesth. Crit. Care Pain Med.. 41(2): 101053. [bibtex] [pdf]
[84]     Alizon S, Selinger C, Sofonea MT, Haim-Boukobza S, Giannoli JM, Ninove L, Pillet S, Thibault V., De Rougemont A, tumiotto camille, Solis M, L'honneur AS, Stephan R, Bressollette-Bodin C, Salmona M, L'Honneur AS, Behillil S, Lefeuvre C, Dina J, Hantz S, Hartard C, Veyer D, Delagrèverie HM, Fourati S, Visseaux B, Henquell C, Lina B, Foulongne V, Burrel S (2022) Epidemiological and clinical insights from SARS-CoV-2 RT-PCR cycle amplification values. Eurosurveillance. 27(6): 2100406. [bibtex] [pdf]
2021
[83]     Thomine O, Alizon S, Barthélemy M, Boennec C, Sofonea MT. (2021) Emerging dynamics from high-resolution spatial numerical epidemics. eLife. 10: e71417. [bibtex] [url]
[82]     Sofonea MT., Boennec C, Michalakis Y, Alizon S (2021) Two waves and a high tide: the COVID-19 epidemic in France. Anaesth. Crit. Care Pain Med.. 40(3): 100881. [bibtex]
[81]     Sofonea MT., Reyné B, Elie B, Djidjou-Demasse R, Selinger C, Michalakis Y, Alizon S (2021) Memory is key in capturing COVID-19 epidemiological dynamics. Epidemics. 100459. [bibtex] [url]
[80]     Sofonea MT., Alizon S (2021) Anticipating COVID-19 intensive care unit capacity strain: A look back at epidemiological projections in France. Anaesth. Crit. Care Pain Med.. 40(4): 100943. [bibtex]
[79]     Selinger C, Rahmoun M, Murall CL, Bernat C, Boué V, Bonneau M, Graf C, Grasset S, Groc S, Reynes J, Hirtz C, Jacobs N, Alizon S (2021) Cytokine response following perturbation of the cervicovaginal milieu during HPV genital infection. Immunol Res. 69(3): 255–263. [bibtex]
[78]     Selinger C, Choisy M, Alizon S (2021) Predicting COVID-19 incidence in French hospitals using human contact network analytics. Int J Infect Dis. 111: 100–107. [bibtex] [url]
[77]     Selinger C, Alizon S (2021) Reconstructing contact network structure and cross-immunity patterns from multiple infection histories. PLOS Comput Biol. 17(9): e1009375. [bibtex] [url]
[76]     Roquebert B, Haim-Boukobza S, Trombert-Paolantoni S, Lecorche E, Verdurme L, Foulongne V, Burrel S, Alizon S, Sofonea MT. (2021) SARS-CoV-2 variants of concern are associated with lower RT-PCR amplification cycles between January and March 2021 in France. Int J Infect Dis. 113: 12-14. [bibtex] [url]
[75]     Roquebert B, Trombert-Paolantoni S, Haim-Boukobza S, Lecorche E, Verdurme L, Foulongne V, Sofonea MT., Alizon S (2021) The SARS-CoV-2 B.1.351 lineage (VOC β) is outgrowing the B.1.1.7 lineage (VOC α) in some French regions in April 2021. Eurosurveillance. 26(23): 2100447. [bibtex] [pdf]
[74]     Richard Q, Alizon S, Choisy M, Sofonea MT., Djidjou-Demasse R (2021) Age-structured non-pharmaceutical interventions for optimal control of COVID-19 epidemic. PLoS Comput Biol. 17(3): e1008776. [bibtex] [url]
[73]     Reyné B, Selinger C, Sofonea MT., Miot S, Pisoni A, Tuaillon E, Bousquet J, Blain H, Alizon S (2021) Analysing different exposures identifies that wearing masks and establishing COVID-19 areas reduce secondary-attack risk in aged-care facilities. Int J Epidemiol. 2020.11.27.20239913. [bibtex] [pdf]
[72]     Michalakis Y, Sofonea MT., Alizon S, Bravo IG. (2021) SARS-CoV-2 viral RNA levels are not 'viral load'. Trends Microbiol. 29(11): 970–972. [bibtex] [url]
