SIMULATION OF PROKARYOTIC GENETIC CIRCUITS

Annual Reviews - Tập 27 Số 1 - Trang 199-224 - 1998
Harley H. McAdams1, Adam P. Arkin2
1Department of Developmental Biology, Beckman Center, Stanford University School of Medicine, California 94305, USA.
2Department of Developmental Biology, Beckman Center, Stanford University School of Medicine, Stanford, California 94305

Tóm tắt

▪ Abstract  Biochemical and genetic approaches have identified the molecular mechanisms of many genetic reactions, particularly in bacteria. Now a comparably detailed understanding is needed of how groupings of genes and related protein reactions interact to orchestrate cellular functions over the cell cycle, to implement preprogrammed cellular development, or to dynamically change a cell's processes and structures in response to environmental signals. Simulations using realistic, molecular-level models of genetic mechanisms and of signal transduction networks are needed to analyze dynamic behavior of multigene systems, to predict behavior of mutant circuits, and to identify the design principles applicable to design of genetic regulatory circuits. When the underlying design rules for regulatory circuits are understood, it will be far easier to recognize common circuit motifs, to identify functions of individual proteins in regulation, and to redesign circuits for altered functions.

Từ khóa


Tài liệu tham khảo

10.1016/0010-4809(71)90047-4

Achs MJ, 1977, Am. J. Physiol., 232, R164

10.1016/S0006-3495(94)80516-8

10.1038/43199

10.1038/376307a0

10.1091/mbc.4.5.469

10.1146/annurev.bi.63.070194.002223

10.1111/j.1365-2958.1995.mmi_18020201.x

10.1016/0009-2509(95)00306-1

Collado-Vides J, 1991, Microb. Rev., 55, 371, 10.1128/mr.55.3.371-394.1991

10.1016/S0959-437X(96)80081-5

10.1016/S0092-8674(00)80502-4

10.1146/annurev.mi.47.100193.001215

10.1099/13500872-141-6-1271

10.1126/science.2943018

Echols H, Guarneros G. 1983. Control of integration and excision. InLambda II, ed. R Hendrix, JW Roberts, FW Stahl, RA Weisberg, pp. 75–92. Cold Spring Harbor, NY: Cold Spring Harbor Lab. Press

10.1046/j.1365-2443.1997.d01-311.x

Ehlde M, 1995, Comp. Applic. Biosci., 11, 201

10.1002/(SICI)1097-0290(19970720)55:2<375::AID-BIT15>3.0.CO;2-G

Errington J, 1993, Microbiol. Rev., 57, 1, 10.1128/mr.57.1.1-33.1993

10.1126/science.276.5313.718

Finlay BB, 1997, Microbiol. Mol. Biol. Rev., 61, 136

10.1111/j.1365-2958.1992.tb01432.x

10.1016/S0959-437X(05)80133-9

10.1146/annurev.cellbio.12.1.221

10.1021/j100540a008

10.1016/0378-4371(92)90283-V

Gober JW, 1995, Microb. Rev., 59, 31, 10.1128/mr.59.1.31-47.1995

10.1073/pnas.88.20.9107

10.1017/CBO9780511608193

10.1111/j.1365-2958.1995.tb02386.x

10.1146/annurev.ge.18.120184.002215

10.1016/S0966-842X(97)01002-0

10.1111/j.1574-6968.1993.tb05873.x

10.1146/annurev.ge.29.120195.002401

10.1002/bies.950171112

10.1038/43072

10.1126/science.2683079

10.1016/S0006-3495(95)80232-8

10.1016/0079-6107(78)90017-2

10.1146/annurev.ge.14.120180.002151

10.1111/j.1365-2958.1996.tb02501.x

10.1016/0092-8674(92)90468-R

10.1016/0303-2647(90)90001-H

Jacob F, Monod J. 1962. Elements of regulatory circuits in bacteria. Presented at Symp. Biol. Organiz. Cell. Supercell Lev., Varenna, Italy, pp. 1–24. New York: Academic

