IGEM:Harvard/2006/Background Reading

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Contents 1 Synthetic Biology 2 DNA Nanotechnology 3 Circadian Rhythm in Cyanobacteria

Synthetic Biology

1. Endy D. Foundations for engineering biology. Nature 2005 Nov 24; 438(7067) 449-53. doi:10.1038/nature04342 pmid:16306983. PubMed HubMed PubGet [sb1]
2. Gardner TS, Cantor CR, and Collins JJ. Construction of a genetic toggle switch in Escherichia coli. Nature 2000 Jan 20; 403(6767) 339-42. doi:10.1038/35002131 pmid:10659857. PubMed HubMed PubGet [sb2]
3. Elowitz MB and Leibler S. A synthetic oscillatory network of transcriptional regulators. Nature 2000 Jan 20; 403(6767) 335-8. doi:10.1038/35002125 pmid:10659856. PubMed HubMed PubGet [sb3]

All Medline abstracts: PubMed HubMed

DNA Nanotechnology

4. Shih WM, Quispe JD, and Joyce GF. A 1.7-kilobase single-stranded DNA that folds into a nanoscale octahedron. Nature 2004 Feb 12; 427(6975) 618-21. doi:10.1038/nature02307 pmid:14961116. PubMed HubMed PubGet [dna0]
5. Rothemund PW, Papadakis N, and Winfree E. Algorithmic self-assembly of DNA Sierpinski triangles. PLoS Biol 2004 Dec; 2(12) e424. doi:10.1371/journal.pbio.0020424 pmid:15583715. PubMed HubMed PubGet [dna1]
6. Rothemund PW, Ekani-Nkodo A, Papadakis N, Kumar A, Fygenson DK, and Winfree E. Design and characterization of programmable DNA nanotubes. J Am Chem Soc 2004 Dec 22; 126(50) 16344-52. doi:10.1021/ja044319l pmid:15600335. PubMed HubMed PubGet [dna2]
7. Mathieu F, Liao S, Kopatsch J, Wang T, Mao C, and Seeman NC. Six-helix bundles designed from DNA. Nano Lett 2005 Apr; 5(4) 661-5. doi:10.1021/nl050084f pmid:15826105. PubMed HubMed PubGet [dna3]
8. Nutiu R and Li Y. A DNA-protein nanoengine for "on-demand" release and precise delivery of molecules. Angew Chem Int Ed Engl 2005 Aug 26; 44(34) 5464-7. doi:10.1002/anie.200501214 pmid:16041813. PubMed HubMed PubGet [dna4]
9. Rothemund PW. Folding DNA to create nanoscale shapes and patterns. Nature 2006 Mar 16; 440(7082) 297-302. doi:10.1038/nature04586 pmid:16541064. PubMed HubMed PubGet [dna5]

All Medline abstracts: PubMed HubMed

Circadian Rhythm in Cyanobacteria

10. Kucho K, Okamoto K, Tsuchiya Y, Nomura S, Nango M, Kanehisa M, and Ishiura M. Global analysis of circadian expression in the cyanobacterium Synechocystis sp. strain PCC 6803. J Bacteriol 2005 Mar; 187(6) 2190-9. doi:10.1128/JB.187.6.2190-2199.2005 pmid:15743968. PubMed HubMed PubGet [cyano1]
11. Kondo T and Ishiura M. The circadian clock of cyanobacteria. Bioessays 2000 Jan; 22(1) 10-5. doi:10.1002/(SICI)1521-1878(200001)22:1<10::AID-BIES4>3.0.CO;2-A pmid:10649285. PubMed HubMed PubGet [cyano2]
12. Lemeille S, Latifi A, and Geiselmann J. Inferring the connectivity of a regulatory network from mRNA quantification in Synechocystis PCC6803. Nucleic Acids Res 2005; 33(10) 3381-9. doi:10.1093/nar/gki654 pmid:15944453. PubMed HubMed PubGet [cyano3]
13. Liu Y, Tsinoremas NF, Johnson CH, Lebedeva NV, Golden SS, Ishiura M, and Kondo T. Circadian orchestration of gene expression in cyanobacteria. Genes Dev 1995 Jun 15; 9(12) 1469-78. pmid:7601351. PubMed HubMed PubGet [cyano4]
14. Nishiwaki T, Satomi Y, Nakajima M, Lee C, Kiyohara R, Kageyama H, Kitayama Y, Temamoto M, Yamaguchi A, Hijikata A, Go M, Iwasaki H, Takao T, and Kondo T. Role of KaiC phosphorylation in the circadian clock system of Synechococcus elongatus PCC 7942. Proc Natl Acad Sci U S A 2004 Sep 21; 101(38) 13927-32. doi:10.1073/pnas.0403906101 pmid:15347812. PubMed HubMed PubGet [cyano5]
15. Nakajima M, Imai K, Ito H, Nishiwaki T, Murayama Y, Iwasaki H, Oyama T, and Kondo T. Reconstitution of circadian oscillation of cyanobacterial KaiC phosphorylation in vitro. Science 2005 Apr 15; 308(5720) 414-5. doi:10.1126/science.1108451 pmid:15831759. PubMed HubMed PubGet [cyano6]
16. Tsinoremas NF, Ishiura M, Kondo T, Andersson CR, Tanaka K, Takahashi H, Johnson CH, and Golden SS. A sigma factor that modifies the circadian expression of a subset of genes in cyanobacteria. EMBO J 1996 May 15; 15(10) 2488-95. pmid:8665856. PubMed HubMed PubGet [cyano7]
17. Xu Y, Mori T, and Johnson CH. Cyanobacterial circadian clockwork: roles of KaiA, KaiB and the kaiBC promoter in regulating KaiC. EMBO J 2003 May 1; 22(9) 2117-26. doi:10.1093/emboj/cdg168 pmid:12727878. PubMed HubMed PubGet [cyano8]
18. Wang J. Recent cyanobacterial Kai protein structures suggest a rotary clock. Structure 2005 May; 13(5) 735-41. doi:10.1016/j.str.2005.02.011 pmid:15893664. PubMed HubMed PubGet [cyano9]
19. Naef F. Circadian clocks go in vitro: purely post-translational oscillators in cyanobacteria. Mol Syst Biol 2005; 1 2005.0019. doi:10.1038/msb4100027 pmid:16729054. PubMed HubMed PubGet [cyano10]

All Medline abstracts: PubMed HubMed

This is just scratching the surface - do a PubMed search for "circadian cyanobacteria" and you'll find hundreds of papers.