[71]     Haim-Boukobza S, Roquebert B, Trombert-Paolantoni S, Lecorche E, Verdurme L, Foulongne V, Selinger C, Michalakis Y, Sofonea MT., Alizon S (2021) Detecting rapid spread of SARS-CoV-2 variants, France, January 26–February 16. Emerg Infect Dis. 27(5): 1496-1499. [bibtex] [pdf]
[70]     Djidjou-Demasse R, Alizon S, Sofonea MT. (2021) Within-host bacterial growth dynamics with both mutation and horizontal gene transfer. J Math Biol. 82(3): 16. [bibtex] [url]
[69]     Debernardi A., Jarassier W., Soret C., Mougin C., Alizon S., Bravo I. G., Guenat D., Prétet J. L., Lepiller Q. (2021) Repurposing the Hybrid Capture 2 (HC2) screening test for whole-genome sequencing of human papillomaviruses. Arch Virol. 166: 3421–3425. [bibtex]
[68]     Danesh G, Elie B, Michalakis Y, Sofonea MT, Bal A, Behillil S, Destras G, Boutolleau D, Burrel S, Marcelin AG, Plantier JC, Thibault V, Werf ESLand Svan der, Lina B, Josset L, Enouf V, Alizon S (2021) Early phylodynamics analysis of the COVID-19 epidemic in France. Peer Community Journal. 1: e45. [bibtex] [pdf]
[67]     Danesh G, Virlogeux V, Ramière C, Charre C, Cotte L, Alizon S (2021) Quantifying transmission dynamics of acute hepatitis C virus infections in a heterogeneous population using sequence data. PLoS Pathog. 17(9): e1009916. [bibtex] [url]
[66]     Beneteau T, Selinger C, Sofonea MT., Alizon S (2021) Episome partitioning and symmetric cell divisions: Quantifying the role of random events in the persistence of HPV infections. PLOS Comput Biol. 17(9): e1009352. [bibtex] [url]
[65]     Beneteau T, Elie B, Sofonea MT, Alizon S (2021) Estimating dates of origin and end of COVID-19 epidemics. Peer Community Journal. 1: e70. [bibtex] [pdf]
[64]     Alizon S, Turner PE. (2021) Can we eradicate viral pathogens? J Evol Biol. 34(12): 1851-1854. [bibtex]
[63]     Alizon S, Sofonea MT. (2021) SARS-CoV-2 virulence evolution: avirulence theory, immunity, and trade-offs. J Evol Biol. 34(12): 1867-1877. [bibtex] [url]
[62]     Alizon S, Haim-Boukobza S, Foulongne V, Verdurme L, Trombert-Paolantoni S, Lecorche E, Roquebert B, Sofonea MT. (2021) Rapid spread of the SARS-CoV-2 Delta variant in some French regions, June 2021. Eurosurveillance. 26(28): 2100573. [bibtex] [pdf]
[61]     Alizon S (2021) Treating symptomatic infections and the co-evolution of virulence and drug resistance. Peer Community Journal. 1: e47. [bibtex] [pdf]
[60]     Alizon S (2021) Superspreading genomes. Science. 371(6529): 574–575. [bibtex] [url]
2020
[59]     Elie B, Alizon S (2020) Analyses génomiques et phylodynamiques du Sars-CoV-2. Revue Francophone des Laboratoires. 2020(526): 57–62. [bibtex] [url]
[58]     Murall CL, Reyné B, Selinger C, Bernat C, Boué V, Grasset S, Groc S, Rahmoun M, Bender N, Bonneau M, Foulongne V, Graf C, Picot E, Picot MC, Tribout V, Waterboer T, Bravo IG, Reynes J, Segondy M, Boulle N, Alizon S (2020) HPV cervical infections and serological status in vaccinated and unvaccinated women. Vaccine. 38(51): 8167–8174. [bibtex] [url]
2019
[57]     Murall CL, Rahmoun M, Selinger C, Baldellou M, Bernat C, Bonneau M, Boué V, Buisson M, Christophe G, D\textquoterightAuria G, Taroni FD, Foulongne V, Froissart R, Graf C, Grasset S, Groc S, Hirtz C, Jaussent A, Lajoie J, Lorcy F, Picot E, Picot MC, Ravel J, Reynes J, Rousset T, Seddiki A, Teirlinck M, Tribout V, Tuaillon É, Waterboer T, Jacobs N, Bravo IG, Segondy M, Boulle N, Alizon S (2019) Natural history, dynamics, and ecology of human papillomaviruses in genital infections of young women: protocol of the PAPCLEAR cohort study. BMJ Open. 9(6): e025129. [bibtex] [pdf]
