Publications

Abbot, P. and 135 others (2011). Inclusive fitness theory and eusociality. Nature, 471(7339):E1–E4.

Adiba, S., Nizak, C., van Baalen, M., Denamur, E., and Depaulis, F. (2010). From grazing resistance to pathogenesis: The coincidental evolution of virulence factors. PLoS ONE, 5(8):e11882.

Ari, T. B., Gershunov, A., Tristan, R., Cazelles, B., Gage, K., and Stenseth, N. C. (2010). Interannual Variability of Human Plague Occurrence in the Western United States Explained by Tropical and North Pacific Ocean Climate Variability. AMERICAN JOURNAL OF TROPICAL MEDICINE AND HYGIENE, 83(3):624–632.

Baron, J.-P., Le Galliard, J.-F., Ferriere, R., and Tully, T. (2013). Intermittent breeding and the dynamics of resource allocation to reproduction, growth and survival. FUNCTIONAL ECOLOGY, 27(1):173–183.

Baron, J.-P., Le Galliard, J.-F., Tully, T., and Ferriere, R. (2010). Cohort variation in offspring growth and survival: prenatal and postnatal factors in a late-maturing viviparous snake. JOURNAL OF ANIMAL ECOLOGY, 79(3):640–649.

Bassar, R. D., Ferriere, R., Lopez-Sepulcre, A., Marshall, M. C., Travis, J., Pringle, C. M., and Reznick, D. N. (2012). Direct and Indirect Ecosystem Effects of Evolutionary Adaptation in the Trinidadian Guppy (Poecilia reticulata). AMERICAN NATURALIST, 180(2):167–185.

Ben Ari, T., Gershunov, A., Rouyer, T., Cazelles, B., Gage, K., and Stenseth, N. C. (2010). REGIONAL CLIMATE AND THE DYNAMICS OF HUMAN PLAGUE IN WESTERN US. VECTOR-BORNE AND ZOONOTIC DISEASES, 10(1, SI):94.

Ben-Ari, T., Neerinckx, S., Agier, L., Cazelles, B., Xu, L., Zhang, Z., Fang, X., Wang, S., Liu, Q., and Stenseth, N. C. (2012). Identification of Chinese plague foci from long-term epidemiological data. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 109(21):8196–8201.

Bienvenu, F., Akçay, E., Legendre, S., and McCandlish, D. (2016). The genealogical decomposition of a matrix population model with applications to the aggregation of stages. preprint first posted online Aug. 4, 2016.

Bienvenu, F. and Legendre, S. (2015). A new approach to the generation time in matrix population models. Am. Nat., 185:834–843.

Brom, T., Massot, M., Legendre, S., and Laloi, D. (2016). Kin competition drives the evolution of sex-biased dispersal under monoandry and polyandry, not under monogamy. Animal Behaviour, 113:157–166.

Buttay, L., Cazelles, B., Miranda, A., Casas, G., and Nogueira, E. (2016). Environmental multi-scale effects on zooplankton inter-specific synchrony. Limnology & Oceanography, in press.

Camacho, A., Ballesteros, S., Graham, A. L., Carrat, F., Ratmann, O., and Cazelles, B. (2011). Explaining rapid reinfections in multiple-wave influenza outbreaks: Tristan da Cunha 1971 epidemic as a case study. PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 278(1725):3635–3643.

Camacho, A. and Cazelles, B. (2013). Does homologous reinfection drive multiple-wave influenza outbreaks? Accounting for immunodynamics in epidemiological models. EPIDEMICS, 5(4):187–196.

Carval, D. and Ferriere, R. (2010). A UNIFIED MODEL FOR THE COEVOLUTION OF RESISTANCE, TOLERANCE, AND VIRULENCE. EVOLUTION, 64(10):2988–3009.

Cazelles, B., Cazelles, K., and Chavez, M. (2014). Wavelet analysis in ecology and epidemiology: impact of statistical tests. JOURNAL OF THE ROYAL SOCIETY INTERFACE, 11(91).