Jacob F, Monod J. 1962. Genetic repression, allosteric inhibition, and cellular differentiation. Presented at Symp. Cytodifferent. Macromol. Synth., Asilomar, California, pp. 30–64. New York: Academic

Jacob F, Monod J. 1962. On the regulation of gene activity. Symp. Cell. Regul. Mech. pp. 193–209. Cold Spring Harbor, NY: Cold Spring Harbor Lab. Press

Kacser H, Burns JA. 1973. The control of flux. Presented at Symp. Soc. Exper. Biol. Rate Control Biol. Proc. pp. 65–104. Cambridge: Cambridge Univ. Press

10.1096/fasebj.10.2.8641557

10.1146/annurev.mi.46.100192.001001

10.1046/j.1365-2958.1997.4251782.x

Koster JG, 1990, Biomed. Biochim. Acta, 49, 855

10.1073/pnas.94.17.9153

10.1016/0092-8674(94)90289-5

10.1016/0169-2607(92)90102-D

10.1073/pnas.93.13.6382

10.1016/S0006-3495(92)81824-6

10.1016/0092-8674(93)90271-Q

10.1016/0022-2836(80)90302-2

10.1073/pnas.94.3.814

10.1126/science.7624793

10.1126/science.1962208

10.1063/1.1724926

Mendes P, 1993, Comp. Applic. Biosci., 9, 563

10.1016/0022-2836(80)90303-4

10.1016/0022-2836(80)90304-6

10.1093/dnares/4.2.161

Monod J, 1962, General conclusions: teleonomic mechanisms in cellular metabolism, growth, and differentiation.

Neidhardt FC, Savageau MA. 1996. Regulation beyond the operon. InEscherichia coli and Salmonella typhimurium: Cellular and molecular biology, pp. 1310–24. Washington, DC: Am. Soc. Microbiol.

10.1126/science.1825521

Novak B, 1993, J. Cell Sci., 106, 1153, 10.1242/jcs.106.4.1153

Obeyesekere MN, 1995, Oncogene, 11, 1199

10.1016/0006-291X(92)90658-8

10.1016/S0022-5193(05)80145-6

Ptashne M, 1992, A Genetic Switch: Phage λ and Higher Organisms.

10.1016/S0092-8674(00)80995-2

10.1016/S0022-5193(05)80111-0

10.1016/S0070-2153(08)60712-7

10.1016/S0074-7696(08)60269-7

Sauro HM, 1993, Comp. Applic. Biosci., 9, 441

10.1016/S0022-5193(05)80367-4

10.1126/science.276.5313.712

10.1016/0022-2836(85)90086-5

10.1002/cplx.6130010612

10.1016/0025-5564(89)90064-3

10.1016/0025-5564(89)90065-5

10.1073/pnas.94.14.7263

10.1126/science.1904627

10.1126/science.276.5313.707

10.1073/pnas.94.4.1194

10.1016/S0022-5193(05)80144-4

10.1016/0092-8240(94)00037-D

10.1016/0022-5193(73)90247-6

10.1016/S0022-5193(05)80350-9

10.1111/j.1432-1033.1976.tb11108.x

10.1016/0092-8240(94)00036-C

10.1073/pnas.88.16.7328

10.1016/0968-0004(96)10011-6

Van Kampen NG. 1992. Stochastic Processes in Physics and Chemistry, p. 460. Amsterdam: North-Holland

10.1016/0962-8924(96)10018-0

10.1016/S0167-7799(00)88955-6

Westerhoff HV, 1990, Biomed. Biochim. Acta, 49, 839

Wuensche A, Lesser MJ. 1992. The global dynamics of cellular automata. InSFI Studies in the Sciences of Complexity. Reading, MA: Addison-Wesley

10.1016/S0968-0004(97)01036-0

10.1046/j.1365-2443.1996.28028.x

Thông tin
Thông tin xuất bản

Annual Reviews

Tập 27 Số 1

199-224

Thông tin tác giả