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N Use By Plants
Nitrate Assimilation
Ammonia Assimilation
Glu, Gln, Asn, Gly, Ser
Aminotransferases
Asp, Ala, GABA
Val, Leu, Ileu, Thr, Lys
Pro, Arg, Orn
Polyamines
Non-protein AAs
Alkaloids
Sulfate Assimilation
Cys, Met, AdoMet, ACC
His, Phe, Tyr, Tryp
Secondary Products
Onium Compounds
Enzymes
Methods
Simulation
References
HORT640 - Metabolic Plant Physiology

References, model and yeast

Aach J, Rindone W, Church GM. Systematic management and analysis of yeast gene expression data. Genome Res. 10: 431-445 (2000).

Abdel-Ghany SE, Burkhead JL, Gogolin KA, Andres-Colas N, Bodecker JR, Puig S, Penarrubia L, Pilon M. AtCCS is a functional homolog of the yeast copper chaperone Ccs1/Lys7. FEBS Lett. 579: 2307-2312 (2005).

Alvarez-Vasquez F, Sims KJ, Cowart LA, Okamoto Y, Voit EO, Hannun YA. Simulation and validation of modelled sphingolipid metabolism in Saccharomyces cerevisiae. Nature 433: 425-430 (2005).

Aoki K, Ogata Y, Shibata D. Approaches for extracting practical information from gene co-expression networks in plant biology. Plant Cell Physiol. 48: 381-390 (2007).

Aranda-Barradas JS, Delia ML, Riba JP. Kinetic study and modelling of the xylitol production using Candida parapsilosis in oxygen-limited culture conditions. Bioprocess Engineering 22: 219-225 (2000).

Archacki R, Sarnowski TJ, Halibart-Puzio J, Brzeska K, Buszewicz D, Prymakowska-Bosak M, Koncz C, Jerzmanowski A. Genetic analysis of functional redundancy of BRM ATPase and ATSWI3C subunits of Arabidopsis SWI/SNF chromatin remodelling complexes. Planta 229: 1281-1292 (2009).

Arga KY, Onsan ZI, Kirdar B, Ulgen KO, Nielsen J. Understanding signaling in yeast: Insights from network analysis. Biotechnol. Bioeng. 97: 1246-1258 (2007).

Baena-Gonzalez E, Rolland F, Thevelein JM, Sheen J. A central integrator of transcription networks in plant stress and energy signalling. Nature 448: 938-942 (2007).

Barlowe CK, Appling DR. Isolation and characterization of a novel eukaryotic monofunctional NAD(+)-dependent 5,10-methylenetetrahydrofolate dehydrogenase. Biochemistry 29: 7089-7094 (1990).

Barlowe CK, Williams ME, Rabinowitz JC, Appling DR. Site-directed mutagenesis of yeast C1-tetrahydrofolate synthase: analysis of an overlapping active site in a multifunctional enzyme. Biochemistry 28: 2099-2106 (1989).

Baxter J, Moeder W, Urquhart W, Shahinas D, Chin K, Christendat D, Kang HG, Angelova M, Kato N, Yoshioka K. Identification of a functionally essential amino acid for Arabidopsis cyclic nucleotide gated ion channels using the chimeric AtCNGC11/12 gene. Plant J. 56: 457-469 (2008).

Bazan JF, Fletterick RJ, Pilkis SJ. Evolution of a bifunctional enzyme: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase. Proc. Natl. Acad. Sci. U.S.A. 86: 9642-9646 (1989).

Bechtold U, Karpinski S, Mullineaux PM. The influence of the light environment and photosynthesis on oxidative signalling responses in plant-biotrophic pathogen interactions. Plant Cell Environ. 28: 1046-1055 (2005).

Beyer A, Workman C, Hollunder J, Radke D, Moller U, Wilhelm T, Ideker T. Integrated assessment and prediction of transcription factor binding. PLoS Comput. Biol. 2: e70 (2006).

Bhat RA, Riehl M, Santandrea G, Velasco R, Slocombe S, Donn G, Steinbiss HH, Thompson RD, Becker HA. Alteration of GCN5 levels in maize reveals dynamic responses to manipulating histone acetylation. Plant J. 33: 455-469 (2003).

Bilu Y, Shlomi T, Barkai N, Ruppin E. Conservation of expression and sequence of metabolic genes is reflected by activity across metabolic states. PLoS Comput. Biol. 2: e106 (2006).

Blank LM, Kuepfer L, Sauer U. Large-scale 13C-flux analysis reveals mechanistic principles of metabolic network robustness to null mutations in yeast. Genome Biol. 6: R49 (2005).

Blanvillain R, Kim JH, Wu S, Lima A, Ow DW. OXIDATIVE STRESS 3 is a chromatin-associated factor involved in tolerance to heavy metals and oxidative stress. Plant J. 57: 654-665 (2009).

Blomberg A. Metabolic surprises in Saccharomyces cerevisiae during adaptation to saline conditions: questions, some answers and a model. FEMS Microbiol. Lett. 182: 1-8 (2000).

Bohme CC, Arscott LD, Becker K, Schirmer RH, Williams CH Jr. Kinetic characterization of glutathione reductase from the malarial parasite Plasmodium falciparum. Comparison with the human enzyme. J. Biol. Chem. 275: 37317-37323 (2000).

Bohme K, Li Y, Charlot F, Grierson C, Marrocco K, Okada K, Laloue M, Nogue F. The Arabidopsis COW1 gene encodes a phosphatidylinositol transfer protein essential for root hair tip growth. Plant J. 40: 686-698 (2004).

Bolduc N, Ouellet M, Pitre F, Brisson LF. Molecular characterization of two plant BI-1 homologues which suppress Bax-induced apoptosis in human 293 cells. Planta 216: 377-386 (2003).

Braus GH. Aromatic amino acid biosynthesis in the yeast Saccharomyces cerevisiae: a model system for the regulation of a eukaryotic biosynthetic pathway. Microbiol. Rev. 55: 349-370 (1991).

Brautigam CA, Chuang JL, Tomchick DR, Machius M, Chuang DT. Crystal structure of human dihydrolipoamide dehydrogenase: NAD+/NADH binding and the structural basis of disease-causing mutations. J. Mol. Biol. 350: 543-552 (2005).

Brouwer C, Bruce W, Maddock S, Avramova Z, Bowen B. Suppression of transgene silencing by matrix attachment regions in maize: a dual role for the maize 5' ADH1 matrix attachment region. Plant Cell 14: 2251-2264 (2002).

Burleigh SH, Kristensen BK, Bechmann IE. A plasma membrane zinc transporter from Medicago truncatula is up-regulated in roots by Zn fertilization, yet down-regulated by arbuscular mycorrhizal colonization. Plant Mol. Biol. 52: 1077-1088 (2003).

Calderon-Villalobos LI, Kuhnle C, Dohmann EM, Li H, Bevan M, Schwechheimer C. The evolutionarily conserved TOUGH protein is required for proper development of Arabidopsis thaliana. Plant Cell 17: 2473-2485 (2005).

Canam T, Unda F, Mansfield SD. Heterologous expression and functional characterization of two hybrid poplar cell-wall invertases. Planta 228: 1011-1019 (2008).

Carrau FM, Medina K, Farina L, Boido E, Henschke PA, Dellacassa E. Production of fermentation aroma compounds by Saccharomyces cerevisiae wine yeasts: effects of yeast assimilable nitrogen on two model strains. FEMS Yeast Res. 8: 1196-1207 (2008).

Cazzador L. Characterization of cell population growth by cell cycle parameters. J. Biotechnol. 71: 245-249 (1999).

Chang HC, Bush DR. Topology of NAT2, a prototypical example of a new family of amino acid transporters. J. Biol. Chem. 272: 30552-30557 28 (1997).

Charpentier M, Bredemeier R, Wanner G, Takeda N, Schleiff E, Parniske M. Lotus japonicus CASTOR and POLLUX are ion channels essential for perinuclear calcium spiking in legume root endosymbiosis. Plant Cell 20: 3467-3479 (2008).

Chaudhuri BN, Lange SC, Myers RS, Chittur SV, Davisson VJ, Smith JL. Crystal structure of imidazole glycerol phosphate synthase: A tunnel through a (beta/alpha)(8) barrel joins two active sites. Structure 9: 987-997 (2001).

Chien P, Weissman JS, DePace AH. Emerging principles of conformation-based prion inheritance. Annu. Rev. Biochem. 73: 617-656 (2004).

Chipman D, Barak Z, Schloss JV. Biosynthesis of 2-aceto-2-hydroxy acids: acetolactate synthases and acetohydroxyacid synthases. Biochim. Biophys. Acta 1385: 401-419 (1998).

Chirife J, Favetto G, Ferro Fontan C. Microbial growth at reduced water activities: some physicochemical properties of compatible solutes. J. Appl. Bacteriol. 56: 259-268 (1984).

Choi K, Kim S, Kim SY, Kim M, Hyun Y, Lee H, Choe S, Kim SG, Michaels S, Lee I. SUPPRESSOR OF FRIGIDA3 encodes a ACTIN-RELATED PROTEIN6 required for floral repression in Arabidopsis. Plant Cell 17: 2647-2660 (2005).

Church GM. From systems biology to synthetic biology. Mol. Syst. Biol. 1: 2005.0032 (2005).

Ciannamea S, Kaufmann K, Frau M, Tonaco IA, Petersen K, Nielsen KK, Angenent GC, Immink RG. Protein interactions of MADS box transcription factors involved in flowering in Lolium perenne. J. Exp. Bot. 57: 3419-3431 (2006).

