C. Ajo-franklin, D. Drubin, and J. Eskin, Rational design of memory in eukaryotic cells, Genes & Development, vol.21, issue.18, pp.2271-2277, 2007.
DOI : 10.1101/gad.1586107

N. Annaluru, H. Muller, and L. Mitchell, Total Synthesis of a Functional Designer Eukaryotic Chromosome, Science, vol.344, issue.6179, pp.55-63, 2014.
DOI : 10.1126/science.1249252

URL : https://hal.archives-ouvertes.fr/pasteur-01420002

S. Bach, N. Talarek, and T. Andrieu, Isolation of drugs active against mammalian prions using a yeast-based screening assay, Nature Biotechnology, vol.21, issue.9, pp.1075-81, 2003.
DOI : 10.1038/nbt855

URL : https://hal.archives-ouvertes.fr/hal-00020141

C. Bashor, A. Horwitz, and S. Peisajovich, Rewiring Cells: Synthetic Biology as a Tool to Interrogate the Organizational Principles of Living Systems, Annual Review of Biophysics, vol.39, issue.1, pp.515-552, 2010.
DOI : 10.1146/annurev.biophys.050708.133652

J. Blazeck and H. Alper, Systems metabolic engineering: Genome-scale models and beyond, Biotechnology Journal, vol.22, issue.7, pp.647-59, 2010.
DOI : 10.1002/biot.200900247

I. Borodina and J. Nielsen, for production of chemicals, Biotechnology Journal, vol.15, issue.5, pp.609-629, 2014.
DOI : 10.1002/biot.201300445

N. Buijs, V. Siewers, and J. Nielsen, Advanced biofuel production by the yeast Saccharomyces cerevisiae, Current Opinion in Chemical Biology, vol.17, issue.3, pp.480-488, 2013.
DOI : 10.1016/j.cbpa.2013.03.036

T. Ca?atay, M. Turcotte, and M. Elowitz, Architecture-Dependent Noise Discriminates Functionally Analogous Differentiation Circuits, Cell, vol.139, issue.3, pp.512-534, 2009.
DOI : 10.1016/j.cell.2009.07.046

J. Cello, A. Paul, and E. Wimmer, Chemical Synthesis of Poliovirus cDNA: Generation of Infectious Virus in the Absence of Natural Template, Science, vol.297, issue.5583, pp.1016-1024, 2002.
DOI : 10.1126/science.1072266

X. Chen, L. Zhou, and K. Tian, Metabolic engineering of Escherichia coli: A sustainable industrial platform for bio-based chemical production, Biotechnology Advances, vol.31, issue.8, pp.1200-1223, 2013.
DOI : 10.1016/j.biotechadv.2013.02.009

W. Copeland, B. Bartley, and D. Chandran, Computational tools for metabolic engineering, Metabolic Engineering, vol.14, issue.3, pp.270-80, 2012.
DOI : 10.1016/j.ymben.2012.03.001

D. Coudreuse and P. Nurse, Driving the cell cycle with a minimal CDK control network, Nature, vol.33, issue.7327, pp.1074-1083, 2010.
DOI : 10.1038/nature09543

URL : https://hal.archives-ouvertes.fr/hal-01120603

E. Couplan, R. Aiyar, and R. Kucharczyk, A yeast-based assay identifies drugs active against human mitochondrial disorders, Proceedings of the National Academy of Sciences, vol.108, issue.29, pp.11989-94, 2011.
DOI : 10.1073/pnas.1101478108

URL : https://hal.archives-ouvertes.fr/hal-00608540

J. Doudna and E. Charpentier, The new frontier of genome engineering with CRISPR-Cas9, Science, vol.346, issue.6213, pp.1258096-1258102, 2014.
DOI : 10.1126/science.1258096

J. Dymond and J. Boeke, The Saccharomyces cerevisiae SCRaMbLE system and genome minimization, Bioengineered, vol.251, issue.3, pp.168-71, 2012.
DOI : 10.1038/35093564