[56]     Murall CL, Jackson R, Zehbe I, Boulle N, Segondy M, Alizon S (2019) Epithelial stratification shapes infection dynamics. PLoS Comput Biol. 15(1): e1006646. [bibtex] [url]
[55]     Murall CL, Alizon S (2019) Modelling the evolution of viral oncogenesis. Phil Trans R Soc Lond B. 374(1773): 20180302. [bibtex] [url]
[54]     Bourret J, Alizon S, Bravo IG (2019) COUSIN (COdon Usage Similarity INdex): a normalized measure of Codon Usage Preferences. Genome Biol. Evol.. 11(12): evz262. [bibtex] [pdf]
[53]     Alizon S, Murall CL, Saulnier E, Sofonea M (2019) Detecting within-host interactions from genotype combination prevalence data. Epidemics. 29: 100349. [bibtex] [url]
[52]     Alizon S, Bravo IG., Farrell PJ., Roberts S (2019) Towards a multi-level and a multi-disciplinary approach to DNA oncovirus virulence. Phil Trans R Soc Lond B. 374(1773): 20190041. [bibtex] [url]
2018
[51]     Sofonea MT., Aldakak L, Boullosa LF, Alizon S (2018) Can Ebola Virus evolve to be less virulent in humans? J Evol Biol. 31: 382-392. [bibtex] [url]
[50]     Kamiya T, Mideo N, Alizon S (2018) Coevolution of virulence and immunosuppression in multiple infections. J Evol Biol. 31(7): 995-1005. [bibtex] [url]
[49]     Alizon S, Méthot PO (2018) Reconciling Pasteur and Darwin to control infectious diseases. PLoS Biol. 16(1): e2003815. [bibtex] [url]
[48]     Alizon S (2018) Inexpensive research in the golden open access era. Trends Ecol Evol. 33(5): 301-303. [bibtex] [url]
2017
[47]     Sofonea M, Alizon S, Michalakis Y (2017) Exposing the diversity of multiple infection patterns. J theor Biol. 419: 278 - 289. [bibtex] [url]
[46]     Saulnier E, Gascuel O, Alizon S (2017) Inferring epidemiological parameters from phylogenies using regression-ABC: a comparative study. PLoS Comput Biol. 13(3): e1005416. [bibtex] [url]
[45]     Alizon S, Murall CL, Bravo IG (2017) Why Human Papillomavirus Acute Infections Matter. Viruses. 9(10): 293. [bibtex] [url]
2016
[44]     Alizon S (2016) A Visionary Pioneer of Parasite Ecology and Evolution. Am Nat. 187: ii-iii. [bibtex] [url]
2015
[43]     Sofonea M, Alizon S, Michalakis Y (2015) From within-host interactions to epidemiological competition: a general model for multiple infections. Philos Trans R Soc Lond B. 370: 20140303. [bibtex] [pdf]
[42]     Hartfield M, Alizon S (2015) Within-host stochastic emergence dynamics of immune-escape mutants. PLoS Comput Biol. 11(3): e1004149. [bibtex] [url]
[41]     Alizon S, Michalakis Y (2015) Adaptive virulence evolution: the good old fitness-based approach. Trends Ecol Evol. 30(5): 248-254. [bibtex] [url]
2014
[40]     Methot PO, Alizon S (2014) What is a pathogen? Toward a process view of host-parasite interactions. Virulence. 5(8): 775-85. [bibtex] [url]
[39]     Hartfield M, Murall CL, Alizon S (2014) Clinical applications of pathogen phylogenies. Trends Mol Med. 20(7): 394-404. [bibtex]
[38]     Hartfield M, Bull R, White PA, Lloyd A, Luciani F, Alizon S (2014) Evidence that hepatitis C virus genome partly controls infection outcome. Evol Appl. 7(5): 533-47. [bibtex] [url]
[37]     Hartfield M, Alizon S (2014) Epidemiological feedbacks affect evolutionary emergence of pathogens. Am Nat. 183(4): E105-17. [bibtex] [pdf]