Cohen S, Houben A, Segal D. Extrachromosomal circular DNA derived from tandemly repeated genomic sequences in plants. Plant J. 53: 1027-1034 (2008).

Colby T, Matthai A, Boeckelmann A, Stuible HP. SUMO-conjugating and SUMO-deconjugating enzymes from Arabidopsis. Plant Physiol. 142: 318-332 (2006).

Corellou F, Camasses A, Ligat L, Peaucellier G, Bouget FY. Atypical regulation of a green lineage-specific B-type cyclin-dependent kinase. Plant Physiol. 138: 1627-1636 (2005).

Cornish-Bowden A, Hofmeyr JHS, Cardenas ML. Strategies for manipulating metabolic fluxes in biotechnology. Bioorg. Chem. 23: 439-449 (1995).

Curaba J, Herzog M, Vachon G. GeBP, the first member of a new gene family in Arabidopsis, encodes a nuclear protein with DNA-binding activity and is regulated by KNAT1. Plant J. 33: 305-317 (2003).

D'haeseleer P. Closing the circle of osmoregulation. Nature Biotechnol. 23: 941-942 (2005).

Dahl M, Meskiene I, Bogre L, Ha DT, Swoboda I, Hubmann R, Hirt H, Heberle-Bors E. The D-type alfalfa cyclin gene cycMs4 complements G1 cyclin-deficient yeast and is induced in the G1 phase of the cell cycle. Plant Cell 7: 1847-1857 (1995).

Dano S, Madsen MF, Schmidt H, Cedersund G. Reduction of a biochemical model with preservation of its basic dynamic properties. FEBS J. 273: 4862-4877 (2006).

de Atauri P, Orrell D, Ramsey S, Bolouri H. Evolution of ‘design’ principles in biochemical networks. Syst. Biol. 1: 28-40 (2004).

de Folter S, Immink RG, Kieffer M, Parenicova L, Henz SR, Weigel D, Busscher M, Kooiker M, Colombo L, Kater MM, Davies B, Angenent GC. Comprehensive interaction map of the Arabidopsis MADS box transcription factors. Plant Cell 17: 1424-1433 (2005).

De Mey M, Lequeux G, Maertens J, De Maeseneire S, Soetaert W, Vandamme E. Comparison of DNA and RNA quantification methods suitable for parameter estimation in metabolic modeling of microorganisms. Anal. Biochem. 353: 198-203 (2006).

Deal RB, Kandasamy MK, McKinney EC, Meagher RB. The nuclear actin-related protein ARP6 is a pleiotropic developmental regulator required for the maintenance of FLOWERING LOCUS C expression and repression of flowering in Arabidopsis. Plant Cell 17: 2633-2646 (2005).

Denu JM. Linking chromatin function with metabolic networks: Sir2 family of NAD(+)-dependent deacetylases. Trends Biochem. Sci. 28: 41-48 (2003).

Deutscher D, Meilijson I, Kupiec M, Ruppin E. Multiple knockout analysis of genetic robustness in the yeast metabolic network. Nat. Genet. 38: 993-998 (2006).

Dewey TG, Galas DJ. Dynamic models of gene expression and classification. Funct. Integr. Genomics 1: 269-278 (2001).

Diepold A, Li G, Lennarz WJ, Nurnberger T, Brunner F. The Arabidopsis AtPNG1 gene encodes a peptide: N-glycanase. Plant J. 52: 94-104 (2007).

Dieterle M, Thomann A, Renou JP, Parmentier Y, Cognat V, Lemonnier G, Muller R, Shen WH, Kretsch T, Genschik P. Molecular and functional characterization of Arabidopsis Cullin 3A. Plant J. 41: 386-399 (2005).

Dill A, Thomas SG, Hu J, Steber CM, Sun TP. The Arabidopsis F-box protein SLEEPY1 targets gibberellin signaling repressors for gibberellin-induced degradation. Plant Cell 16: 1392-1405 (2004).

Ditzer A, Bartels D. Identification of a dehydration and ABA-responsive promoter regulon and isolation of corresponding DNA binding proteins for the group 4 LEA gene CpC2 from C. plantagineum. Plant Mol. Biol. 61: 643-663 (2006).

Domach MM. Summary of recent developments in analytical methods. J. Biotechnol. 71: 229-232 (1999).

Dong A, Liu Z, Zhu Y, Yu F, Li Z, Cao K, Shen WH. Interacting proteins and differences in nuclear transport reveal specific functions for the NAP1 family proteins in plants. Plant Physiol. 138: 1446-1456 (2005).

Dragan CA, Blank LM, Bureik M. Increased TCA cycle activity and reduced oxygen consumption during cytochrome P450-dependent biotransformation in fission yeast. Yeast 23: 779-794 (2006).

Dujon B. European Functional Analysis Network (EUROFAN) and the functional analysis of the Saccharomyces cerevisiae genome. Electrophoresis 19: 617-624 (1998).

Dunn TM, Lynch DV, Michaelson LV, Napier JA. A post-genomic approach to understanding sphingolipid metabolism in Arabidopsis thaliana. Ann. Bot. (Lond.) 93: 483-497 (2004).

Dutkowski J, Tiuryn J. Identification of functional modules from conserved ancestral protein-protein interactions. Bioinformatics 23: i149-i158 (2007).

Eckardt NA. Peroxisomal citrate synthase provides exit route from fatty acid metabolism in oilseeds. Plant Cell 17: 1863-1865 (2005).

Eckhardt U, Mas Marques A, Buckhout TJ. Two iron-regulated cation transporters from tomato complement metal uptake-deficient yeast mutants. Plant Mol. Biol. 45: 437-448 (2001).

Escher CL, Widmer F. Lipid mobilization and gluconeogenesis in plants: do glyoxylate cycle enzyme activities constitute a real cycle? A hypothesis. Biol. Chem. 378: 803-813 (1997).

Fabrizio P, Li L, Longo VD. Analysis of gene expression profile in yeast aging chronologically. Mech. Ageing Dev. 126: 11-16 (2005).

Fani R, Tamburini E, Mori E, Lazcano A, Lio P, Barberio C, Casalone E, Cavalieri D, Perito B, Polsinelli M. Paralogous histidine biosynthetic genes: evolutionary analysis of the Saccharomyces cerevisiae HIS6 and HIS7 genes. Gene 197: 9-17 (1997).

Fonseca GG, Heinzle E, Wittmann C, Gombert AK. The yeast Kluyveromyces marxianus and its biotechnological potential. Appl. Microbiol. Biotechnol. 79: 339-354 (2008).

Fransz PF, de Jong JH. Chromatin dynamics in plants. Curr. Opin. Plant Biol. 5: 560-567 (2002).

Franzen CJ. Metabolic flux analysis of RQ-controlled microaerobic ethanol production by Saccharomyces cerevisiae. Yeast 20: 117-132 (2003).

Fujiwara S, Oda A, Yoshida R, Niinuma K, Miyata K, Tomozoe Y, Tajima T, Nakagawa M, Hayashi K, Coupland G, Mizoguchi T. Circadian clock proteins LHY and CCA1 regulate SVP protein accumulation to control flowering in Arabidopsis. Plant Cell 20: 2960-2971 (2008).

Fujs S, Gazdag Z, Poljsak B, Stibilj V, Milacic R, Pesti M, Raspor P, Batic M. The oxidative stress response of the yeast Candida intermedia to copper, zinc, and selenium exposure. J. Basic Microbiol. 45: 125-135 (2005).

Gallego ME, Bleuyard JY, Daoudal-Cotterell S, Jallut N, White CI. Ku80 plays a role in non-homologous recombination but is not required for T-DNA integration in Arabidopsis. Plant J. 35: 557-565 (2003).

Garat A, Cauffiez C, Renault N, Lo-Guidice JM, Allorge D, Chevalier D, Houdret N, Chavatte P, Loriot MA, Gala JL, Broly F. Characterisation of novel defective thiopurine S-methyltransferase allelic variants. Biochem. Pharmacol. 76: 404-415 (2008).

Garcia-Ortiz MV, Ariza RR, Roldan-Arjona T. An OGG1 orthologue encoding a functional 8-oxoguanine DNA glycosylase/lyase in Arabidopsis thaliana. Plant Mol. Biol. 47: 795-804 (2001).

Garcia-Rodriguez LJ, Valle R, Duran A, Roncero C. Cell integrity signaling activation in response to hyperosmotic shock in yeast. FEBS Lett. 579: 6186-6190 (2005).

Garciadeblas B, Barrero-Gil J, Benito B, Rodríguez-Navarro A. Potassium transport systems in the moss Physcomitrella patens: pphak1 plants reveal the complexity of potassium uptake. Plant J. 52: 1080-1093 (2007).

Garciadeblas B, Senn ME, Banuelos MA, Rodriguez-Navarro A. Sodium transport and HKT transporters: the rice model. Plant J. 34: 788-801 (2003).

Garrait G, Jarrige JF, Blanquet-Diot S, Alric M. Genetically engineered yeasts as a new delivery vehicle of active compounds to the digestive tract: in vivo validation of the concept in the rat. Metab Eng. 11: 148-154 (2009).

Garrido-Franco M, Ehlert S, Messerschmidt A, Marinkovic S, Huber R, Laber B, Bourenkov GP, Clausen T. Structure and function of threonine synthase from yeast. J. Biol. Chem. 277: 12396-12405 (2002).

Gaspar Y, Johnson KL, McKenna JA, Bacic A, Schultz CJ. The complex structures of arabinogalactan-proteins and the journey towards understanding function. Plant Mol. Biol. 47: 161-176 (2001).

Gassman W, Rubio F, Schroeder JI. Alkali cation selectivity of the wheat root high-affinity potassium transporter HKT1. Plant J. 10: 869-852 (1996).