J. Dymond, S. Richardson, and C. Coombes, Synthetic chromosome arms function in yeast and generate phenotypic diversity by design, Nature, vol.38, issue.7365, pp.471-477, 2011.
DOI : 10.1038/nature10403

M. Elowitz and W. Lim, Build life to understand it, Nature, vol.134, issue.7326, pp.889-90, 2010.
DOI : 10.1038/468889a

M. Elowitz and S. Leibler, A synthetic oscillatory network of transcriptional regulators, Nature, vol.403, issue.6767, pp.335-343, 2000.
DOI : 10.1038/35002125

S. Fehrmann, C. Paoletti, and Y. Goulev, Aging Yeast Cells Undergo a Sharp Entry into Senescence Unrelated to the Loss of Mitochondrial Membrane Potential, Cell Reports, vol.5, issue.6, pp.1589-99, 2013.
DOI : 10.1016/j.celrep.2013.11.013

URL : https://hal.archives-ouvertes.fr/ensl-01074680

D. Fisher and P. Nurse, A single fission yeast mitotic cyclin B p34cdc2 kinase promotes both S-phase and mitosis in the absence of G1 cyclins, The EMBO journal, vol.15, pp.850-60, 1996.

J. Fitzpatrick, W. Kricka, and T. James, for the development of a two-step process of hydrolysis and fermentation of cellulose, Journal of Applied Microbiology, vol.17, issue.1, pp.96-108, 2014.
DOI : 10.1111/jam.12494

S. Galanie, K. Thodey, and I. Trenchard, Complete biosynthesis of opioids in yeast, Science, vol.349, issue.6252, pp.1095-100, 2015.
DOI : 10.1126/science.aac9373

G. Gellissen, G. Kunze, and C. Gaillardin, New yeast expression platforms based on methylotrophic and and on dimorphic and ??? A comparison, FEMS Yeast Research, vol.5, issue.11, pp.1079-96, 2005.
DOI : 10.1016/j.femsyr.2005.06.004

C. Gérard, J. Tyson, and D. Coudreuse, Cell Cycle Control by a Minimal Cdk Network, PLOS Computational Biology, vol.194, issue.Pt 4, p.1004056, 2015.
DOI : 10.1371/journal.pcbi.1004056.s005

D. Gibson, J. Glass, and C. Lartigue, Creation of a Bacterial Cell Controlled by a Chemically Synthesized Genome, Science, vol.329, issue.5987, pp.52-58, 2010.
DOI : 10.1126/science.1190719

A. Goryachev and A. Pokhilko, Dynamics of Cdc42 network embodies a Turing-type mechanism of yeast cell polarity, FEBS Letters, vol.73, issue.10, pp.1437-1480, 2008.
DOI : 10.1016/j.febslet.2008.03.029

D. Goto and J. Nakayama, RNA and epigenetic silencing: Insight from fission yeast, Development, Growth & Differentiation, vol.461, issue.1, pp.129-170, 2012.
DOI : 10.1111/j.1440-169X.2011.01310.x

K. Havens, J. Guseman, and S. Jang, A Synthetic Approach Reveals Extensive Tunability of Auxin Signaling, PLANT PHYSIOLOGY, vol.160, issue.1, pp.135-177, 2012.
DOI : 10.1104/pp.112.202184

D. Holoch and D. Moazed, RNA-mediated epigenetic regulation of gene expression, Nature Reviews Genetics, vol.16, issue.2, pp.71-84, 2015.
DOI : 10.1016/j.molcel.2013.08.046

K. Hong and J. Nielsen, Metabolic engineering of Saccharomyces cerevisiae: a key cell factory platform for future biorefineries, Cellular and Molecular Life Sciences, vol.26, issue.9???10, pp.2671-90, 2012.
DOI : 10.1007/s00018-012-0945-1