Cazelles, B., Chavez, M., and Courbage, M. (2010). Untitled. INTERNATIONAL JOURNAL OF BIFURCATION AND CHAOS, 20(6):1581–1583.

Cazelles, B., Chavez, M., and Courbage, M. (2012). Topical Issue: Chaos and dynamics in biological networks. CHAOS SOLITONS & FRACTALS, 45(5):III–IV.

Cazelles, B., Tian, H., and Roche, B. (2015). The ecological approaches and evolutionary essential for better understanding the epidemic of avian flu. M S-MEDECINE SCIENCES, 31(4):372–373.

Chaillon, A., Samleerat, T., Zoveda, F., Ballesteros, S., Moreau, A., Ngo-Giang-Huong, N., Jourdain, G., Gianella, S., Lallemant, M., Depaulis, F., and Barin, F. (2014). Estimating the Timing of Mother-to-Child Transmission of the Human Immunodeficiency Virus Type 1 Using a Viral Molecular Evolution Model. PLOS ONE, 9(4).

Champagne, C., Salthouse, D., Paul, R., Cao-Lormeau, V.-M., Roche, B., and Cazelles, B. (2016). Structure in the variability of the basic reproductive number (R0) for Zika epidemics in the Pacific islands. eLife, 5:e19874.

Chowell, G., Cazelles, B., Broutin, H., and Munayco, C. V. (2011). The influence of geographic and climate factors on the timing of dengue epidemics in Peru, 1994-2008. BMC INFECTIOUS DISEASES, 11.

Corbineau, A., Rouyer, T., Fromentin, J. M., Cazelles, B., Fonteneau, A., and Menard, F. (2010). Patterns of variations in large pelagic fish: A comparative approach between the Indian and the Atlantic Oceans. PROGRESS IN OCEANOGRAPHY, 86(1-2, SI):276–282. International Symposium on Climate Impacts on Oceanic Top Predators (CLIOTOP), La Paz, MEXICO, DEC 03-07, 2007.

Costello, e. a. (2017). Methods for the study of marine biodiversity. In Walters, M. and Sholes, R., editors, The GEO Handbook on Biodiversity Observation Networks. Springer.

Cuong, H. Q., Thai, K., Boni, M., Rabaa, M., Vu, N. T., Quang, L. C., Huu, T. N., Cazelles, B., Simmons, C., and Anders, K. (2012). Spatial and temporal dynamics of dengue in southern Vietnam. INTERNATIONAL JOURNAL OF INFECTIOUS DISEASES, 16(1):E13–E14.

Cuong, H. Q., Vu, N. T., Cazelles, B., Boni, M. F., Thai, K. T. D., Rabaa, M. A., Quang, L. C., Simmons, C. P., Huu, T. N., and Anders, K. L. (2013). Spatiotemporal Dynamics of Dengue Epidemics, Southern Vietnam. EMERGING INFECTIOUS DISEASES, 19(6):945–953.

De Monte, S., Cotte, C., d’Ovidio, F., Levy, M., Le Corre, M., and Weimerskirch, H. (2012). Frigatebird behaviour at the ocean-atmosphere interface: integrating animal behaviour with multi-satellite data. JOURNAL OF THE ROYAL SOCIETY INTERFACE, 9(77):3351–3358.

De Monte, S. and Rainey, P. B. (2014). Nascent multicellular life and the emergence of individuality. JOURNAL OF BIOSCIENCES, 39(2, SI):237–248.

De Monte, S., Soccodato, A., Alvain, S., and d’Ovidio, F. (2013). Can we detect oceanic biodiversity hotspots from space? ISME JOURNAL, 7(10):2054–2056.

De Paepe, M., De Monte, S., Robert, L., Lindner, A. B., and Taddei, F. (2010). Emergence of Variability in Isogenic Escherichia coli Populations Infected by a Filamentous Virus. PLOS ONE, 5(7).

Débarre, F., Lion, S., van Baalen, M., and Gandon, S. (2012). Evolution of host life-history traits in a spatially structured host-parasite system. Am. Nat., 179:52–63.