Gaxiola R, de Larrinoa IF, Villalba JM, Serrano R. A novel and conserved salt-induced protein is an important determinant of salt tolerance in yeast. EMBO J. 11: 3157-3164 (1992).

Gebhardt YH, Witte S, Steuber H, Matern U, Martens S. Evolution of flavone synthase I from parsley flavanone 3beta-hydroxylase by site-directed mutagenesis. Plant Physiol. 144: 1442-1454 (2007).

Geuten K, Becker A, Kaufmann K, Caris P, Janssens S, Viaene T, Theissen G, Smets E. Petaloidy and petal identity MADS-box genes in the balsaminoid genera Impatiens and Marcgravia. Plant J. 47: 501-518 (2006).

Gil-Mascarell R, Lopez-Coronado JM, Belles JM, Serrano R, Rodriguez PL. The Arabidopsis HAL2-like gene family includes a novel sodium-sensitive phosphatase. Plant J. 17: 373-383 (1999).

Gomes RA, Miranda HV, Silva MS, Graca G, Coelho AV, Ferreira AE, Cordeiro C, Freire AP. Yeast protein glycation in vivo by methylglyoxal. FEBS J. 273: 5273-5287 (2006).

Graf A, Dragosits M, Gasser B, Mattanovich D. Yeast systems biotechnology for the production of heterologous proteins. FEMS Yeast Res. 9: 335-348 (2009).

Grof CPL, Campbell JA. Sugarcane sucrose metabolism: scope for molecular manipulation. Aust. J. Plant Physiol. 28: 1-12 (2001).

Gu X, Jiang D, Wang Y, Bachmair A, He Y. Repression of the floral transition via histone H2B monoubiquitination. Plant J. 57: 522-533 (2009).

Gu YQ, Yang C, Thara VK, Zhou J, Martin GB. Pti4 is induced by ethylene and salicylic acid, and its product is phosphorylated by the Pto kinase. Plant Cell 12: 771-786 (2000).

Gutman BL, Niyogi KK. Chlamydomonas and Arabidopsis. A dynamic duo. Plant Physiol. 135: 607-610 (2004).

Han JD, Bertin N, Hao T, Goldberg DS, Berriz GF, Zhang LV, Dupuy D, Walhout AJ, Cusick ME, Roth FP, Vidal M. Evidence for dynamically organized modularity in the yeast protein-protein interaction network. Nature 430: 88-93 (2004).

Hannaert V, Albert MA, Rigden DJ, da Silva Giotto MT, Thiemann O, Garratt RC, Van Roy J, Opperdoes FR, Michels PA. Kinetic characterization, structure modelling studies and crystallization of Trypanosoma brucei enolase. Eur. J. Biochem. 270: 3205-3213 (2003).

Hanton SL, Matheson LA, Chatre L, Brandizzi F. Dynamic organisation of COPII coat proteins at endoplasmic reticulum export sites in plant cells. Plant J. 57: 963-974 (2009).

Harrison MJ, Dewbre GR, Liu J. A phosphate transporter from Medicago truncatula involved in the acquisition of phosphate released by arbuscular mycorrhizal fungi. Plant Cell 14: 2413-2429 (2002).

Harrod AC, Yang X, Junker M, Reitzer L. Evidence for a second interaction between the regulatory amino-terminal and central output domains of the response regulator NtrC (nitrogen regulator I) in Escherichia coli. J. Biol. Chem. 279: 2350-2359 (2004).

Hasegawa PM, Bressan RA, Zhu JK, Bohnert HJ. Plant cellular and molecular responses to high salinity. Annu. Rev. Plant Physiol. Plant Mol. Biol. 51: 463-499 (2000).

Hatzimanikatis V, Emmerling M, Sauer U, Bailey JE. Application of mathematical tools for metabolic design of microbial ethanol production. Biotechnol. Bioeng. 58: 154-161 (1998).

Helmstaedt K, Krappmann S, Braus GH. Allosteric regulation of catalytic activity: Escherichia coli aspartate transcarbamoylase versus yeast chorismate mutase. Microbiol. Mol. Biol. Rev. 65: 404-421 (2001).

Henry SA, Patton-Vogt JL. Genetic regulation of phospholipid metabolism: yeast as a model eukaryote. Prog. Nuc. Acid Res. Mol. Biol. 61: 133-179 (1998).

Herwig C, Von Stockar U. Quantitative comparison of transient growth of Saccharomyces cerevisiae, Saccharomyces kluyveri, and Kluyveromyces lactis. Biotechnol. Bioeng. 81: 837-847 (2003).

Hill CM, Duggleby RG. Mutagenesis of Escherichia coli acetohydroxyacid synthase isoenzyme II and characterization of three herbicide-insensitive forms. Biochem. J. 335: 653-661 (1998).

Hjersted JL, Henson MA, Mahadevan R. Genome-scale analysis of Saccharomyces cerevisiae metabolism and ethanol production in fed-batch culture. Biotechnol. Bioeng. 97: 1190-1204 (2007).

Hohmann S. Osmotic stress signaling and osmoadaptation in yeasts. Microbiol. Mol. Biol. Rev. 66: 300-372 (2002).

Hong Z, Jin H, Tzfira T, Li J. Multiple mechanism-mediated retention of a defective brassinosteroid receptor in the endoplasmic reticulum of Arabidopsis. Plant Cell 20: 3418-3429 (2008).

Horvath IS, Franzen CJ, Taherzadeh MJ, Liden G. Metabolic modeling of furfural conversion in continuous cultivation of Saccharomyces cerevisiae. Yeast 18: S224-S224 (2001).

Hsiao YY, Jeng MF, Tsai WC, Chuang YC, Li CY, Wu TS, Kuoh CS, Chen WH, Chen HH. A novel homodimeric geranyl diphosphate synthase from the orchid Phalaenopsis bellina lacking a DD(X)2-4D motif. Plant J. 55: 719-733 (2008).

Humphreys JM, Hemm MR, Chapple C. New routes for lignin biosynthesis defined by biochemical characterization of recombinant ferulate 5-hydroxylase, a multifunctional cytochrome P450-dependent monooxygenase. Proc. Natl. Acad. Sci. U.S.A. 96: 10045-10050 (1999).

Hutchison CE, Li J, Argueso C, Gonzalez M, Lee E, Lewis MW, Maxwell BB, Perdue TD, Schaller GE, Alonso JM, Ecker JR, Kieber JJ. The Arabidopsis histidine phosphotransfer proteins are redundant positive regulators of cytokinin signaling. Plant Cell 18: 3073-3087 (2006).

Hwang I, Harper JF, Liang F, Sze H. Calmodulin activation of an endoplasmic reticulum-located calcium pump involves an interaction with the N-terminal autoinhibitory domain. Plant Physiol. 122: 157-168 (2000).

Ideker T, Ozier O, Schwikowski B, Siegel AF. Discovering regulatory and signalling circuits in molecular interaction networks. Bioinformatics 18 Suppl. 1: S233-S240 (2002).

Ideker T, Thorsson V, Ranish JA, Christmas R, Buhler J, Eng JK, Bumgarner R, Goodlett DR, Aebersold R, Hood L. Integrated genomic and proteomic analyses of a systematically perturbed metabolic network. Science 292: 929-934 (2001).

Iles RA. Nuclear magnetic resonance spectroscopy and genetic disorders. Curr. Med. Chem. 15: 15-36 (2008).

Ip C, Birringer M, Block E, Kotrebai M, Tyson JF, Uden PC, Lisk DJ. Chemical speciation influences comparative activity of selenium-enriched garlic and yeast in mammary cancer prevention. J. Agric. Food Chem. 48: 2062-2070 (2000).

Iragne F, Nikolski M, Sherman D. Extrapolation of metabolic pathways as an aid to modelling completely sequenced nonSaccharomyces yeasts. FEMS Yeast Res. 8: 132-139 (2008).

Irazusta V, Cabiscol E, Reverter-Branchat G, Ros J, Tamarit J. Manganese is the link between frataxin and iron-sulfur deficiency in the yeast model of Friedreich ataxia. J. Biol. Chem. 281: 12227-12232 (2006).

Ishida C, Aranda C, Valenzuela L, Riego L, Deluna A, Recillas-Targa F, Filetici P, Lopez-Revilla R, Gonzalez A. The UGA3-GLT1 intergenic region constitutes a promoter whose bidirectional nature is determined by chromatin organization in Saccharomyces cerevisiae. Mol. Microbiol. 59: 1790-1806 (2006).

Iwatani S, Van Dien S, Shimbo K, Kubota K, Kageyama N, Iwahata D, Miyano H, Hirayama K, Usuda Y, Shimizu K, Matsui K. Determination of metabolic flux changes during fed-batch cultivation from measurements of intracellular amino acids by LC-MS/MS. J. Biotechnol. 128: 93-111 (2007).

Jacob-Wilk D, Kurek I, Hogan P, Delmer DP. The cotton fiber zinc-binding domain of cellulose synthase A1 from Gossypium hirsutum displays rapid turnover in vitro and in vivo. Proc. Natl. Acad. Sci. U.S.A. 103: 12191-12196 (2006).

Jacobson A, Peltz SW. Interrelationships of the pathways of mRNA decay and translation in eukaryotic cells. Annu. Rev. Biochem. 65: 693-739 (1996).

Jain E, Jain K. Integrated bioinformatics - high-throughput interpretation of pathways and biology Trends Biotechnol. 19: 157-158 (2001).

Jamshidi N, Palsson BO. Top-down analysis of temporal hierarchy in biochemical reaction networks. PLoS Comput. Biol. 4: e1000177 (2008).