A. Howell, N. Savage, and S. Johnson, Singularity in Polarization: Rewiring Yeast Cells to Make Two Buds, Cell, vol.139, issue.4, pp.731-774, 2009.
DOI : 10.1016/j.cell.2009.10.024

C. Hutchison, R. Chuang, and V. Noskov, Design and synthesis of a minimal bacterial genome, Science, vol.351, issue.6280, pp.6253-6256, 2016.
DOI : 10.1126/science.aad6253

C. Ishioka, T. Frebourg, and Y. Yan, Screening patients for heterozygous p53 mutations using a functional assay in yeast, Nature Genetics, vol.249, issue.2, pp.124-133, 1993.
DOI : 10.1016/0076-6879(83)01014-9

A. Khakhar, N. Bolten, and J. Nemhauser, Cell-Cell Communication in Yeast Using Auxin Biosynthesis and Auxin Responsive CRISPR Transcription Factors, ACS Synth Biol, p.150706075349008, 2015.

L. Kozubowski, K. Saito, and J. Johnson, Symmetry-Breaking Polarization Driven by a Cdc42p GEF-PAK Complex, Current Biology, vol.18, issue.22, pp.1719-1745, 2008.
DOI : 10.1016/j.cub.2008.09.060

W. Kricka, J. Fitzpatrick, and U. Bond, Metabolic engineering of yeasts by heterologous enzyme production for degradation of cellulose and hemicellulose from biomass: a perspective, Frontiers in Microbiology, vol.41, issue.194, p.174, 2014.
DOI : 10.1007/s10295-013-1364-5

A. Krivoruchko, V. Siewers, and J. Nielsen, Opportunities for yeast metabolic engineering: Lessons from synthetic biology, Biotechnology Journal, vol.27, issue.3, pp.262-76, 2011.
DOI : 10.1002/biot.201000308

P. Mali, K. Esvelt, and G. Church, Cas9 as a versatile tool for engineering biology, Nature Methods, vol.11, issue.10, pp.957-63, 2013.
DOI : 10.1126/science.1233028

D. Morgan, CYCLIN-DEPENDENT KINASES: Engines, Clocks, and Microprocessors, Annual Review of Cell and Developmental Biology, vol.13, issue.1, pp.261-91, 1997.
DOI : 10.1146/annurev.cellbio.13.1.261

D. Morgan, The Cell Cycle, 2007.

S. Mukherji and A. Van-oudenaarden, Synthetic biology: understanding biological design from synthetic circuits, Nature Reviews Genetics, vol.88, pp.859-71, 2009.
DOI : 10.1038/nrg2697

H. Muller, N. Annaluru, and J. Schwerzmann, Assembling Large DNA Segments in Yeast, Methods in molecular biology, vol.852, pp.133-50, 2012.
DOI : 10.1007/978-1-61779-564-0_11

T. Naito, A. Matsuura, and F. Ishikawa, Circular chromosome formation in a fission yeast mutant defective in two ATM homologues, Nature Genetics, vol.20, issue.2, pp.203-209, 1998.
DOI : 10.1038/2517

T. Nakamura, J. Cooper, and T. Cech, Two Modes of Survival of Fission Yeast Without Telomerase, Science, vol.282, issue.5388, pp.493-499, 1998.
DOI : 10.1126/science.282.5388.493

N. Nandagopal and M. Elowitz, Synthetic Biology: Integrated Gene Circuits, Science, vol.333, issue.6047, pp.1244-1252, 2011.
DOI : 10.1126/science.1207084

E. Nevoigt, Progress in Metabolic Engineering of Saccharomyces cerevisiae, Microbiology and Molecular Biology Reviews, vol.72, issue.3, pp.379-412, 2008.
DOI : 10.1128/MMBR.00025-07

J. Nielsen, C. Larsson, and A. Van-maris, Metabolic engineering of yeast for production of fuels and chemicals, Current Opinion in Biotechnology, vol.24, issue.3, pp.398-404, 2013.
DOI : 10.1016/j.copbio.2013.03.023