Della Penna, A., De Monte, S., Kestenare, E., Guinet, C., and d’Ovidio, F. (2015). Quasi-planktonic behavior of foraging top marine predators. Scientific Reports, 5:18063.

Depaulis, F. and Enard, D. (2013). Sélection récurrente dans les génomes de primates. In Focus 9–1 dans Génomique environnementale, volume 5 of Cahiers prospectives de l’INEE du CNRS. CNRS, Paris.

Dercole, F., Ferriere, R., and Rinaldi, S. (2010). Chaotic Red Queen coevolution in three-species food chains. PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 277(1692):2321–2330.

Descamps, S., Yoccoz, N. G., Gaillard, J.-M., Gilchrist, H. G., Erikstad, K. E., Hanssen, S. A., Cazelles, B., Forbes, M. R., and Bety, J. (2010). Detecting population heterogeneity in effects of North Atlantic Oscillations on seabird body condition: get into the rhythm. OIKOS, 119(9):1526–1536.

d’Ovidio, F., De Monte, S., Alvain, S., Dandonneau, Y., and Levy, M. (2010). Fluid dynamical niches of phytoplankton types. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 107(43):18366–18370.

d’Ovidio, F., De Monte, S., Della Penna, A., Cotte, C., and Guinet, C. (2013). Ecological implications of eddy retention in the open ocean: a Lagrangian approach. JOURNAL OF PHYSICS A-MATHEMATICAL AND THEORETICAL, 46(25).

Dubrovcic, D., van Baalen, M., and Nizak, C. (2014). An evolutionarily significant unicellular strategy in response to starvation stress in Dictyostelium social amoebae. F1000Research, 3:133.

El-Sabaawi, R. W., Zandona, E., Kohler, T. J., Marshall, M. C., Moslemi, J. M., Travis, J., Lopez-Sepulcre, A., Ferriere, R., Pringle, C. M., Thomas, S. A., Reznick, D. N., and Flecker, A. S. (2012). Widespread intraspecific organismal stoichiometry among populations of the Trinidadian guppy. FUNCTIONAL ECOLOGY, 26(3):666–676.

Enard, D., Depaulis, F., and Crollius, H. R. (2010a). Hotspots of positive selection in primate genomes. M S-MEDECINE SCIENCES, 26(6-7):579–581.

Enard, D., Depaulis, F., and Crollius, H. R. (2010b). Human and Non-Human Primate Genomes Share Hotspots of Positive Selection. PLOS GENETICS, 6(2).

Esteban-Riesco, L., Depaulis, F., Morea, A., Bacq, Y., Dubois, F., Goudeau, A., and Gaudy-Graffin, C. (2013). Rapid and sustained autologous neutralizing response leading to early spontaneous recovery after HCV infection. VIROLOGY, 444(1-2):90–99.

Ferriere, R. and Legendre, S. (2013). Eco-evolutionary feedbacks, adaptive dynamics and evolutionary rescue theory. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 368(1610, SI).

Ferriere, R. and Michod, R. E. (2011). Inclusive fitness in evolution. NATURE, 471(7339):E6–E8.

Garcia, T., Brunnet, L. G., and De Monte, S. (2014). Differential Adhesion between Moving Particles as a Mechanism for the Evolution of Social Groups. PLOS COMPUTATIONAL BIOLOGY, 10(2).

Garcia, T. and De Monte, S. (2013). GROUP FORMATION AND THE EVOLUTION OF SOCIALITY. EVOLUTION, 67(1):131–141.

Garcia, T., Doulcier, G., and De Monte, S. (2015). The evolution of adhesiveness as a social adaptation. eLife, 4:e08595.

Gauzens, B., Legendre, S., Lazzaro, X., and Lacroix, G. (2016). Intermediate predation pressure leads to maximal complexity in food webs. Oikos, 125:595–603.

Gauzens, B., Thébault, E., Lacroix, G., and Legendre, S. (2015). Trophic groups and modules: two levels of group detection in food webs. Journal of the Royal Society Interface, 12:20141176.