Jeffery CJ, Barry T, Doonan S, Petsko GA, Ringe D. Crystal structure of Saccharomyces cerevisiae cytosolic aspartate aminotransferase. Protein Sci. 7: 1380-1387 (1998).

Jeffries TW. Engineering yeasts for xylose metabolism. Curr. Opin. Biotechnol. 17: 320-326 (2006).

Jesch SA, Liu P, Zhao X, Wells MT, Henry SA. Multiple endoplasmic reticulum-to-nucleus signaling pathways coordinate phospholipid metabolism with gene expression by distinct mechanisms. J. Biol. Chem. 281: 24070-24083 (2006).

Jhee KH, McPhie P, Miles EW. Domain architecture of the heme-independent yeast cystathionine beta-synthase provides insights into mechanisms of catalysis and regulation. Biochemistry 39: 10548-10556 (2000).

Ji XL, Li-Ling J, Sun Z. Mining gene expression data using a novel approach based on hidden Markov models. FEBS Lett. 542: 125-131 (2003).

Jimenez C, Berl T, Rivard CJ, Edelstein CL, Capasso JM. Phosphorylation of MAP kinase-like proteins mediate the response of the halotolerant alga Dunaliella viridis to hypertonic shock. Biochim. Biophys. Acta 1644: 61-69 (2004).

Jin Y, Weining S, Nevo E. A MAPK gene from Dead Sea fungus confers stress tolerance to lithium salt and freezing-thawing: prospects for saline agriculture. Proc. Natl. Acad. Sci. U.S.A. 102: 18992-18997 (2005).

Jin YS, Jeffries TW. Stoichiometric network constraints on xylose metabolism by recombinant Saccharomyces cerevisiae. Metab. Eng. 6: 229-238 (2004).

Johnson AA, Hibberd JM, Gay C, Essah PA, Haseloff J, Tester M, Guiderdoni E. Spatial control of transgene expression in rice (Oryza sativa L.) using the GAL4 enhancer trapping system. Plant J. 41: 779-789 (2005).

Jones KD, Kompala DS. Cybernetic model of the growth dynamics of Saccharomyces cerevisiae in batch and continuous cultures. J. Biotechnol. 71: 105-131 (1999).

Kang BC, Yeam I, Frantz JD, Murphy JF, Jahn MM. The pvr1 locus in Capsicum encodes a translation initiation factor eIF4E that interacts with Tobacco etch virus VPg. Plant J. 42: 392-405 (2005).

Kaszycki P, Gabrys H, Appenroth KJ, Jaglarz A, Sedziwy S, Walczak T, Koloczek H. Exogenously applied sulphate as a tool to investigate transport and reduction of chromate in the duckweed Spirodela polyrhiza. Plant Cell Environ. 28: 260-268 (2005).

Kaufmann BB, Yang Q, Mettetal JT, van Oudenaarden A. Heritable stochastic switching revealed by single-cell genealogy. PLoS Biol. 5: e239 (2007).

Kellermayer R, Szigeti R, Kellermayer M, Miseta A. The intracellular dissipation of cytosolic calcium following glucose re-addition to carbohydrate depleted Saccharomyces cerevisiae. FEBS Lett. 571: 55-60 (2004).

Keresztessy Z, Brown K, Dunn MA, Hughes MA. Identification of essential active-site residues in the cyanogenic beta-glucosidase (linamarase) from cassava (Manihot esculenta Crantz) by site-directed mutagenesis. Biochem. J. 353: 199-205 (2001).

Kersten B, Burkle L, Kuhn EJ, Giavalisco P, Konthur Z, Lueking A, Walter G, Eickhoff H, Schneider U. Large-scale plant proteomics. Plant Mol. Biol. 48: 133-141 (2002).

Kierzkowski D, Kmieciak M, Piontek P, Wojtaszek P, Szweykowska-Kulinska Z, Jarmolowski A. The Arabidopsis CBP20 targets the cap-binding complex to the nucleus, and is stabilized by CBP80. Plant J. 59: 814-825 (2009).

Kim JG, Li X, Roden JA, Taylor KW, Aakre CD, Su B, Lalonde S, Kirik A, Chen Y, Baranage G, McLane H, Martin GB, Mudgett MB. Xanthomonas T3S effector XopN suppresses PAMP-triggered immunity and interacts with a tomato atypical receptor-like kinase and TFT1. Plant Cell 21: 1305-1323 (2009).

Kitano H. International alliances for quantitative modeling in systems biology. Mol. Syst. Biol. 1: 2005.0007 (2005).

Klipp E, Heinrich R, Holzhutter HG. Prediction of temporal gene expression. Metabolic opimization by re-distribution of enzyme activities. Eur. J. Biochem. 269: 5406-5413 (2002).

Klipp E, Nordlander B, Kruger R, Gennemark P, Hohmann S. Integrative model of the response of yeast to osmotic shock. Nature Biotechnol. 23: 975-982 (2005).

Knizewski L, Ginalski K, Jerzmanowski A. Snf2 proteins in plants: gene silencing and beyond. Trends Plant Sci. 13: 557-565 (2008).

Kodama Y, Nagaya S, Shinmyo A, Kato K. Mapping and characterization of DNase I hypersensitive sites in Arabidopsis chromatin. Plant Cell Physiol. 48: 459-470 (2007).

Kompala DS. Cybernetic modeling of spontaneous oscillations in continuous cultures of Saccharomyces cerevisiae. J. Biotechnol. 71: 267-274 (1999).

Krusell L, Krause K, Ott T, Desbrosses G, Kramer U, Sato S, Nakamura Y, Tabata S, James EK, Sandal N, Stougaard J, Kawaguchi M, Miyamoto A, Suganuma N, Udvardi MK. The sulfate transporter SST1 is crucial for symbiotic nitrogen fixation in Lotus japonicus root nodules. Plant Cell 17: 1625-1636 (2005).

Kuepfer L, Sauer U, Blank LM. Metabolic functions of duplicate genes in Saccharomyces cerevisiae. Genome Res. 15: 1421-1430 (2005).

Kumimoto RW, Adam L, Hymus GJ, Repetti PP, Reuber TL, Marion CM, Hempel FD, Ratcliffe OJ. The nuclear factor Y subunits NF-YB2 and NF-YB3 play additive roles in the promotion of flowering by inductive long-day photoperiods in Arabidopsis. Planta 228: 709-723 (2008).

Kunji ER. The role and structure of mitochondrial carriers. FEBS Lett. 564: 239-244 (2004).

Lange HC, Heijnen JJ. Statistical reconciliation of the elemental and molecular biomass composition of Saccharomyces cerevisiae. Biotechnol. Bioeng. 75: 334-344 (2001).

Lee KH. Proteomics: a technology-driven and technology-limited discovery science. Trends Biotechnol. 19: 217-222 (2001).

Lee S, Jeon JS, An K, Moon YH, Lee S, Chung YY, An G. Alteration of floral organ identity in rice through ectopic expression of OsMADS16. Planta 217: 904-911 (2003).

Li J, Wang S, VanDusen WJ, Schultz LD, George HA, Herber WK, Chae HJ, Bentley WE, Rao G. Green fluorescent protein in Saccharomyces cerevisiae: real-time studies of the GAL1 promoter. Biotechnol. Bioeng. 70: 187-196 (2000).

Liao JC, Boscolo R, Yang YL, Tran LM, Sabatti C, Roychowdhury VP. Network component analysis: reconstruction of regulatory signals in biological systems. Proc. Natl. Acad. Sci. U.S.A. 100: 15522-15527 (2003).

Liebermeister W. Linear modes of gene expression determined by independent component analysis. Bioinformatics 18: 51-60 (2002).

Lin SJ, Kaeberlein M, Andalis AA, Sturtz LA, Defossez PA, Culotta VC, Fink GR, Guarente L. Calorie restriction extends Saccharomyces cerevisiae lifespan by increasing respiration. Nature 418: 344-348 (2002).

Lin Z, Arciga-Reyes L, Zhong S, Alexander L, Hackett R, Wilson I, Grierson D. SlTPR1, a tomato tetratricopeptide repeat protein, interacts with the ethylene receptors NR and LeETR1, modulating ethylene and auxin responses and development. J. Exp. Bot. 59: 4271-4287 (2008).

Liu LH, Ludewig U, Gassert B, Frommer WB, von Wiren N. Urea transport by nitrogen-regulated tonoplast intrinsic proteins in Arabidopsis. Plant Physiol. 133: 1220-1228 (2003).

Liu Y, Koornneef M, Soppe WJ. The absence of histone H2B monoubiquitination in the Arabidopsis hub1 (rdo4) mutant reveals a role for chromatin remodeling in seed dormancy. Plant Cell 19: 433-444 (2007).

Longo VD, Liou LL, Valentine JS, Gralla EB. Mitochondrial superoxide decreases yeast survival in stationary phase. Arch. Biochem. Biophys. 365: 131-142 (1999).

Lopes-Lutz D, Alviano DS, Alviano CS, Kolodziejczyk PP. Screening of chemical composition, antimicrobial and antioxidant activities of Artemisia essential oils. Phytochemistry 69: 1732-1738 (2008).

Lukashin AV, Lukashev ME, Fuchs R. Topology of gene expression networks as revealed by data mining and modeling. Bioinformatics 19: 1909-1916 (2003).

MacDiarmid CW, Gardner RC. Al toxicity in yeast. A role for Mg? Plant Physiol. 112: 1101-1109 (1996).

Maclean KN, Janosik M, Kraus E, Kozich V, Allen RH, Raab BK, Kraus JP. Cystathionine beta-synthase is coordinately regulated with proliferation through a redox-sensitive mechanism in cultured human cells and Saccharomyces cerevisiae. J. Cell Physiol. 192: 81-92 (2002).