S. Ostergaard, L. Olsson, and J. Nielsen, Metabolic Engineering of Saccharomyces cerevisiae, Microbiology and Molecular Biology Reviews, vol.64, issue.1, pp.34-50, 2000.
DOI : 10.1128/MMBR.64.1.34-50.2000

T. Osterlund, I. Nookaew, and J. Nielsen, Fifteen years of large scale metabolic modeling of yeast: Developments and impacts, Biotechnology Advances, vol.30, issue.5, pp.979-88, 2012.
DOI : 10.1016/j.biotechadv.2011.07.021

T. Outeiro and S. Lindquist, Yeast Cells Provide Insight into Alpha-Synuclein Biology and Pathobiology, Science, vol.302, issue.5651, pp.1772-1777, 2003.
DOI : 10.1126/science.1090439

C. Paddon and J. Keasling, Semi-synthetic artemisinin: a model for the use of synthetic biology in pharmaceutical development, Nature Reviews Microbiology, vol.199, issue.5, pp.355-67, 2014.
DOI : 10.1038/nrmicro3240

C. Paddon, P. Westfall, and D. Pitera, High-level semi-synthetic production of the potent antimalarial artemisinin, Nature, vol.68, issue.7446, pp.528-560, 2013.
DOI : 10.1038/nature12051

S. Paliwal, P. Iglesias, and K. Campbell, MAPK-mediated bimodal gene expression and adaptive gradient sensing in yeast, Nature, vol.288, issue.7131, pp.46-51, 2007.
DOI : 10.1038/nature05561

M. Park, J. Hur, and K. Kwon, Pumpless, selective docking of yeast cells inside a microfluidic channel induced by receding meniscus, Lab on a Chip, vol.16, issue.8, pp.988-94, 2006.
DOI : 10.1039/b602961b

G. Pósfai, G. Plunkett, and T. Fehér, Emergent Properties of Reduced-Genome Escherichia coli, Science, vol.312, issue.5776, pp.1044-1050, 2006.
DOI : 10.1126/science.1126439

C. Rabinovitch-deere, J. Oliver, and G. Rodriguez, Synthetic Biology and Metabolic Engineering Approaches To Produce Biofuels, Chemical Reviews, vol.113, issue.7, pp.4611-4643, 2013.
DOI : 10.1021/cr300361t

S. Regot, J. Macia, and N. Conde, Distributed biological computation with multicellular engineered networks, Nature, vol.420, issue.7329, pp.207-218, 2011.
DOI : 10.1038/nature09679

D. Ro, E. Paradise, and M. Ouellet, Production of the antimalarial drug precursor artemisinic acid in engineered yeast, Nature, vol.272, issue.7086, pp.940-943, 2006.
DOI : 10.1038/nature04640

E. Sackmann, A. Fulton, and D. Beebe, The present and future role of microfluidics in biomedical research, Nature, vol.9, issue.7491, pp.181-190, 2014.
DOI : 10.1021/ac301512f

Y. Shen, G. Stracquadanio, and Y. Wang, SCRaMbLE generates designed combinatorial stochastic diversity in synthetic chromosomes, Genome Research, vol.26, issue.1, pp.36-49, 2015.
DOI : 10.1101/gr.193433.115

W. Shou, S. Ram, and J. Vilar, Synthetic cooperation in engineered yeast populations, Proceedings of the National Academy of Sciences, vol.104, issue.6, pp.1877-82, 2007.
DOI : 10.1073/pnas.0610575104

D. Sprinzak and M. Elowitz, Reconstruction of genetic circuits, Nature, vol.426, issue.7067, pp.443-451, 2005.
DOI : 10.1038/nature04335

