Evolution, interactions, and biological networks

PLoS Biology

Volumn 5, Issue 1, 2007, Pages 0010-0012

  Weitz, Joshua S ^a,b   Benfey, Philip N ^c   Wingreen, Ned S ^a  

^a PRINCETON UNIVERSITY   (United States)

^b GEORGIA INSTITUTE OF TECHNOLOGY   (United States)

^c DUKE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CELL FUNCTION; ECOSYSTEM; EVOLUTIONARY ADAPTATION; FEEDBACK SYSTEM; GENOTYPE ENVIRONMENT INTERACTION; MOLECULAR INTERACTION; NERVE CELL NETWORK; SHORT SURVEY; ARTICLE; BACTERIOPHAGE; ECOLOGY; GENE REGULATORY NETWORK; GENETIC VARIABILITY; HOST PARASITE INTERACTION; MOLECULAR EVOLUTION; STANDARD;

BACTERIOPHAGES; ECOLOGY; EVOLUTION, MOLECULAR; GENE REGULATORY NETWORKS; HOST-PARASITE RELATIONS; VARIATION (GENETICS);

EID: 33846400426     PISSN: 15449173     EISSN: 15457885     Source Type: Journal    
DOI: 10.1371/journal.pbio.0050011     Document Type: Short Survey

References (28)

1. Albert R, Barabasi AL (2002) Statistical mechanics of complex networks. Rev Mod Phys 74: 47-97.
2. Newman MEJ (2003) The structure and function of complex networks. SIAM Review 45: 167-256.
3. Strogatz SH (2001) Exploring complex networks. Nature 410: 268-276.
4. Newman MEJ, Barabasi AL, Watts DJ, editors (2006) The structure and dynamics of networks. Princeton (New Jersey): Princeton University Press. 624 p.
5. Barabasi AL (2002) Linked: The new science of networks. Cambridge (Massachusetts): Perseus Publishing. 256 p.
6. Watts DJ, Strogatz SH (1998) Collective dynamics of 'small-world' networks. Nature 393: 440-442.
7. Barabasi AL, Albert R (1999) Emergence of scaling in random networks. Science 286: 509-512.
8. Hartwell LH, Hopfield JJ, Leibler S, Murray AW (1999) From molecular to modular cell biology. Nature 402: C47-C52.
9. Milo R, Shen-Orr S, Itzkovitz S, Kashtan N, Chklovskii D, et al. (2002) Network motifs: Simple building blocks of complex networks. Science 298: 824-827.
10. Barabasi AL, Oltvai ZN (2004) Network biology: Understanding the cell's functional organization. Nat Rev Gen 5: 101-113.
11. Keller EF (2005) Revisiting "scale-free" networks. Bioessays 27: 1060-1068.
12. Dobzhansky T (1973) Nothing in biology makes sense except in light of evolution. Am Biol Teacher 35: 125-129.
13. Dorogovtsev SN, Mendes JFF (2002) Evolution of networks. Advances Phys 51: 1079-1187.
14. Pfeiffer T, Soyer OS, Bonhoeffer S (2005) The evolution of connectivity in metabolic networks. PLoS Biol 3(7): e228. doi:10.1371/journal.pbio.0030228.
15. Alon U (2003) Biological networks: The tinkerer as an engineer. Science 301: 1866-1867.
16. Harbison CT, Gordon DB, Lee TI, Rinaldi NJ, Macisaac KD, et al. (2004) Transcriptional regulatory code of a eukaryotic genome. Nature 431: 99-104.
17. Hofbauer J, Sigmund K (1998) Evolutionary games and population dynamics. Cambridge (United Kingdom): Cambridge University Press. 351 p.
18. Nowak MA, Sigmund K (2004) Evolutionary dynamics of biological games. Science 303: 793-799.
19. Geritz SAH, Metz JAJ, Kisdi E, Meszéna G (1997) The dynamics of adaptation and evolutionary branching. Phys Rev Lett 78: 2024-2027.
20. Pascual M, Dunne JA, editors (2006) Ecological networks: From structure to dynamics in food webs. Oxford (United Kingdom): Oxford University Press. 386 p.
21. Ptashne M (2004) Genetic switch: Phage lambda revisited. Woodbury (New York): Cold Spring Harbor Laboratory Press, 3rd edition. 168 p.
22. McAdams HH, Arkin A (1997) Stochastic mechanisms in gene expression. Proc Natl Acad Sci U S A 94: 814-819.
23. Bull JJ, Millstein J, Orcutt J, Wichman HA (2006) Evolutionary feedback mediated through population density, illustrated with viruses in chemostats. Am Nat 167: E39-E51.
24. Tyson JJ, Chen KC, Novak B (2003) Sniffers, buzzers, toggles and blinkers: Dynamics of regulatory and signaling pathways in the cell. Curr Opin Cell Biol 15: 221-231.
25. Tyree MT, Zimmerman MH (2002) Xylem structure and the ascent of sap. Berlin: Springer, 2nd edition. 283 p.
26. Davidson EH, Erwin DH (2006) Gene regulatory networks and the evolution of animal body plans. Science 311: 796-800.
27. Wagner A (2005) Energy constraints on the evolution of gene expression. Mol Biol Evol 22: 1365-1374.
28. Enquist B, Niklas K (2002) Global allocation rules for patterns of biomass partitioning in seed plants. Science 295: 1517-1520.