Maczek J, Junne S, Nowak P, Goetz P. Metabolic flux analysis of the sterol pathway in the yeast Saccharomyces cerevisiae. Bioprocess. Biosyst. Eng. 29: 241-252 (2006).

Malanovic N, Streith I, Wolinski H, Rechberger G, Kohlwein SD, Tehlivets O. S-Adenosyl-L-homocysteine hydrolase, key enzyme of methylation metabolism, regulates phosphatidylcholine synthesis and triacylglycerol homeostasis in yeast: implications for homocysteine as a risk factor of atherosclerosis. J. Biol. Chem. 283: 23989-23999 (2008).

March-Diaz R, Garcia-Dominguez M, Lozano-Juste J, Leon J, Florencio FJ, Reyes JC. Histone H2A.Z and homologues of components of the SWR1 complex are required to control immunity in Arabidopsis. Plant J. 53: 475-487 (2008).

Marchant A, Bennett MJ. The Arabidopsis AUX1 gene: a model system to study mRNA processing in plants. Plant Mol. Biol. 36: 463-471 (1998).

Mari S, Gendre D, Pianelli K, Ouerdane L, Lobinski R, Briat JF, Lebrun M, Czernic P. Root-to-shoot long-distance circulation of nicotianamine and nicotianamine-nickel chelates in the metal hyperaccumulator Thlaspi caerulescens. J. Exp. Bot. 57: 4111-4122(2006).

McCourt JA, Pang SS, Guddat LW, Duggleby RG. Elucidating the specificity of binding of sulfonylurea herbicides to acetohydroxyacid synthase. Biochemistry 44: 2330-2338 (2005).

Melo VMM, Vasconcelos IM, Gomes VM, Da Cunha M, Soares AA, Oliveira JTA. A cotyledonary agglutinin from Luetzelburgia auriculata inhibits the fungal growth of Colletotrichum lindemuthianum, Fusarium solani and Aspergillus niger and impairs glucose-stimulated acidification of the incubation medium by Saccharomyces cerevisiae. Plant Sci. 169: 629-639 (2005).

Meyer P. Transcriptional transgene silencing and chromatin components. Plant Mol. Biol. 43: 221-234 (2000).

Misra J, Alevizos I, Hwang D, Stephanopoulos G, Stephanopoulos G. Linking physiology and transcriptional profiles by quantitative predictive models. Biotechnol. Bioeng. 98: 252-260 (2007).

Miura F, Kawaguchi N, Sese J, Toyoda A, Hattori M, Morishita S, Ito T. A large-scale full-length cDNA analysis to explore the budding yeast transcriptome. Proc. Natl. Acad. Sci. U.S.A. 103: 17846-17851 (2006).

Moxley JF, Jewett MC, Antoniewicz MR, Villas-Boas SG, Alper H, Wheeler RT, Tong L, Hinnebusch AG, Ideker T, Nielsen J, Stephanopoulos G. Linking high-resolution metabolic flux phenotypes and transcriptional regulation in yeast modulated by the global regulator Gcn4p. Proc. Natl. Acad. Sci. U.S.A. 106: 6477-6482 (2009).

Mulako I, Farrant JM, Collett H, Illing N. Expression of Xhdsi-1VOC, a novel member of the vicinal oxygen chelate (VOC) metalloenzyme superfamily, is up-regulated in leaves and roots during desiccation in the resurrection plant Xerophyta humilis (Bak) Dur and Schinz. J. Exp. Bot. 59: 3885-3901 (2008).

Navarro-Gochicoa MT, Camut S, Niebel A, Cullimore JV. Expression of the apyrase-like APY1 genes in roots of Medicago truncatula is induced rapidly and transiently by stress and not by Sinorhizobium meliloti or Nod factors. Plant Physiol. 131: 1124-1136 (2003).

Neiman AM. Prospore membrane formation defines a developmentally regulated branch of the secretory pathway in yeast. J. Cell Biol. 140: 29-37 (1998).

Nelissen H, Clarke JH, De Block M, De Block S, Vanderhaeghen R, Zielinski RE, Dyer T, Lust S, Inze D, Van Lijsebettens M. DRL1, a homolog of the yeast TOT4/KTI12 protein, has a function in meristem activity and organ growth in plants. Plant Cell 15: 639-654 (2003).

Noctor G, Queval G, Gakiere B. NAD(P) synthesis and pyridine nucleotide cycling in plants and their potential importance in stress conditions. J. Exp. Bot. 57: 1603-1620 (2006).

Nookaew I, Jewett MC, Meechai A, Thammarongtham C, Laoteng K, Cheevadhanarak S, Nielsen J, Bhumiratana S. The genome-scale metabolic model iIN800 of Saccharomyces cerevisiae and its validation: a scaffold to query lipid metabolism. BMC Syst. Biol. 2: 71 (2008).

Noordewier MO, Warren PV. Gene expression microarrays and the integration of biological knowledge. Trends Biotechnol. 19: 412-415 (2001).

Nordling E, Jornvall H, Persson B. Medium-chain dehydrogenases/reductases (MDR). Family characterizations including genome comparisons and active site modeling. Eur. J. Biochem. 269: 4267-4276 (2002).

O'Flaherty M, O'Carra P, McMahon M, Mulcahy P. A "stripping" ligand tactic for use with the kinetic locking-on strategy: its use in the resolution and bioaffinity chromatographic purification of NAD(+)-dependent dehydrogenases. Protein Expr. Purif. 16: 424-431 (1999).

Okada S, Nagabuchi M, Takamura Y, Nakagawa T, Shinmyozu K, Nakayama J, Tanaka K. Reconstitution of Arabidopsis thaliana SUMO pathways in E. coli: functional evaluation of SUMO machinery proteins and mapping of SUMOylation sites by mass spectrometry. Plant Cell Physiol. 50: 1049-1061 (2009).

Oliver SG. From genomes to systems: the path with yeast. Philos. Trans. R. Soc. Lond. B. Biol. Sci. 361: 477-482 (2006).

Oliver SG. From DNA sequence to biological function. Nature 379: 597-600 (1996).

Olry A, Schneider-Belhaddad F, Heintz D, Werck-Reichhart D. A medium-throughput screening assay to determine catalytic activities of oxygen-consuming enzymes: a new tool for functional characterization of cytochrome P450 and other oxygenases. Plant J. 51: 331-340 (2007).

Oparka KJ. Getting the message across: how do plant cells exchange macromolecular complexes? Trends Plant Sci. 9: 33-41 (2004).

Orchard CB, Siciliano I, Sorrell DA, Marchbank A, Rogers HJ, Francis D, Herbert RJ, Suchomelova P, Lipavska H, Azmi A, Van Onckelen H. Tobacco BY-2 cells expressing fission yeast cdc25 bypass a G2/M block on the cell cycle. Plant J. 44: 290-299 (2005).

Ostergaard S, Olsson L, Nielsen J. Metabolic engineering of Saccharomyces cerevisiae. Microbiol. Mol. Biol. Rev. 64: 34-50 (2000).

Ostergaard S, Olsson L, Nielsen J. In vivo dynamics of galactose metabolism in Saccharomyces cerevisiae: metabolic fluxes and metabolite levels. Biotechnol. Bioeng. 73: 412-425 (2001).

Ouwerkerk PB, de Kam RJ, Hoge JH, Meijer AH. Glucocorticoid-inducible gene expression in rice. Planta 213: 370-378 (2001).

Papoyan A, Kochian LV. Identification of Thlaspi caerulescens genes that may be involved in heavy metal hyperaccumulation and tolerance. Characterization of a novel heavy metal transporting ATPase. Plant Physiol. 136: 3814-3823 (2004).

Papp B, Pal C, Hurst LD. Metabolic network analysis of the causes and evolution of enzyme dispensability in yeast. Nature 429: 661-664 (2004).

Petranovic D, Nielsen J. Can yeast systems biology contribute to the understanding of human disease? Trends Biotechnol. 26: 584-590 (2008).

Petrossian TC, Clarke SG. Multiple motif scanning to identify methyltransferases from the yeast proteome. Mol. Cell. Proteomics 8: 1516-26 (2009).

Pham HT, Larsson G, Enfors SO. Growth and energy metabolism in aerobic fed-batch cultures of Saccharomyces cerevisiae: simulation and model verification. Biotechnol. Bioeng. 60: 474-482 (1998).

Pickering IJ, Prince RC, George GN, Rauser WE, Wickramasinghe WA, Watson AA, Dameron CT, Dance IG, Fairlie DP, Salt DE. X-ray absorption spectroscopy of cadmium phytochelatin and model systems. Biochim. Biophys. Acta 1429: 351-364 (1999).

Pinson B, Kongsrud TL, Ording E, Johansen L, Daignan-Fornier B, Gabrielsen OS. Signaling through regulated transcription factor interaction: mapping of a regulatory interaction domain in the Myb-related Bas1p. Nucleic Acids Res. 28: 4665-4673 (2000).

Piper MD, Hong SP, Ball GE, Dawes IW. Regulation of the balance of one-carbon metabolism in Saccharomyces cerevisiae. J. Biol. Chem. 275: 30987-30995 (2000).

Pirkov I, Norbeck J, Gustafsson L, Albers E. A complete inventory of all enzymes in the eukaryotic methionine salvage pathway. FEBS J. 275: 4111-4120 (2008).

Platara M, Ruiz A, Serrano R, Palomino A, Moreno F, Arino J. The transcriptional response of the yeast Na(+)-ATPase ENA1 gene to alkaline stress involves three main signaling pathways. J. Biol. Chem. 281: 36632-36642 (2006).

