Publications in 2016
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Abernot J., Beslon G., Hickinbotham S., Peigner S., Rigotti C. (2016) A Commensal Architecture for Evolving Living Instruments. In: proceedings of Conference on Computer Simulation of Musical Creativity, Huddersfield, United Kingdom, June 2016, 8pp.
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Banzhaf W., Baumgaertner B., Beslon G., Doursat R., Foster J. A., McMullin B., Veloso de Melo V., Miconi T., Spector L., Stepney S., White R. (2016) Defining and Simulating Open-Ended Novelty: Requirements, Guidelines, and Challenges. Theory in Biosciences, 135(3):131-161
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Banzhaf W., Beslon G., Doursat R., Stepney S. (2016) Open-Endedness: Definitions and Shortcuts. The Second Workshop on Open-Ended Evolution, at ALife 2016, Cancun, Mexico, 2pp.
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Batut B., Beslon G., Knibbe C. (2016). Unexpected genome inflation and streamlining in variable environments. Journées ouvertes de Biologie Informatique & Mathématiques 2016, June 2016, Lyon, France
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Beslon G., Liard V., Elena S. F. (2016) Evolvability drives innovation in viral genomes. 2nd EvoEvo Workshop, satellite workshop of CCS2016, Sep 2016, Amsterdam, NL, 6 p.
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Biller P., L Guéguen, Knibbe C., Tannier E. (2016) Breaking good: accounting for fragility of genomic regions in rearrangement distance estimation. Genome Biology and Evolution, 8(5):1427-1439
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Biller P., Knibbe C., Beslon G., Tannier E. (2016) Comparative genomics on artificial life. In: proceedings of CiE 2016 (Computability in Europe), Paris, France, Volume 9709 of the series Lecture Notes in Computer Science, pp 35-44
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Biller P., Tannier E., Beslon G., Knibbe C. (2016) In silico experimental evolution provides independent and challenging benchmarks for comparative genomics. Journées ouvertes de Biologie Informatique & Mathématiques 2016, June 2016, Lyon, France, pp. 79-82
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Cervera H., Lalić J., Elena S. F. (2016) Efficient escape from local optima in a highly rugged fitness landscape by evolving RNA virus populations. Proceedings of the Royal Society, Biological Sciences, 283: 20160984.
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Cervera H., Elena S. F. (2016) Genetic variation in fitness within a clonal population of a plant RNA virus. Virus Evolution, 2(1): vew006.
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Cervera H., Lalić J., Elena S. F. (2016) Effect of host species on topography of the fitness landscape for a plant RNA virus. Journal of Virology, 90(22):10160-10169
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Colizzi E. S., Hogeweg P. (2016) Mutational load is ameliorated by increased transcriptional load-associated mutations, if these are biased towards duplications and deletions. 2nd EvoEvo Workshop, satellite workshop of CCS2016, Sep 2016, Amsterdam, NL, 5 p.
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Elena S. F. (2016) Evolutionary transitions during RNA virus experimental evolution. Philosophical Transactions of the Royal Society, Biological Sciences, 371(1701):20150441
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Elena S. F. (2016) Local adaptation of plant viruses: lessons from experimental evolution. Molecular Ecology, [Epub ahead of print]. PMID: 27612225.
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Großkopf T., Consuegra J., Gaffé J., Willison J. C., Lenski R. E., Soyer O. S., Schneider D. (2016) Metabolic modelling in a dynamic evolutionary framework predicts adaptive diversification of bacteria in a long-term evolution experiment. BMC Evolutionary Biology, 16(1):163
PDF - Hickinbotham S., Stepney S. (2016) Bio-Reflective Architectures for Evolutionary Innovation. In proceedings of ALife 2016, Cancun, Mexico, July 2016, pp. 192-199
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Hickinbotham S., Stepney S. (2016) Augmenting Live Coding with Evolved Patterns. In: Proceedings of EvoMusArt, 5th International Conference on Computational Intelligence in Music, Sound, Art and Design, Porto, Portugal, March 2016, LNCS 9596:31-46
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Hickinbotham S., Hogeweg P. (2016) Evolution towards extinction in replicase models: inevitable unless… 2nd EvoEvo Workshop, satellite workshop of CCS2016, Sep 2016, Amsterdam, NL, 5 p.
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Hillung J., García-García F., Dopazo J., Cuevas J. M., Elena S. F. (2016) The transcriptomics of an experimentally evolved plant-virus interaction. Scientific Reports, 6:24901
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Hoverd T., Stepney S. (2016) EvoMachina: a novel evolutionary algorithm inspired by bacterial genome reorganisation. Late Breaking Abstracts, UCNC 2016, Manchester, UK, 2pp., 2016
PDF - Hoverd T., Stepney S. (2016) EvoMachina: a novel evolutionary algorithm inspired by bacterial genome reorganisation. 2nd EvoEvo workshop, Amsterdam, Netherlands.