[36]     Fraser C, Lythgoe K, Leventhal GE, Shirreff G, Hollingsworth TD, Alizon S, Bonhoeffer S (2014) Virulence and pathogenesis of HIV-1 infection: an evolutionary perspective. Science. 343(6177): 1243727. [bibtex]
[35]     Cousineau SV, Alizon S (2014) Parasite evolution in response to sex-based host heterogeneity in resistance and tolerance. J Evol Biol. 27(12): 2753-66. [bibtex] [url]
[34]     Alizon S, Lion S, Murall CL, Abbate JL (2014) Quantifying the epidemic spread of Ebola virus (EBOV) in Sierra Leone using phylodynamics. Virulence. 5(8): 825-827. [bibtex] [url]
2013
[33]     Shirreff G, Alizon S, Cori A, Guenthard HF, Laeyendecker O, van Sighem A, Bezemer D, Fraser C (2013) How effectively can HIV phylogenies be used to measure heritability? Evol Med Public Health. 2013(1): 209-24. [bibtex] [pdf]
[32]     Kamp C, Moslonka-Lefebvre M, Alizon S (2013) Epidemic spread on weighted networks. PLoS Comput Biol. 9(12): e1003352. [bibtex] [url]
[31]     Hartfield M, Alizon S (2013) Introducing the outbreak threshold in epidemiology. PLoS Pathog. 6: e1003277. [bibtex] [url]
[30]     Alizon S, Fraser C (2013) Within-host and between-host evolutionary rates across the HIV-1 genome. Retrovirology. 10: 49. [bibtex] [pdf]
[29]     Alizon S, de Roode JC, Michalakis Y (2013) Multiple infections and the evolution of virulence. Ecol Lett. 16(4): 556-567. [bibtex] [url]
[28]     Alizon S (2013) On the limits of interpreting some plastic responses through a cooperator/cheater prism. A comment on Harrison. J Evol Biol. 26(9): 2051-6. [bibtex] [url]
[27]     Alizon S (2013) Co-infection and super-infection models in evolutionary epidemiology. Interface Focus. 3: 20130031. [bibtex] [pdf]
[26]     Alizon S (2013) Parasite co-transmission and the evolutionary epidemiology of virulence. Evolution. 67(4): 921-933. [bibtex] [url]
2012
[25]     Moslonka-Lefebvre M, Bonhoeffer S, Alizon S (2012) Weighting for sex acts to understand the spread of STI on networks. J theor Biol. 311: 46-53. [bibtex] [pdf]
[24]     Alizon S, Magnus C (2012) Modelling the course of an HIV infection: Insights from ecology and evolution. Viruses. 4(10): 1984-2013. [bibtex] [url]
2011
[23]     de Roode JC, de Castillejo CLF, Faits T, Alizon S (2011) Virulence evolution in response to anti-infection resistance: toxic food plants can select for virulent parasites of monarch butterflies. J Evol Biol. 24(4): 712-22. [bibtex] [url]
[22]     Day T, Alizon S, Mideo N (2011) Bridging scales in the evolution of infectious disease life histories: theory. Evolution. 65(12): 3448-61. [bibtex] [url]
[21]     Alizon S, Michalakis Y (2011) The transmission-virulence trade-off and superinfection: comments to smith. Evolution. 65(12): 3633-8. [bibtex] [url]
[20]     Alizon S, Lion S (2011) Within-host parasite cooperation and the evolution of virulence. Proc R Soc Lond B. 278(1725): 3738-3747. [bibtex] [pdf]
[19]     Alizon S, Luciani F, Regoes RR. (2011) Epidemiological and clinical consequences of within-host evolution. Trends Microbiol. 19(1): 24-32. [bibtex] [pdf]