Poirier Y, Antonenkov VD, Glumoff T, Hiltunen JK. Peroxisomal beta-oxidation. A metabolic pathway with multiple functions. Biochim. Biophys. Acta 1763: 1413-1426 (2006).

Pritchard L, Kell DB. Schemes of flux control in a model of Saccharomyces cerevisiae glycolysis. Eur. J. Biochem. 269: 3894-3904 (2002).

Puchta H. Gene replacement by homologous recombination in plants. Plant Mol. Biol. 48: 173-182 (2002).

Rahier A, Bergdoll M, Genot G, Bouvier F, Camara B. Homology modeling and site-directed mutagenesis reveal catalytic key amino acids of 3beta-hydroxysteroid-dehydrogenase/C4-decarboxylase from Arabidopsis. Plant Physiol. 149: 1872-1886 (2009).

Ramos A, Raven N, Sharp RJ, Bartolucci S, Rossi M, Cannio R, Lebbink J, Van Der Oost J, De Vos WM, Santos H. Stabilization of enzymes against thermal stress and freeze-drying by mannosylglycerate. Appl. Environ. Microbiol. 63: 4020-4025 (1997).

Ramos J, Naya L, Gay M, Abian J, Becana M. Functional characterization of an unusual phytochelatin synthase, LjPCS3, of Lotus japonicus. Plant Physiol. 148: 536-545 (2008).

Raviol H, Bukau B, Mayer MP. Human and yeast Hsp110 chaperones exhibit functional differences. FEBS Lett. 580: 168-174 (2006).

Regenberg B, Villalba JM, Lanfermeijer FC, Palmgren MG. C-terminal deletion analysis of plant plasma membrane H(+)-ATPase: yeast as a model system for solute transport across the plant plasma membrane. Plant Cell 7: 1655-1666 (1995).

Reijenga KA, Westerhoff HV, Kholodenko BN, Snoep JL. Control analysis for autonomously oscillating biochemical networks. Biophys. J. 82: 99-108 (2002).

Ricci JCD. ADP modulates the dynamic behavior of the glycolytic pathway of Escherichia coli. Biochem. Biophys. Res. Comm. 271: 244-249 (2000).

Richter U, Sonnewald U, Drager B. Calystegines in potatoes with genetically engineered carbohydrate metabolism. J. Exp. Bot. 58: 1603-1615 (2007).

Riego L, Avendano A, DeLuna A, Rodriguez E, Gonzalez A. GDH1 expression is regulated by GLN3, GCN4, and HAP4 under respiratory growth. Biochem. Biophys. Res. Commun. 293: 79-85 (2002).

Rigden DJ. A distant evolutionary relationship between GPI-specific phospholipase D and bacterial phosphatidylcholine-preferring phospholipase C. FEBS Lett. 569: 229-234 (2004).

Rizzi M, Baltes M, Theobald U, Reuss M. In vivo analysis of metabolic dynamics in Saccharomyces cerevisiae. 2. Mathematical model. Biotechnol. Bioeng. 55: 592-608 (1997).

Robertson M. Two transcription factors are negative regulators of gibberellin response in the HvSPY-signaling pathway in barley aleurone. Plant Physiol. 136: 2747-2761 (2004).

Rodrigo G, Carrera J, Prather KJ, Jaramillo A. DESHARKY: automatic design of metabolic pathways for optimal cell growth. Bioinformatics 24: 2554-2556 (2008).

Rodriguez-Pena JM, Perez-Diaz RM, Alvarez S, Bermejo C, Garcia R, Santiago C, Nombela C, Arroyo J. The 'yeast cell wall chip' - a tool to analyse the regulation of cell wall biogenesis in Saccharomyces cerevisiae. Microbiology 151: 2241-2249 (2005).

Rokhlenko O, Shlomi T, Sharan R, Ruppin E, Pinter RY. Constraint-based functional similarity of metabolic genes: going beyond network topology. Bioinformatics 23: 2139-2146 (2007).

Rolland F, Baena-Gonzalez E, Sheen J. Sugar sensing and signaling in plants: conserved and novel mechanisms. Annu. Rev. Plant Biol. 57: 675-709 (2006).

Roosens NH, Bernard C, Leplae R, Verbruggen N. Evidence for copper homeostasis function of metallothionein (MT3) in the hyperaccumulator Thlaspi caerulescens. FEBS Lett. 577: 9-16 (2004).

Roosens NH, Leplae R, Bernard C, Verbruggen N. Variations in plant metallothioneins: the heavy metal hyperaccumulator Thlaspi caerulescens as a study case. Planta 222: 716-729 (2005).

Rose AB. The effect of intron location on intron-mediated enhancement of gene expression in Arabidopsis. Plant J. 40: 744-751 (2004).

Rossell S, van der Weijden CC, Kruckeberg A, Bakker BM, Westerhoff HV. Loss of fermentative capacity in baker's yeast can partly be explained by reduced glucose uptake capacity. Mol. Biol. Rep. 29: 255-257 (2002).

Rual JF, Venkatesan K, Hao T, Hirozane-Kishikawa T, Dricot A, Li N, Berriz GF, Gibbons FD, Dreze M, Ayivi-Guedehoussou N, Klitgord N, Simon C, Boxem M, Milstein S, Rosenberg J, Goldberg DS, Zhang LV, Wong SL, Franklin G, Li SM, Albala JS, et al. Towards a proteome-scale map of the human protein-protein interaction network. Nature 437: 1173-1178 (2005).

Ruan J, Zhang W. CAGER: classification analysis of gene expression regulation using multiple information sources. BMC Bioinformatics 6: 114 (2005).

Rudge SA, Cavenagh MM, Kamath R, Sciorra VA, Morris AJ, Kahn RA, Engebrecht J. ADP-Ribosylation factors do not activate yeast phospholipase Ds but are required for sporulation. Mol. Biol. Cell 9: 2025-2036 (1998).

Rudnick P, Kunz C, Gunatilaka MK, Hines ER, Kennedy C. Role of GlnK in NifL-mediated regulation of NifA activity in Azotobacter vinelandii. J. Bacteriol. 184: 812-820 (2002).

Saez A, Rodrigues A, Santiago J, Rubio S, Rodriguez PL. HAB1-SWI3B interaction reveals a link between abscisic acid signaling and putative SWI/SNF chromatin-remodeling complexes in Arabidopsis. Plant Cell 20: 2972-2988 (2008).

Sainz J, Pizarro F, Perez-Correa JR, Agosin E. Modeling of yeast metabolism and process dynamics in batch fermentation. Biotechnol. Bioeng. 81: 818-828 (2003).

Sarnowski TJ, Rios G, Jasik J, Swiezewski S, Kaczanowski S, Li Y, Kwiatkowska A, Pawlikowska K, Kozbial M, Kozbial P, Koncz C, Jerzmanowski A. SWI3 subunits of putative SWI/SNF chromatin-remodeling complexes play distinct roles during Arabidopsis development. Plant Cell 17: 2454-2472 (2005).

Schaefer DG. A new moss genetics: targeted mutagenesis in Physcomitrella patens. Annu. Rev. Plant Biol. 53: 477-501 (2002).

Scheibel T, Bell S, Walke S. S. cerevisiae and sulfur: a unique way to deal with the environment. FASEB J. 11: 917-921 (1997).

Schneider S, Schneidereit A, Konrad KR, Hajirezaei MR, Gramann M, Hedrich R, Sauer N. Arabidopsis INOSITOL TRANSPORTER4 mediates high-affinity H+ symport of myoinositol across the plasma membrane. Plant Physiol. 141: 565-577 (2006).

Schornack S, Ballvora A, Gurlebeck D, Peart J, Ganal M, Baker B, Bonas U, Lahaye T. The tomato resistance protein Bs4 is a predicted non-nuclear TIR-NB-LRR protein that mediates defense responses to severely truncated derivatives of AvrBs4 and overexpressed AvrBs3. Plant J. 37: 46-60 (2004).

Schwartz JM, Kanehisa M. Quantitative elementary mode analysis of metabolic pathways: the example of yeast glycolysis. BMC Bioinformatics 7: 186 (2006).

Shakirov EV, McKnight TD, Shippen DE. POT1-independent single-strand telomeric DNA binding activities in Brassicaceae. Plant J. 58: 1004-1015 (2009).

Shakoury-Elizeh M, Tiedeman J, Rashford J, Ferea T, Demeter J, Garcia E, Rolfes R, Brown PO, Botstein D, Philpott CC. Transcriptional remodeling in response to iron deprivation in Saccharomyces cerevisiae. Mol. Biol. Cell 15: 1233-1243 (2004).

Shanks JV. In situ NMR systems. Curr. Issues Mol. Biol. 3: 15-26 (2001).

Shanmuganathan A, Avery SV, Willetts SA, Houghton JE. Copper-induced oxidative stress in Saccharomyces cerevisiae targets enzymes of the glycolytic pathway. FEBS Lett. 556: 253-259 (2004).

Shen W, Wei Y, Dauk M, Tan Y, Taylor DC, Selvaraj G, Zou J. Involvement of a glycerol-3-phosphate dehydrogenase in modulating the NADH/NAD+ ratio provides evidence of a mitochondrial glycerol-3-phosphate shuttle in Arabidopsis. Plant Cell 18: 422-441 (2006).

Shi H, Quintero FJ, Pardo JM, Zhu JK. The putative plasma membrane Na(+)/H(+) antiporter SOS1 controls long-distance Na(+) transport in plants. Plant Cell 14: 465-477 (2002).

Shi H, Shimizu K. On-line metabolic pathway analysis based on metabolic signal flow diagram. Biotechnol. Bioeng. 58: 139-148 (1998).