R. St-onge, U. Schlecht, and C. Scharfe, Forward Chemical Genetics in Yeast for Discovery of Chemical Probes Targeting Metabolism, Molecules, vol.17, issue.12, pp.13098-115, 2012.
DOI : 10.3390/molecules171113098

B. Stern and P. Nurse, A quantitative model for the cdc2 control of S phase and mitosis in fission yeast, Trends in Genetics, vol.12, issue.9, pp.345-50, 1996.
DOI : 10.1016/S0168-9525(96)80016-3

S. Sternberg and J. Doudna, Expanding the Biologist???s Toolkit with CRISPR-Cas9, Molecular Cell, vol.58, issue.4, pp.568-74, 2015.
DOI : 10.1016/j.molcel.2015.02.032

J. Stricker, S. Cookson, and M. Bennett, A fast, robust and tunable synthetic gene oscillator, Nature, vol.2, issue.7221, pp.516-525, 2008.
DOI : 10.1038/nature07389

F. Szczebara, C. Chandelier, and C. Villeret, Total biosynthesis of hydrocortisone from a simple carbon source in yeast, Nature Biotechnology, vol.11, issue.2, pp.143-152, 2003.
DOI : 10.1038/nbt775

S. Takahashi and P. Pryciak, Membrane Localization of Scaffold Proteins Promotes Graded Signaling in the Yeast MAP Kinase Cascade, Current Biology, vol.18, issue.16, pp.1184-91, 2008.
DOI : 10.1016/j.cub.2008.07.050

E. Tao, M. Calvert, and M. Balasubramanian, Rewiring Mid1p-Independent Medial Division in Fission Yeast, Current Biology, vol.24, issue.18, pp.2181-2189, 2014.
DOI : 10.1016/j.cub.2014.07.074

C. Terenna, T. Makushok, and G. Velve-casquillas, Physical Mechanisms Redirecting Cell Polarity and Cell Shape in Fission Yeast, Current Biology, vol.18, issue.22, pp.1748-53, 2008.
DOI : 10.1016/j.cub.2008.09.047

G. Velve-casquillas, L. Berre, M. Piel, and M. , Microfluidic tools for cell biological research, Nano Today, vol.5, issue.1, pp.28-47, 2010.
DOI : 10.1016/j.nantod.2009.12.001

W. Wiechert, Modeling and simulation: tools for metabolic engineering, Journal of Biotechnology, vol.94, issue.1, pp.37-63, 2002.
DOI : 10.1016/S0168-1656(01)00418-7

S. Willingham, T. Outeiro, and M. Devit, Yeast Genes That Enhance the Toxicity of a Mutant Huntingtin Fragment or ??-Synuclein, Science, vol.302, issue.5651, pp.1769-72, 2003.
DOI : 10.1126/science.1090389

M. Win and C. Smolke, Higher-Order Cellular Information Processing with Synthetic RNA Devices, Science, vol.322, issue.5900, pp.456-60, 2008.
DOI : 10.1126/science.1160311

X. Yang, A. Jost, and O. Weiner, A light-inducible organelle-targeting system for dynamically activating and inactivating signaling in budding yeast, Molecular Biology of the Cell, vol.24, issue.15, pp.2419-2449, 2013.
DOI : 10.1091/mbc.E13-03-0126

H. Youk and W. Lim, Secreting and Sensing the Same Molecule Allows Cells to Achieve Versatile Social Behaviors, Science, vol.343, issue.6171, pp.1242782-1242784, 2014.
DOI : 10.1126/science.1242782

J. Zalatan, M. Lee, and R. Almeida, Engineering Complex Synthetic Transcriptional Programs with CRISPR RNA Scaffolds, Cell, vol.160, issue.1-2, pp.339-50, 2015.
DOI : 10.1016/j.cell.2014.11.052

Y. Zhao, Auxin Biosynthesis and Its Role in Plant Development, Annual Review of Plant Biology, vol.61, issue.1, pp.49-64, 2010.
DOI : 10.1146/annurev-arplant-042809-112308