[18]     Abbot P, Abe J, Alcock J, Alizon S, Alpedrinha JAC, Andersson M, Andre JB, van Baalen M, Balloux F, Balshine S, Barton N, Beukeboom LW, Biernaskie JM, Bilde T, Borgia G, Breed M, Brown S, Bshary R, Buckling A, Burley NT, Burton-Chellew MN, Cant MA, Chapuisat M, Charnov EL, Clutton-Brock T, Cockburn A, Cole BJ, Colegrave N, Cosmides L, Couzin ID, Coyne JA, Creel S, Crespi B, Curry RL, Dall SRX, Day T, Dickinson JL, Dugatkin LA, El Mouden C, Emlen ST, Evans J, Ferriere R, Field J, Foitzik S, Foster K, Foster WA, Fox CW, Gadau J, Gandon S, Gardner A, Gardner MG, Getty T, Goodisman MAD, Grafen A, Grosberg R, Grozinger CM, Gouyon PH, Gwynne D, Harvey PH, Hatchwell BJ, Heinze J, Helantera H, Helms KR, Hill K, Jiricny N, Johnstone RA, Kacelnik A, Kiers ET, Kokko H, Komdeur J, Korb J, Kronauer D, Kümmerli R, Lehmann L, Linksvayer TA, Lion S, Lyon B, Marshall JAR, McElreath R, Michalakis Y, Michod RE, Mock D, Monnin T, Montgomerie R, Moore AJ, Mueller UG, Noë R, Okasha S, Pamilo P, Parker GA, Pedersen JS, Pen I, Pfennig D, Queller DC, Rankin DJ, Reece SE, Reeve HK, Reuter M, Roberts G, Robson SKA, Roze D, Rousset F, Rueppell O, Sachs JL, Santorelli L, Schmid-Hempel P, Schwarz MP, Scott-Phillips T, Shellmann-Sherman J, Sherman PW, Shuker DM, Smith J, Spagna JC, Strassmann B, Suarez AV, Sundström L, Taborsky M, Taylor P, Thompson G, Tooby J, Tsutsui ND, Tsuji K, Turillazzi S, Ubeda F, Vargo EL, Voelkl B, Wenseleers T, West SA, West-Eberhard MJ, Westneat DF, Wiernasz DC, Wild G, Wrangham R, Young AJ, Zeh DW, Zeh JA, Zink A (2011) Inclusive fitness theory and eusociality. Nature. 471(7339): E1-4. [bibtex]
2010
[17]     Froissart R, Doumayrou J, Vuillaume F, Alizon S, Michalakis Y (2010) The virulence-transmission trade-off in vector-borne plant viruses: a review of (non-)existing studies. Philos. Trans. R. Soc. B. 365(1548): 1907-18. [bibtex] [pdf]
[16]     Alizon S, von Wyl V, Stadler T, Kouyos RD., Yerly S, Hirschel B, Boeni J, Shah C, Klimkait T, Furrer H, Rauch A, Vernazza P, Bernasconi E, Battegay M, Bürgisser P, Telenti A, Guenthard HF., Bonhoeffer S (2010) Phylogenetic approach reveals that virus genotype largely determines HIV set-point viral load. PLoS Pathog. 6(9): e1001123. [bibtex] [url]
[15]     Alizon S, Boldin B (2010) Within-host viral evolution in a heterogeneous environment. Insights into the HIV co-receptor switch. J Evol Biol. 23: 2625-2635. [bibtex] [url]
2009
[14]     Luciani F, Alizon S (2009) The evolutionary dynamics of a rapidly mutating virus within and between hosts: the case of hepatitis C virus. PLoS Comput Biol. 5(11): e1000565. [bibtex] [url]
[13]     Alizon S, Hurford A, Mideo N (2009) Virulence evolution and the trade-off hypothesis: history, current state of affairs and the future. J Evol Biol. 22: 245-259. [bibtex] [url]
[12]     Alizon S (2009) The Price equation framework to study disease within-host evolution. J Evol Biol. 22: 1123-1132. [bibtex] [url]
2008
[11]     Mideo N, Alizon S, Day T (2008) Linking within- and between-host dynamics in the evolutionary epidemiology of infectious diseases. Trends Ecol Evol. 23(9): 511-517. [bibtex] [pdf]
[10]     Day T, Mideo N, Alizon S (2008) Why is HIV not vector-borne? Evol App. 1: 17-27. [bibtex] [url]
[9]     Alizon S, van Baalen M (2008) Transmission–virulence trade-offs in vector-borne diseases. Theor Popul Biol. 74(1): 6-15. [bibtex] [url]
[8]     Alizon S, van Baalen M (2008) Acute or Chronic? Within-host models with immune dynamics, infection outcome and parasite evolution. Am Nat. 172(6): E244-E256. [bibtex] [pdf]
[7]     Alizon S, van Baalen M (2008) Multiple infections, immune dynamics and virulence evolution. Am Nat. 172(4): E150-E158. [bibtex] [pdf]