Shih CH, Chu H, Tang LK, Sakamoto W, Maekawa M, Chu IK, Wang M, Lo C. Functional characterization of key structural genes in rice flavonoid biosynthesis. Planta 228: 1043-1054 (2008).

Shultz RW, Tatineni VM, Hanley-Bowdoin L, Thompson WF. Genome-wide analysis of the core DNA replication machinery in the higher plants Arabidopsis and rice. Plant Physiol. 144: 1697-1714 (2007).

Simon-Rosin U, Wood C, Udvardi MK. Molecular and cellular characterisation of LjAMT2;1, an ammonium transporter from the model legume Lotus japonicus. Plant Mol. Biol. 51: 99-108 (2003).

Simons G, Morton G. The gene-orientation structure of eukaryotes. J. Theor. Biol. 222: 471-475 (2003).

Smith AC, Robinson AJ. MitoMiner, an integrated database for the storage and analysis of mitochondrial proteomics data. Mol. Cell. Proteomics 8: 1324-1337 (2009).

Smith AE, Zhang Z, Thomas CR, Moxham KE, Middelberg AP. The mechanical properties of Saccharomyces cerevisiae. Proc. Natl. Acad. Sci. U.S.A. 97: 9871-9874 (2000).

Sompornpailin K, Makita Y, Yamazaki M, Saito K. A WD-repeat-containing putative regulatory protein in anthocyanin biosynthesis in Perilla frutescens. Plant Mol. Biol. 50: 485-495 (2002).

Song HS, Ramkrishna D. Reduction of a set of elementary modes using yield analysis. Biotechnol. Bioeng. 102: 554-568 (2009).

Spasic I, Simeonidis E, Messiha HL, Paton NW, Kell DB. KiPar, a tool for systematic information retrieval regarding parameters for kinetic modelling of yeast metabolic pathways. Bioinformatics 25: 1404-1411 (2009).

Speiser DM, Ortiz DF, Kreppel L, Scheel G, McDonald G, Ow DW. Purine biosynthetic genes are required for cadmium tolerance in Schizosaccharomyces pombe. Mol. Cell Biol. 12: 5301-5310 (1992).

Sprinzak E, Altuvia Y, Margalit H. Characterization and prediction of protein-protein interactions within and between complexes. Proc. Natl. Acad. Sci. U.S.A. 103: 14718-14723 (2006).

Stary S, Yin XJ, Potuschak T, Schlogelhofer P, Nizhynska V, Bachmair A. PRT1 of Arabidopsis is a ubiquitin protein ligase of the plant N-end rule pathway with specificity for aromatic amino-terminal residues. Plant Physiol. 133: 1360-1366 (2003).

Stephenson TJ, McIntyre CL, Collet C, Xue GP. Genome-wide identification and expression analysis of the NF-Y family of transcription factors in Triticum aestivum. Plant Mol. Biol. 65: 77-92 (2007).

Steuer R, Gross T, Selbig J, Blasius B. Structural kinetic modeling of metabolic networks. Proc. Natl. Acad. Sci. U.S.A. 103: 11868-11873 (2006).

Stipanuk MH, Dominy JE Jr. Surprising insights that aren't so surprising in the modeling of sulfur amino acid metabolism. Amino Acids 30: 251-256 (2006).

Strom AR. Osmoregulation in the model organism Escherichia coli: genes governing the synthesis of glycine betaine and trehalose and their use in metabolic engineering of stress tolerance. J. Biosci. 23: 437-445 (1998).

Su Y, Kwon CS, Bezhani S, Huvermann B, Chen C, Peragine A, Kennedy JF, Wagner D. The N-terminal ATPase AT-hook-containing region of the Arabidopsis chromatin-remodeling protein SPLAYED is sufficient for biological activity. Plant J. 46: 685-699 (2006).

Sun C, Hoglund AS, Olsson H, Mangelsen E, Jansson C. Antisense oligodeoxynucleotide inhibition as a potent strategy in plant biology: identification of SUSIBA2 as a transcriptional activator in plant sugar signalling. Plant J. 44: 128-138 (2005).

Suzuki H, Achnine L, Xu R, Matsuda SP, Dixon RA. A genomics approach to the early stages of triterpene saponin biosynthesis in Medicago truncatula. Plant J. 32: 1033-1048 (2002).

Suzuki H, Reddy MS, Naoumkina M, Aziz N, May GD, Huhman DV, Sumner LW, Blount JW, Mendes P, Dixon RA. Methyl jasmonate and yeast elicitor induce differential transcriptional and metabolic re-programming in cell suspension cultures of the model legume Medicago truncatula. Planta 220: 696-707 (2005).

Swire-Clark GA, Marcotte WR Jr. The wheat LEA protein Em functions as an osmoprotective molecule in Saccharomyces cerevisiae. Plant Mol. Biol. 39: 117-128 (1999).

Sze H, Padmanaban S, Cellier F, Honys D, Cheng NH, Bock KW, Conejero G, Li X, Twell D, Ward JM, Hirschi KD. Expression patterns of a novel AtCHX gene family highlight potential roles in osmotic adjustment and K+ homeostasis in pollen development. Plant Physiol. 136: 2532-2547 (2004).

Tauer A, Elss S, Frischmann M, Tellez P, Pischetsrieder M. Influence of thermally processed carbohydrate/amino acid mixtures on the fermentation by Saccharomyces cerevisiae. J. Agric. Food Chem. 52: 2042-2046 (2004).

Teusink B, Westerhoff HV. 'Slave' metabolites and enzymes. A rapid way of delineating metabolic control. Eur. J. Biochem. 267: 1889-1893 (2000).

Theobald U, Mailinger W, Baltes M, Rizzi M, Reuss M. In vivo analysis of metabolic dynamics in Saccharomyces cerevisiae. 1. Experimental observations. Biotechnol. Bioeng. 55: 305-316 (1997).

Thomann A, Brukhin V, Dieterle M, Gheyeselinck J, Vantard M, Grossniklaus U, Genschik P. Arabidopsis CUL3A and CUL3B genes are essential for normal embryogenesis. Plant J. 43: 437-448 (2005).

Thomas D, Becker A, Surdin-Kerjan Y. Reverse methionine biosynthesis from S-adenosylmethionine in eukaryotic cells. J. Biol. Chem. 275: 40718-40724 (2000).

Thomas S, Fell DA. A control analysis exploration of the role of ATP utilisation in glycolytic-flux control and glycolytic-metabolite-concentration regulation. Eur. J. Biochem. 258: 956-967 (1998).

Thomas S, Mooney PJF, Burrell MM, Fell DA. Finite change analysis of glycolytic intermediates in tuber tissue of lines of transgenic potato (Solanum tuberosum) overexpressing phosphofructokinase. Biochem. J. 322: 111-117 (1997).

Thomsen-Zieger N, Pandini V, Caprini G, Aliverti A, Cramer J, Selzer PM, Zanetti G, Seeber F. A single in vivo-selected point mutation in the active center of Toxoplasma gondii ferredoxin-NADP+ reductase leads to an inactive enzyme with greatly enhanced affinity for ferredoxin. FEBS Lett. 576: 375-380 (2004).

Thurow C, Schiermeyer A, Krawczyk S, Butterbrodt T, Nickolov K, Gatz C. Tobacco bZIP transcription factor TGA2.2 and related factor TGA2.1 have distinct roles in plant defense responses and plant development. Plant J. 44: 100-113 (2005).

Tian L, Dixon RA. Engineering isoflavone metabolism with an artificial bifunctional enzyme. Planta 224: 496-507 (2006).

Trotter PJ. The genetics of fatty acid metabolism in Saccharomyces cerevisiae. Annu. Rev. Nutr. 21: 97-119 (2001).

Truksa M, Wu G, Vrinten P, Qiu X. Metabolic engineering of plants to produce very long-chain polyunsaturated fatty acids. Transgenic Res. 15: 131-137 (2006).

Tsuji N, Nishikori S, Iwabe O, Matsumoto S, Shiraki K, Miyasaka H, Takagi M, Miyamoto K, Hirata K. Comparative analysis of the two-step reaction catalyzed by prokaryotic and eukaryotic phytochelatin synthase by an ion-pair liquid chromatography assay. Planta 222: 181-191 (2005).

Turk EM, Fujioka S, Seto H, Shimada Y, Takatsuto S, Yoshida S, Denzel MA, Torres QI, Neff MM. CYP72B1 inactivates brassinosteroid hormones: an intersection between photomorphogenesis and plant steroid signal transduction. Plant Physiol. 133: 1643-1653 (2003).

Tzafrir I, McElver JA, Liu Cm CM, Yang LJ, Wu JQ, Martinez A, Patton DA, Meinke DW. Diversity of TITAN functions in Arabidopsis seed development. Plant Physiol. 128: 38-51 (2002).

Tzafrir I, Pena-Muralla R, Dickerman A, Berg M, Rogers R, Hutchens S, Sweeney TC, McElver J, Aux G, Patton D, Meinke D. Identification of genes required for embryo development in Arabidopsis. Plant Physiol. 135: 1206-1220 (2004).

Uchiyama K, Shioya S. Modeling and optimization of a-amylase production in a recombinant yeast fed-batch culture taking into account of the cell cycle population distribution. J. Biotechnol. 71: 133-141 (1999).

Ueda H, Yamaguchi Y, Sano H. Direct interaction between the tobacco mosaic virus helicase domain and the ATP-bound resistance protein, N factor during the hypersensitive response in tobacco plants. Plant Mol. Biol. 61: 31-45 (2006).

Uhrig JF. Protein interaction networks in plants. Planta 224: 771-781 (2006).