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Plucain J., Suau A., Cruveiller S., Médigue C., Schneider D., Le Gac M. (2016) Contrasting effects of historical contingency on phenotypic and genomic trajectories during a two-step evolution experiment with bacteria. BMC Evolutionary Biology, 16(1):86
PDF - Rocabert C., Knibbe C., Consuegra J., Schneider D., Beslon G. (2016) Environmental Driving of Bacterial Diversification in In Silico Experimental Evolution. Evolutionary systems biology: from model organisms to human disease workshop, Cambridge (UK), March 2016, 1 p.
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Rocabert C., Knibbe C., Consuegra J., Schneider D., Beslon G. (2016) In Silico Experimental Evolution Highlights the Influence of Environmental Seasonality on Bacterial Diversification. 2nd EvoEvo Workshop, satellite workshop of CCS2016, Sep 2016, Amsterdam, NL, 4 p.
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Rutten J., Hogeweg P., Beslon G. (2016) Evolution of mutator populations in constant environments. 2nd EvoEvo Workshop, satellite workshop of CCS2016, Sep 2016, Amsterdam, NL, 5pp.
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Stepney S., Beslon G. (2016) Open-Endedness: Definitions and Shortcuts. 2nd EvoEvo Workshop, satellite workshop of CCS2016, Sep 2016, Amsterdam, NL, 6pp.
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Takeuchi N., Kaneko K., Hogeweg P. (2016) Evolutionarily stable disequilibrium: endless dynamics of evolution in a stationary population. Proceedings of the Royal Society, Biological Sciences, 283(1830):20153109
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Taylor T., Bedau M., Channon A., Ackley D., Banzhaf W., Beslon G., Dolson E., Froese T., Hickinbotham S., Ikegami T., McMullin B., Packard N., Rasmussen S., Virgo N., Agmon E,. Clark E., McGregor S., Ofria C., Ropella G., Spector L., Stanley K. O., Stanton A., Timperley C., Vostinar A., Wiser M. (2016) Open-Ended Evolution: Perspectives from the OEE1 Workshop in York. Artificial Life, 22(3):408-423
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Taylor T., Auerbach J. E., Bongard J., Clune J., Hickinbotham S., Ofria C., Oka M., Risi S., Stanley K. O., Yosinski J. (2016) WebAL Comes of Age: A review of the first 21 years of Artificial Life on the Web. Artificial Life, 22(3):364-407
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Tenaillon O., Barrick J. E., Ribeck N., Deatherage D. E., Blanchard J. L., Dasgupta A., Wu G. C., Wielgoss S., Cruveiller S., Médigue C., Schneider D., Lenski R. E. (2016) Tempo and mode of genome evolution in a 50,000-generation experiment. Nature, 536(7615):165-170
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Vadée-Le-Brun Y., Rouzaud-Cornabas J., Beslon G. (2016) In Silico Experimental Evolution suggests a complex intertwining of selection, robustness and drift in the evolution of genetic networks complexity. In proceedings of ALife 2016, Cancun, Mexico, July 2016, pp. 172-179
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van Dijk B., Hogeweg P. (2016) In silico gene-level evolution explains microbial population diversity through differential gene mobility. Genome Biology and Evolution, 28;8(1):176-188
PDF - van Dijk B., Cuypers T. D., Hogeweg P. (2016) Evolution of r- and K-selected species of Virtual Microbes: a case study in a simple fluctuating 2-resource environment. 2nd EvoEvo Workshop, satellite workshop of CCS2016, Sep 2016, Amsterdam, NL, 5 p.
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Willemsen A., Zwart M. P., Elena S. F. (2016) High virulence does not necessarily impede viral adaptation to a new host: A case study using a plant RNA virus. bioRxiv 060137; doi: http://dx.doi.org/10.1101/060137
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Willemsen A., Zwart M. P., Higueras P., Sardanyés J., Elena S. F. (2016) Predicting the stability of homologous gene duplications in a plant RNA virus. Genome Biology and Evolution, 8(9):3065-3082.
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Willemsen A., Zwart M. P., Ambrós S., Carrasco J. L., Elena S. F. (2016) 2b or not 2b: Experimental evolution of functional exogenous sequences in a plant RNA virus. bioRxiv 079970; doi: http://dx.doi.org/10.1101/079970
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Willemsen A., Zwart M. P., Tromas N., Majer E., Daròs J. A., Elena S. F. (2016) Multiple barriers to the evolution of alternative gene orders in a positive-strand RNA virus. Genetics, 2(4):1503-1521
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Wu B., Zwart M. P., Sanchez-Navarro J. A., Elena S. F. (2016) Within-host evolution of segments ratio for the tripartite genome of Alfalfa mosaic virus. bioRxiv 066084; doi: http://dx.doi.org/10.1101/066084
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EvoEvo is an Information and Communication Technologies initiative funded by the European Commission under FP7.
Background image - Young Tree, 1932, Paul Klee
Background image - Young Tree, 1932, Paul Klee