Ghoumid, K., Benkelfat, B.-E., Ferriere, R., Ulliac, G., and Gharbi, T. (2011). Wavelength-Selective Ti:LiNbO3 Multiple Y-Branch Coupler Based on Focused Ion Beam Milled Bragg Reflectors. JOURNAL OF LIGHTWAVE TECHNOLOGY, 29(23):3536–3541.

Ghoumid, K., Ferriere, R., Benkelfat, B.-E., Guizal, B., and Gharbi, T. (2010). Optical Performance of Bragg Gratings Fabricated in Ti:LiNbO3 Waveguides by Focused Ion Beam Milling. JOURNAL OF LIGHTWAVE TECHNOLOGY, 28(23):3488–3493.

Gonzalez, A., Ronce, O., Ferriere, R., and Hochberg, M. E. (2013). Evolutionary rescue: an emerging focus at the intersection between ecology and evolution. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 368(1610, SI).

He, D., Stone, L., and Cazelles, B. (2010). NOISE-INDUCED SYNCHRONIZATION IN MULTITROPHIC CHAOTIC ECOLOGICAL SYSTEMS. INTERNATIONAL JOURNAL OF BIFURCATION AND CHAOS, 20(6):1779–1788.

Jacquin, L., Cazelles, B., Prevot-Julliard, A.-C., Leboucher, G., and Gasparini, J. (2010). Reproduction management affects breeding ecology and reproduction costs in feral urban Pigeons (Columba livia). CANADIAN JOURNAL OF ZOOLOGY-REVUE CANADIENNE DE ZOOLOGIE, 88(8):781–787.

Jones, E. I., Bronstein, J. L., and Ferriere, R. (2012). The fundamental role of competition in the ecology and evolution of mutualisms. In Mousseau, TA and Fox, CW, editor, YEAR IN EVOLUTIONARY BIOLOGY, volume 1256 of Annals of the New York Academy of Sciences, pages 66–88.

Kernaleguen, L., Cazelles, B., Arnould, J. P. Y., Richard, P., Guinet, C., and Cherel, Y. (2012). Long-Term Species, Sexual and Individual Variations in Foraging Strategies of Fur Seals Revealed by Stable Isotopes in Whiskers. PLOS ONE, 7(3).

Lakis, G., Navascues, M., Rekima, S., Simon, M., Remigereau, M.-S., Leveugle, M., Takvorian, N., Lamy, F., Depaulis, F., and Robert, T. (2012). Evolution of Neutral and Flowering Genes along Pearl Millet (Pennisetum glaucum) Domestication. PLOS ONE, 7(5).

Lee, W., van Baalen, M., and Jansen, V. A. (2015). Siderophore production and the evolution of investment in a public good: an adaptive dynamics approach to kin selection. J. Theor. Biol., 388:61—71.

Lee, W., van Baalen, M., and Jansen, V. A. A. (2012). An evolutionary mechanism for diversity in siderophore-producing bacteria. Ecol. Lett., 15:119–125.

Legendre, S. (2015). Labeled fibonacci trees. The Fibonacci Quarterly, 53:152–167.

Lowe, R., Cazelles, B., Paul, R., and Rodó, X. (2016). Quantifying the impact of climate forcing of dengue epidemics in thailand. Stochastic Environmental Research and Risk Assessment, 30:2067–2078.

Navascues, M., Depaulis, F., and Emerson, B. C. (2010). Combining contemporary and ancient DNA in population genetic and phylogeographical studies. MOLECULAR ECOLOGY RESOURCES, 10(5):760–772.

Navascués, M., Legrand, D., Campagne, C., Cariou, M. L., and Depaulis, F. (2014). Distinguishing migration from isolation using genes with intragenic recombination: detecting introgression in the drosophila simulans species complex. BMC Evolutionary Biology, 14:89.

Rainey, P. B. and De Monte, S. (2014). Resolving Conflicts During the Evolutionary Transition to Multicellular Life. In Futuyma, DJ, editor, ANNUAL REVIEW OF ECOLOGY, EVOLUTION, AND SYSTEMATICS, VOL 45, volume 45 of Annual Review of Ecology Evolution and Systematics, pages 599–620.