Vadali RV, Bennett GN, San KY. Applicability of CoA/acetyl-CoA manipulation system to enhance isoamyl acetate production in Escherichia coli. Metab. Eng. 6: 294-299 (2004).

van Der Knaap E, Kim JH, Kende H. A novel gibberellin-induced gene from rice and its potential regulatory role in stem growth. Plant Physiol. 122: 695-704 (2000).

van Riel NA, Giuseppin ML, TerSchure EG, Verrips CT. A structured, minimal parameter model of the central nitrogen metabolism in Saccharomyces cerevisiae: the prediction of the behavior of mutants. J. Theor. Biol. 191: 397-414 (1998).

van Slegtenhorst M, Carr E, Stoyanova R, Kruger WD, Henske EP. Tsc1(+) and tsc2(+) regulate arginine uptake and metabolism in Schizosaccharomyces pombe. J. Biol. Chem. 279: 12706-12713 (2004).

van Walsum GP, Lynd LR. Allocation of ATP to synthesis of cells and hydrolytic enzymes in cellulolytic fermentative microorganisms: bioenergetics, kinetics, and bioprocessing. Biotechnol. Bioeng. 58: 316-320 (1998).

van Winden WA, van Dam JC, Ras C, Kleijn RJ, Vinke JL, van Gulik WM, Heijnen JJ. Metabolic-flux analysis of Saccharomyces cerevisiae CEN.PK113-7D based on mass isotopomer measurements of (13)C-labeled primary metabolites. FEMS Yeast Res. 5: 559-568 (2005).

Vanrolleghem PA, Heijnen JJ. A structured approach for selection among candidate metabolic network models and estimation of unknown stoichiometric coefficients. Biotechnol. Bioeng. 58: 133-138 (1998).

Varga EG, Titchener-Hooker NJ, Dunnill P. Prediction of the pilot-scale recovery of a recombinant yeast enzyme using integrated models. Biotechnol. Bioeng. 74: 96-107 (2001).

Varma GB, Fatope MO, Marwah RG, Deadman ME, Al-Rawahi FK. Production of phenylacetic acid derivatives and 4-epiradicinol in culture by Curvularia lunata. Phytochemistry 67: 1925-1930 (2006).

Vaseghi S, Macherhammer F, Zibek S, Reuss M. Signal transduction dynamics of the protein kinase-A/phosphofructokinase-2 system in Saccharomyces cerevisiae. Metab. Eng. 3: 163-172 (2001).

Veeramani B, Bader JS. Metabolic flux correlations, genetic interactions, and disease. J. Comput. Biol. 16: 291-302 (2009).

Vert G, Barberon M, Zelazny E, Seguela M, Briat JF, Curie C. Arabidopsis IRT2 cooperates with the high-affinity iron uptake system to maintain iron homeostasis in root epidermal cells. Planta 229: 1171-1179 (2009).

Voit EO. Biochemical and genomic regulation of the trehalose cycle in yeast: review of observations and canonical model analysis. J. Theor. Biol. 223: 55-78 (2003).

Voit EO, Radivoyevitch T. Biochemical systems analysis of genome-wide expression data. Bioinformatics 16: 1023-1037 (2000).

Wahlbom CF, Eliasson A, Hahn-Hagerdal B. Intracellular fluxes in a recombinant xylose-utilizing Saccharomyces cerevisiae cultivated anaerobically at different dilution rates and feed concentrations. Biotechnol. Bioeng. 72: 289-296 (2001).

Walbott H, Leulliot N, Grosjean H, Golinelli-Pimpaneau B. The crystal structure of Pyrococcus abyssi tRNA (uracil-54, C5)-methyltransferase provides insights into its tRNA specificity. Nucleic Acids Res. 36: 4929-4940 (2008).

Walia A, Lee JS, Wasteneys G, Ellis B. Arabidopsis mitogen-activated protein kinase MPK18 mediates cortical microtubule functions in plant cells. Plant J. 59: 565-575 (2009).

Wang R, Zhou T, Jing Z, Chen L. Modelling periodic oscillation of biological systems with multiple timescale networks. Syst. Biol. 1: 71-84 (2004).

Washburn MP, Wolters D, Yates JR III. Large-scale analysis of the yeast proteome by multidimensional protein identification technology. Nature Biotechnol. 19: 242-247 (2001).

Wattanachaisaereekul S, Lantz AE, Nielsen ML, Nielsen J. Production of the polyketide 6-MSA in yeast engineered for increased malonyl-CoA supply. Metab. Eng. 10: 246-254 (2008).

Wheeler GL, Grant CM. Regulation of redox homeostasis in the yeast Saccharomyces cerevisiae. Physiol. Plant. 120: 12-20 (2004).

Wilkinson SJ, Benson N, Kell DB. Proximate parameter tuning for biochemical networks with uncertain kinetic parameters. Mol. Biosyst. 4: 74-97 (2007).

Winter E, Ponting CP. TRAM, LAG1 and CLN8: members of a novel family of lipid-sensing domains? Trends Biochem. Sci. 27: 381-383 (2002).

Wolf J, Heinrich R. Dynamics of two-component biochemical systems in interacting cells; synchronization and desynchronization of oscillations and multiple steady states. Biosystems 43: 1-24 (1997).

Wu L, Lange HC, Van Gulik WM, Heijnen JJ. Determination of in vivo oxygen uptake and carbon dioxide evolution rates from off-gas measurements under highly dynamic conditions. Biotechnol. Bioeng. 81: 448-458 (2003).

Wuchty S. Topology and weights in a protein domain interaction network - a novel way to predict protein interactions. BMC Genomics 7: 122 (2006).

Xia Y, Yu H, Jansen R, Seringhaus M, Baxter S, Greenbaum D, Zhao H, Gerstein M. Analyzing cellular biochemistry in terms of molecular networks. Annu. Rev. Biochem. 73: 1051-1087 (2004).

Xiong Q, Rocco F, Wilson WK, Xu R, Ceruti M, Matsuda SP. Structure and reactivity of the dammarenyl cation: configurational transmission in triterpene synthesis. J. Org. Chem. 70: 5362-5375 (2005).

Xu Y, Teo LL, Zhou J, Kumar PP, Yu H. Floral organ identity genes in the orchid Dendrobium crumenatum. Plant J. 46: 54-68 (2006).

Xudong Cheng LL, Ling HQ. Isolation and characterization of Fe(III)-chelate reductase gene LeFRO1 in tomato. Plant Mol. Biol. 54: 125-136 (2004).

Yahalom A, Kim TH, Roy B, Singer R, von Arnim AG, Chamovitz DA. Arabidopsis eIF3e is regulated by the COP9 signalosome and has an impact on development and protein translation. Plant J. 53: 300-311 (2008).

Yoshida K, Iwasaka R, Kaneko T, Sato S, Tabata S, Sakuta M. Functional differentiation of Lotus japonicus TT2s, R2R3-MYB transcription factors comprising a multigene family. Plant Cell Physiol. 49: 157-169 (2008).

Yu SW, Zhang LD, Zuo KJ, Tang DQ, Tang KX. Isolation and characterization of an oilseed rape MAP kinase BnMPK3 involved in diverse environmental stresses. Plant Sci. 169: 413-421 (2005).

Yuksel B, Memon AR. Comparative phylogenetic analysis of small GTP-binding genes of model legume plants and assessment of their roles in root nodules. J. Exp. Bot. 59: 3831-3844 (2008).

Zanghellini J, Natter K, Jungreuthmayer C, Thalhammer A, Kurat CF, Gogg-Fassolter G, Kohlwein SD, von Grunberg HH. Quantitative modeling of triacylglycerol homeostasis in yeast - metabolic requirement for lipolysis to promote membrane lipid synthesis and cellular growth. FEBS J. 275: 5552-5563 (2008).

Zhang W, Smith LA, Plantz BA, Schlegel VL, Meagher MM. Design of methanol feed control in Pichia pastoris fermentations based upon a growth model. Biotechnol. Prog. 18: 1392-1399 (2002).

Zhang X, Hu J. Two small protein families, DYNAMIN-RELATED PROTEIN3 and FISSION1, are required for peroxisome fission in Arabidopsis. Plant J. 57: 146-159 (2009).

Zhang Z, Blewett JM, Thomas CR. Modelling the effect of osmolality on the bursting strength of yeast cells. J. Biotechnol. 71: 17-24 (1999).

Zhang Z, Scharer JM, Moo-Young M. Mathematical model for aerobic culture of a recombinant yeast. Bioprocess Engineering 17: 235-240 (1997).

Zhong S, Lin Z, Grierson D. Tomato ethylene receptor-CTR interactions: visualization of NEVER-RIPE interactions with multiple CTRs at the endoplasmic reticulum. J. Exp. Bot. 59: 965-972 (2008).

Zhou C, Miki B, Wu K. CHB2, a member of the SWI3 gene family, is a global regulator in Arabidopsis. Plant Mol. Biol. 52: 1125-1134 (2003).

Zhou XJ, Kao MC, Huang H, Wong A, Nunez-Iglesias J, Primig M, Aparicio OM, Finch CE, Morgan TE, Wong WH. Functional annotation and network reconstruction through cross-platform integration of microarray data. Nat. Biotechnol. 23: 238-243 (2005).

Zhu JK. Genetic analysis of plant salt tolerance using Arabidopsis. Plant Physiol. 124: 941-948 (2000).

Zolman BK, Monroe-Augustus M, Silva ID, Bartel B. Identification and functional characterization of Arabidopsis PEROXIN4 and the interacting protein PEROXIN22. Plant Cell 17: 3422-3435 (2005).

Number of references = 334

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