[6]     Alizon S, Taylor P (2008) Empty sites can promote altruistic behaviour. Evolution. 62(6): 1335-1344. [bibtex] [url]
[5]     Alizon S, Kucera M, Jansen VA. A. (2008) Competition between cryptic species explains variations in rates of lineage evolution. Proc Natl Acad Sci USA. 105(34): 12382-12386. [bibtex] [pdf]
[4]     Alizon S (2008) Decreased overall virulence in co-infected hosts leads to the persistence of virulent parasites. Am Nat. 172(2): E67-E79. [bibtex] [pdf]
[3]     Alizon S (2008) Transmission-recovery trade-offs to study parasite evolution. Am Nat. 172(3): E113-E121. [bibtex] [pdf]
2007
[2]     Gallet R, Alizon S, Comte PA, Gutierrez A, Depaulis F, Van Baalen M, Michel E, Müller-Graf CD. M. (2007) Predation and disturbance interact to shape prey species diversity. Am Nat. 170: 143-154. [bibtex]
2005
[1]     Alizon S, van Baalen M (2005) Emergence of a convex trade-off between transmission and virulence. Am Nat. 165(6): E155-E167. [bibtex] [pdf]
Book chapters (peer reviewed)
2017
[3]     Murall C. L., Abbate J. L., Puelma Touzel M., Allen-Vercoe E., Alizon S., Froissart R. (2017) Invasions of Host-Associated Microbiome Networks. In: Networks of Invasion: A Synthesis of Concepts. (Research BAin E, ed.) Academic Press 56: [bibtex] [url]
2015
[2]     Methot PO, Alizon S (2015) Emerging diseases and the evolution of virulence: the case of the Spanish influenza pandemic. In: Disease, Classification, and Evidence. New Essays in the Philosophy of Medicine. (Silberstein M, Lambert G, Huneman P, eds.) Springer 7:, p. 93-130. [bibtex] [pdf]
2014
[1]     Alizon S (2014) Evolution of Infectious Disease Virulence. In: Evolutionary biology. (Losos J, ed.) Oxford Bibliographies [bibtex]
Books (in French)
2020
[2]     Alizon S (2020) Écologie, évolution et pandémies. Faire dialoguer Pasteur et Darwin. .Points, Paris, France [bibtex]
2016
[1]     Alizon S (2016) C'est grave docteur Darwin ? L'évolution, les microbes et nous. .Le Seuil, Paris, France [bibtex]
Book chapters (in French)
2022
[5]     Alizon S (2022) Phylogénies d'infections et phylodynamique. In: Étude de l'évolution par l'approche mathématique et informatique. (Didier G, Guindon S, eds.) ISTE, London, UK [bibtex] [pdf]
2015
[4]     Alizon S (2015) Pourquoi les parasites nuisent-ils à leurs hôtes ? In: Les maladies infectieuses. (Vittecoq M, Roche B, Prugnolle F, Renaud F, Thomas F, eds.) De Boeck, Paris, France, p. 139-158. [bibtex]
2010
[3]     Alizon S (2010) Application de la biologie évolutive au contrôle des maladies infectieuses. In: Biologie évolutive. (Thomas F, Lefèvre T, Raymond M, eds.) De Boeck, Bruxelles, Belgium, p. 778. [bibtex]
[2]     Alizon S (2010) Diversité des maladies infectieuses. In: BiodiversitéS. (Alain K, Aumeeruddy-Thomas Y, Devictor V, Langlais A, Maris V, Not F, Prévot-Julliard AC, Puijalon S, Pujol B, eds.) Cherche Midi, Paris, France, p. 45. [bibtex]
[1]     Alizon S (2010) En biologie, le libre accès au quotidien. In: Hermès, La Revue. (Farchy J, Froissart P, Méadel C, eds.) CNRS Editions, Paris, France 57(2):, p. 47-49. [bibtex]
Theses
2013
[2]     Alizon S (2013) Infectious disease dynamics: Why do parasites harm their hosts? .Habilitation Thesis, Université Montpellier 2 [bibtex] [pdf]
2006
[1]     Alizon S (2006) Parasite virulence evolution: Insights from embeded models. .PhD thesis, Université Paris 6 [bibtex] [pdf]