Roche, B., Broutin, H., Choisy, M., Godreuil, S., de Magny, G. C., Chevaleyre, Y., Zucker, J.-D., Breban, R., Cazelles, B., and Simard, F. (2014). The niche reduction approach: an opportunity for optimal control of infectious diseases in low-income countries? BMC PUBLIC HEALTH, 14.

Roche, B., Gaillard, B., Léger, L., Moutenda, R., Sochacki, T., Cazelles, B., Ledrans, M., Blateau, A., Fontenille, D., Etienne, M., Simard, F., Salathé, M., and Yébakima, A. (2016). How human behavior drives the propagation of an emerging infection : the case of the 2014 Chikungunya outbreak in Martinique. bioRxiv, page 052183.

Sciascia, R., De Monte, S., and Provenzale, A. (2013). Physics of sinking and selection of plankton cell size. PHYSICS LETTERS A, 377(6):467–472.

Soccodato, A., d’Ovidio, F., Lévy, M., Jahn, O., M.J., F., and De Monte, S. (2016). Estimating planktonic diversity through spatial dominance patterns in a model ocean. Marine Genomics, 29:9–17.

Stegen, J. C., Enquist, B. J., and Ferriere, R. (2010). Advancing the metabolic theory of biodiversity (vol 12, pg 1001, 2009). ECOLOGY LETTERS, 13(1):141.

Stegen, J. C., Enquist, B. J., and Ferriere, R. (2012a). Eco-Evolutionary Community Dynamics: Covariation between Diversity and Invasibility across Temperature Gradients. AMERICAN NATURALIST, 180(4):E110–E126.

Stegen, J. C., Ferriere, R., and Enquist, B. J. (2012b). Evolving ecological networks and the emergence of biodiversity patterns across temperature gradients. PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 279(1731):1051–1060.

Teurlai, M., Huy, R., Cazelles, B., Duboz, R., Baehr, C., and Vong, S. (2012). Can Human Movements Explain Heterogeneous Propagation of Dengue Fever in Cambodia? PLOS NEGLECTED TROPICAL DISEASES, 6(12).

Thai, K. T., Cazelles, B., Nguyen, N. V., Vo, L. T., Boni, M. F., Farrar, J., Simmons, C. P., van Doom, H. R., and de Vries, P. J. (2010a). DENGUE DYNAMICS IN BINH THUAN PROVINCE, SOUTHERN VIETNAM: PERIODICITY, SYNCHRONICITY AND CLIMATE VARIABILITY. AMERICAN JOURNAL OF TROPICAL MEDICINE AND HYGIENE, 83(5, S):30. 59th Annual Meeting of the American-Society-of-Tropical-Medicine-and-Hygiene (ASTMH), Atlanta, GA, NOV 03-07, 2010.

Thai, K. T. D., Cazelles, B., Nguyen, N. V., Vo, L. T., Boni, M. F., Farrar, J., Simmons, C. P., van Doorn, H. R., and de Vries, P. J. (2010b). Dengue Dynamics in Binh Thuan Province, Southern Vietnam: Periodicity, Synchronicity and Climate Variability. PLOS NEGLECTED TROPICAL DISEASES, 4(7).

Tian, H., Bi, P., Cazelles, B., Yang, J., Zhou, S., Huang, S.-Q., Pei, Y., Tong, S.-H., Wang, H.-Y., and Xu, B. (2015a). How environmental conditions impact mosquito ecology and Japanese encephalitis: an eco-epidemiological approach. Environment International, 79:17–24.

Tian, H., Stige, L. C., Cazelles, B., Kausrud, K. L., Svarverud, R., Stenseth, N. C., and Zhang, Z. (2011). Reconstruction of a 1,910-y-long locust series reveals consistent associations with climate fluctuations in China. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 108(35):14521–14526.

Tian, H., Zhou, S., Dong, L., Van Boeckel, T. P., Cui, Y., Wu, Y., Cazelles, B., Huang, S., Yang, R., Grenfell, B. T., and Xu, B. (2015b). Avian influenza H5N1 viral and bird migration networks in Asia. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 112(1):172–177.

