This page lists the publications that have been produced by the Synthetic Yeast project.

  • GC Preps: Fast and Easy Extraction of Stable Yeast Genomic DNA. Benjamin A. Blount, Maureen R. M. Driessen and Tom Ellis. Nature Scientific Reports 6, Article number: 26863 (2016) doi:10.1038/srep26863
  • The Fifth Annual Sc2.0 and Synthetic Genomes Conference: Synthetic Genomes in High Gear. Walker RS, Cai Y. ACS Synth. Biol. 5 920-925 (2016) doi:10.1021/acssynbio.6b00227
  • Synthetic genome engineering forging new frontiers for wine yeast. Pretorius IS.Crit. Rev. Biotechnol. 18 1-25 (2016)

  • Robust orthogonal recombination system for versatile genomic elements rearrangement in yeast Saccharomyces Cerevisiae. Qiuhui Lin, Hao Qi, Yi Wu and Yingjin Yuan. Scientific Reports 5, Article number: 15249 (2015) doi:10.1038/srep15249
  • SCRaMbLE generates designed combinatorial stochastic diversity in synthetic chromosomes. Shen,Y., Stracquadanio,G., Wang,Y., Yang,K., Mitchell,L.A., Xue,Y., Cai,Y., Chen,T., Dymond,J.S., Kang,K., et al. Genome Research, 26 36-49 (2015) doi:10.1101/gr.193433.115
  • RADOM, an efficient in vivo method for assembling designed DNA fragments up to 10 kb long in Saccharomyces cerevisiae. Lin Q, Jia B, Mitchell LA, Luo J, Yang K, Zeller KI, Zhang W, Xu Z, Stracquadanio G, Bader JS, Boeke JD, Yuan YJ,.ACS Synth Biol. 4 213-220 (2015) doi:10.1021/sb500241e
  • Rewriting the blueprint of life by synthetic genomics and genome engineering. Annaluru N, Ramalingam S, Chandrasegaran S.Genome Biol. 16 125 (2015) doi:10.1186/s13059-015-0689-y
  • qPCRTag Analysis--A High Throughput, Real Time PCR Assay for Sc2.0 Genotyping. Mitchell LA, Phillips NA, Lafont A, Martin JA, Cutting R, Boeke JD. J. Vis. Exp. e52941. (2015) doi:10.3791/52941

  • Total Synthesis of a Functional Designer Eukaryotic Chromosome. Narayana Annaluru, Héloïse Muller, Leslie A. Mitchell, Sivaprakash Ramalingam, Giovanni Stracquadanio, Sarah M. Richardson, Jessica S. Dymond, Zheng Kuang, Lisa Z. Scheifele, Eric M. Cooper, Yizhi Cai, Karen Zeller, Neta Agmon, Jeffrey S. Han, Michalis Hadjithomas, Jennifer Tullman, Katrina Caravelli, Kimberly Cirelli, Zheyuan Guo, Viktoriya London, Apurva Yeluru, Sindurathy Murugan, Karthikeyan Kandavelou, Nicolas Agier, Gilles Fischer, Kun Yang, J. Andrew Martin, Murat Bilgel, Pavlo Bohutski, Kristin M. Boulier, Brian J. Capaldo, Joy Chang, Kristie Charoen, Woo Jin Choi, Peter Deng, James E. DiCarlo, Judy Doong, Jessilyn Dunn, Jason I. Feinberg, Christopher Fernandez, Charlotte E. Floria, David Gladowski, Pasha Hadidi, Isabel Ishizuka, Javaneh Jabbari, Calvin Y.L. Lau, Pablo A. Lee, Sean Li, Denise Lin, Matthias E. Linder, Jonathan Ling, Jaime Liu, Jonathan Liu, Mariya London, Henry Ma, Jessica Mao, Jessica E. McDade, Alexandra McMillan, Aaron M. Moore, Won Chan Oh, Yu Ouyang, Ruchi Patel, Marina Paul, Laura C. Paulsen, Judy Qiu, Alex Rhee, Matthew G. Rubashkin, Ina Y. Soh, Nathaniel E. Sotuyo, Venkatesh Srinivas, Allison Suarez, Andy Wong, Remus Wong, Wei Rose Xie, Yijie Xu, Allen T. Yu, Romain Koszul, Joel S. Bader, Jef D. Boeke, and Srinivasan Chandrasegaran. Science. 344, 55-58 (2014) doi:10.1126/science.1249252
  • The Sixth International Meeting on Synthetic Biology (SB6. 0). Cai Y, Ellis T. Special Issue Editorial. ACS Synthetic Biology 3: 107-107 (2014) doi:10.1021/sb500085b
  • Total synthesis of a eukaryotic chromosome: Redesigning and SCRaMbLE-ing yeast. Jovicevic D, Blount BA, Ellis T. Bioessays 36 855-60. (2014) doi:10.1002/bies.201400086
  • Circular permutation of a synthetic eukaryotic chromosome with the telomerator. Mitchell LA, Boeke JD. Proc Natl Acad Sci USA. 111 17003-17010 (2014) doi:10.1073/pnas.1414399111

  • The Saccharomyces cerevisiae SCRaMbLE system and genome minimization. Jessica Dymond and Jef Boeke. Bioengineered. 3, 170-173 (2012) doi: 10.4161/bbug.19543
  • The Build-a-Genome course. Cooper EM1, Müller H, Chandrasegaran S, Bader JS, Boeke JD.Methods Mol. Biol. 852 273-283 (2012) doi:10.1007/978-1-61779-564-0_20
  • Assembling large DNA segments in yeast. Muller H, Annaluru N, Schwerzmann JW, Richardson SM, Dymond JS, Cooper EM, Bader JS, Boeke JD, Chandrasegaran S.Methods Mol Biol. 852133-50 (2012) doi:10.1007/978-1-61779-564-0_11
  • Design-A-Gene with GeneDesign. Richardson SM, Liu S, Boeke JD, Bader JS.Methods Mol Biol. 852 235-247 (2012) doi:10.1007/978-1-61779-564-0_18

  • Synthetic chromosome arms function in yeast and generate phenotypic diversity by design. Jessica S. Dymond, Sarah M. Richardson, Candice E. Coombes, Timothy Babatz, Héloïse Muller, Narayana Annaluru, William J. Blake, Joy W. Schwerzmann, Junbiao Dai, Derek L. Lindstrom, Annabel C. Boeke, Daniel E. Gottschling, Srinivasan Chandrasegaran, Joel S. Bader and Jef D. Boeke. Nature. 477, 471-476 (2011) doi:10.1038/nature10403

  • GeneDesign 3.0 is an updated synthetic biology toolkit. Richardson SM1, Nunley PW, Yarrington RM, Boeke JD, Bader JS. Nucleic Acids Res. 38 2603-2606 (2010) doi:10.1093/nar/gkq143

  • Teaching synthetic biology, bioinformatics and engineering to undergraduates: the interdisciplinary Build-a-Genome course. Dymond JS, Scheifele LZ, Richardson S, Lee P, Chandrasegaran S, Bader JS, Boeke JD.Genetics 181 13-21 (2009) doi:10.1534/genetics.108.096784

  • GeneDesign: Rapid, automated design of multikilobase synthetic genesSarah M. Richardson, Sarah J. Wheelan, Robert M. Yarrington, and Jef D. Boeke. Genome Research. 16, 550-556 (2006) doi:10.1101/gr.4431306