Peretó J, López-García P, Moreira D: Ancestral lipid biosynthesis and early membrane evolution. Trends Biochem Sci 2004,29(9):469-477. 10.1016/j.tibs.2004.07.002
Article
PubMed
Google Scholar
Martin W, Russell MJ: On the origins of cells: a hypothesis for the evolutionary transitions from abiotic geochemistry to chemoautotrophic prokaryotes, and from prokaryotes to nucleated cells. Philos Trans R Soc Lond B Biol Sci 2003,358(1429):59-83; discussion 83-5. 10.1098/rstb.2002.1183
Article
PubMed
CAS
PubMed Central
Google Scholar
Koonin EV, Martin W: On the origin of genomes and cells within inorganic compartments. Trends Genet 2005,21(12):647-654. 10.1016/j.tig.2005.09.006
Article
PubMed
CAS
Google Scholar
Koonin EV, Senkevich TG, Dolja VV: The ancient virus world and evolution of cells. Biol Direct 2006,1(1):29. 10.1186/1745-6150-1-29
Article
PubMed
PubMed Central
Google Scholar
Cavalier-Smith T: Rooting the tree of life by transition analyses. Biol Direct 2006,1(1):19. 10.1186/1745-6150-1-19
Article
PubMed
PubMed Central
Google Scholar
Koonin EV, Senkevich TG, Dolja VV: The ancient Virus World and evolution of cells. Biol Direct 2006, 1: 29. 10.1186/1745-6150-1-29
Article
PubMed
PubMed Central
Google Scholar
Koonin EV: On the Origin of Cells and Viruses: A Comparative-Genomic Perspective. Israel Journal of Ecology and Evolution in press:
Cavalier-Smith T: The neomuran origin of archaebacteria, the negibacterial root of the universal tree and bacterial megaclassification. Int J Syst Evol Microbiol 2002,52(Pt 1):7-76.
Article
PubMed
CAS
Google Scholar
Wächtershauser G: From pre-cells to Eukarya--a tale of two lipids. Mol Microbiol 2003,47(1):13-22. 10.1046/j.1365-2958.2003.03267.x
Article
PubMed
Google Scholar
Osborne AR, Rapoport TA, van den Berg B: Protein Translocation by the Sec61/Secy Channel. Annu Rev Cell Dev Biol 2005, 21: 529-550. 10.1146/annurev.cellbio.21.012704.133214
Article
PubMed
CAS
Google Scholar
Schwartz T: Origins and evolution of cotranslational transport to the ER. In Origins and evolution of eukaryotic endomembranes and cytoskeleton. Edited by: Jékely G. Austin , Landes Bioscience; 2006.
Google Scholar
Tatusov RL, Fedorova ND, Jackson JD, Jacobs AR, Kiryutin B, Koonin EV, Krylov DM, Mazumder R, Mekhedov SL, Nikolskaya AN, Rao BS, Smirnov S, Sverdlov AV, Vasudevan S, Wolf YI, Yin JJ, Natale DA: The COG database: an updated version includes eukaryotes. BMC Bioinformatics 2003, 4: 41. 10.1186/1471-2105-4-41
Article
PubMed
PubMed Central
Google Scholar
Charlebois RL, Clarke GD, Beiko RG, St Jean A: Characterization of species-specific genes using a flexible, web-based querying system. FEMS Microbiol Lett 2003,225(2):213-220. 10.1016/S0378-1097(03)00512-3
Article
PubMed
CAS
Google Scholar
Cao TB, Saier MH Jr.: The general protein secretory pathway: phylogenetic analyses leading to evolutionary conclusions. Biochim Biophys Acta 2003,1609(1):115-125. 10.1016/S0005-2736(02)00662-4
Article
PubMed
CAS
Google Scholar
Van den Berg B, Clemons WM Jr., Collinson I, Modis Y, Hartmann E, Harrison SC, Rapoport TA: X-ray structure of a protein-conducting channel. Nature 2004,427(6969):36-44. 10.1038/nature02218
Article
PubMed
CAS
Google Scholar
Bardy SL, Eichler J, Jarrell KF: Archaeal signal peptides--a comparative survey at the genome level. Protein Sci 2003,12(9):1833-1843. 10.1110/ps.03148703
Article
PubMed
CAS
PubMed Central
Google Scholar
Paetzel M, Karla A, Strynadka NC, Dalbey RE: Signal peptidases. Chem Rev 2002,102(12):4549-4580. 10.1021/cr010166y
Article
PubMed
CAS
Google Scholar
Eichler J: Archaeal signal peptidases from the genus Thermoplasma: structural and mechanistic hybrids of the bacterial and eukaryal enzymes. J Mol Evol 2002,54(3):411-415.
Article
PubMed
CAS
Google Scholar
Deckers-Hebestreit G, Altendorf K: The F0F1-type ATP synthases of bacteria: structure and function of the F0 complex. Annu Rev Microbiol 1996, 50: 791-824. 10.1146/annurev.micro.50.1.791
Article
PubMed
CAS
Google Scholar
Brundage L, Hendrick JP, Schiebel E, Driessen AJ, Wickner W: The purified E. coli integral membrane protein SecY/E is sufficient for reconstitution of SecA-dependent precursor protein translocation. Cell 1990,62(4):649-657. 10.1016/0092-8674(90)90111-Q
Article
PubMed
CAS
Google Scholar
Ouzounis CA, Kunin V, Darzentas N, Goldovsky L: A minimal estimate for the gene content of the last universal common ancestor--exobiology from a terrestrial perspective. Res Microbiol 2006,157(1):57-68. 10.1016/j.resmic.2005.06.015
Article
PubMed
CAS
Google Scholar
The ConSurf Server [http://consurf.tau.ac.il/].
Glaser F, Pupko T, Paz I, Bell RE, Bechor-Shental D, Martz E, Ben-Tal N: ConSurf: identification of functional regions in proteins by surface-mapping of phylogenetic information. Bioinformatics 2003,19(1):163-164. 10.1093/bioinformatics/19.1.163
Article
PubMed
CAS
Google Scholar
Pupko T, Bell RE, Mayrose I, Glaser F, Ben-Tal N: Rate4Site: an algorithmic tool for the identification of functional regions in proteins by surface mapping of evolutionary determinants within their homologues. Bioinformatics 2002, 18 Suppl 1: S71-7.
Article
PubMed
Google Scholar
Pymol [http://pymol.sourceforge.net/].
Pymol script depository [http://adelie.biochem.queensu.ca/~rlc/work/pymol/].
Tusnady GE, Dosztanyi Z, Simon I: Transmembrane proteins in the Protein Data Bank: identification and classification. Bioinformatics 2004,20(17):2964-2972. 10.1093/bioinformatics/bth340
Article
PubMed
CAS
Google Scholar