Tian, H.-Y., Yu, P.-B., Luis, A. D., Bi, P., Cazelles, B., Laine, M., Huang, S.-Q., Ma, C.-F., Zhou, S., Wei, J., Li, S., Lu, X.-L., Qu, J.-H., Dong, J.-H., Tong, S.-L., Wang, J.-J., Grenfell, B., and Xu, B. (2015c). Changes in Rodent Abundance and Weather Conditions Potentially Drive Hemorrhagic Fever with Renal Syndrome Outbreaks in Xi’an, China, 2005-2012. PLOS NEGLECTED TROPICAL DISEASES, 9(3).

Travis, J., Reznick, D., Bassar, R. D., Lopez-Sepulcre, A., Ferriere, R., and Coulson, T. (2014). Do Eco-Evo Feedbacks Help Us Understand Nature? Answers From Studies of the Trinidadian Guppy. In MoyaLarano, J and Rowntree, J and Woodward, G, editor, ADVANCES IN ECOLOGICAL RESEARCH, VOL 50: ECO-EVOLUTIONARY DYNAMICS, volume 50 of Advances in Ecological Research, pages 1–40.

van Baalen, M. (2013a). Biological information: why we need a good measure and the challenges ahead. Royal Society Interface Focus, 3(6):20130030.

van Baalen, M. (2013b). The unit of adaptation, the emergence of individuality and the loss of evolutionary sovereignty. In Bouchard, F. and Huneman, P., editors, From Groups to Individuals: Perspectives on Biological Associations and Emerging Individuality, chapter 6, pages 117–140. MIT Press.

van Baalen, M. (2014). Adaptation, conflicting information, and stress. Biol. Theor., 9:431–439.

Verdier, B., Jouanneau, I., Simonnet, B., Rabin, C., Van Dooren, T. J. M., Delpierre, N., Clobert, J., Abbadie, L., Ferriere, R., and Le Galliard, J.-F. (2014). Climate and Atmosphere Simulator for Experiments on Ecological Systems in Changing Environments. ENVIRONMENTAL SCIENCE & TECHNOLOGY, 48(15, SI):8744–8753.

Ward, B. A., Marañón, E., Sauterey, B., Rault, J., and Claessen, D. (2016). The size dependence of phytoplankton growth rates: a trade-off between nutrient uptake and metabolism. Am. Nat., online.

Xiao, H., Tian, H.-Y., Cazelles, B., Li, X.-J., Tong, S.-L., Gao, L.-D., Qin, J.-X., Lin, X.-L., Liu, H.-N., and Zhang, X.-X. (2013). Atmospheric Moisture Variability and Transmission of Hemorrhagic Fever with Renal Syndrome in Changsha City, Mainland China, 1991-2010. PLOS NEGLECTED TROPICAL DISEASES, 7(6).

Xiao, H., Tian, H.-Y., Gao, L.-D., Liu, H.-N., Duan, L.-S., Basta, N., Cazelles, B., Li, X.-J., Lin, X.-L., Wu, H.-W., Chen, B.-Y., Yang, H.-S., Xu, B., and Grenfell, B. (2014). Animal Reservoir, Natural and Socioeconomic Variations and the Transmission of Hemorrhagic Fever with Renal Syndrome in Chenzhou, China, 2006-2010. PLOS NEGLECTED TROPICAL DISEASES, 8(1).

Yamauchi, A., van Baalen, M., Kobayashi, Y., Takabayashi, J., Shiojiri, K., and Sabelis, M. W. (2015). Cry-wolf signals emerging from coevolutionary feedbacks in a tritrophic system. Proc R. Soc. Lond. B, 282:2015216.

Yates, A. J., van Baalen, M., and Antia, R. (2011). Virus replication strategies and critical CTL numbers required for the control of infection. PLoS Comp. Biol., 7:e1002274.

Zhang, Z., Tian, H., Cazelles, B., Kausrud, K. L., Braeuning, A., Guo, F., and Stenseth, N. C. (2010). Periodic climate cooling enhanced natural disasters and wars in China during AD 10-1900. PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 277(1701):3745–3753.