Regulation of CPSase, ACTase, and OCTase genes in Medicago truncatula: Implications for carbamoylphosphate synthesis and allocation to pyrimidine and arginine de novo Biosynthesis

Gene

Volumn 462, Issue 1-2, 2010, Pages 18-25

  Brady, Brian S ^a   Hyman, Bradley C ^a   Lovatt, Carol J ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

Gene Duplication; Ornithine; Uridine

Indexed keywords

ARGININE; ASPARTATE CARBAMOYLTRANSFERASE; CARBAMOYL PHOSPHATE; CARBAMOYL PHOSPHATE SYNTHASE; ORNITHINE; ORNITHINE CARBAMOYLTRANSFERASE; PYRIMIDINE; URIDINE;

ARTICLE; BARREL MEDIC; BIOSYNTHESIS; DOWN REGULATION; GENETIC REGULATION; GENETIC TRANSCRIPTION; NONHUMAN; NUCLEOTIDE SEQUENCE; PLANT GENE; PRIORITY JOURNAL; REAL TIME POLYMERASE CHAIN REACTION; SEEDLING;

ARGININE; ASPARTATE CARBAMOYLTRANSFERASE; DOWN-REGULATION; EUKARYOTA; GENES, FUNGAL; GENES, REGULATOR; MEDICAGO TRUNCATULA; PLANTS; PROKARYOTIC CELLS; PYRIMIDINES; URIDINE;

EUKARYOTA; MEDICAGO TRUNCATULA; PROKARYOTA;

EID: 77954143716     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.gene.2010.04.007     Document Type: Article

References (48)

1. Altschul S.F., Gish W., Miller W., Myers E.W., Lipman D.J. Basic local alignment search tool. J. Mol. Biol. 1990, 215:403-410.
2. Anderson P.M., Meister A. Control of Escherichia coli carbamoyl phosphate synthetase by purine and pyrimidine nucleotides. Biochemistry 1966, 5:3157-3163.
3. The Arabidopsis Genome Initiative Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 2000, 408:796-815.
4. Barker A.V. Foliar ammonium accumulation as an index of stress in plants. Commun. Soil Sci. Plant Anal. 1999, 30:167-174.
5. Bouvier J., Patte J.-C., Stragier P. Multiple regulatory signals in the control region of the Escherichia coli carAB operon. Proc. Natl. Acad. Sci. U. S. A. 1984, 81:4139-4143.
6. Clemmesen K., Bonekamp F., Karlstrom O., Jensen K.F. Role of translation in the UTP-modulated attenuation at the pyrBI operon of Escherichia coli. Mol. Gen. Genet. 1985, 201:247-251.
7. Crabeel M., Messenguy F., Lacroute F., Glansdorrf N. Cloning and expression of argF (arg3), the yeast structural gene for ornithine carbamoyltransferase, in Saccharomyces cerevisiae and in Escherichia coli. Arch. Int. Physiol. Biochim. 1980, 88:B21-B22.
8. Cybis J., Davis R.H. Organization and control in the arginine biosynthetic pathway of Neurospora. J. Bacteriol. 1975, 123:196-202.
9. Davis R.H., Ristow J.L., Ginsburg C.L. Independent localization and regulation of carbamyl phosphate synthetase A polypeptides of Neurospora crassa. Mol. Gen. Genet. 1981, 181:215-221.
10. Faanes R., Rogers P. Repression of enzymes of arginine biosynthesis by l-canavanine in arginyl-transfer ribonucleic acid synthetase mutants of Escherichia coli. J. Bacteriol. 1972, 112:102-113.
11. Fico M.E., Motyl T., Milner J.A. Species comparison of the influence of ammonia on orotic acid and urea biosynthesis in liver. J. Nutr. 1984, 114:613-621.
12. Fresquet V., Mora P., Rochera L., Ramon-Maiques S., Rubio V., Cervera J. Site-directed mutagenesis of the regulatory domain of Escherichia coli carbamoyl phosphate synthetase identifies cruicial residues for allosteric regulation and for transduction of the regulatory signals. J. Mol. Biol. 2000, 299:979-991.
13. Giermann N., Schroeder M., Ritter T., Zrenner R. Molecular analysis of de novo pyrimidine synthesis in solanaceous species. Plant Mol. Biol. 2002, 50:393-403.
14. Gouaux J.E., Lipscomb W.N. The three dimensional structure of carbamoyl phosphate and succinate bound to aspartate carbamoyltransferase. Proc. Natl. Sci. U.S.A. 1988, 85:4205-4208.
15. Itoh Y., Soldati L., Stalon V., Falmagne P., Terawaki Y., Leisinger T., Haas D. Anabolic ornithine carbamoyltransferase of Pseudomonas aeruginosa: nucleotide sequence and transcriptional control of the argF structural gene. J. Bacteriol. 1988, 170:2725-2734.
16. Kilstrup M., Lu C.D., Abdelal A., Neuhard J. Nucleotide sequence of the carA gene and regulation of the carAB operon in Salmonella typhimurium. Eur. J. Biochem. 1988, 176:421-429.
17. Lee Y., Choi Y.-A., Hwang I.D., Kim S.-G., Kwon Y.M. cDNA cloning of two isoforms of ornithine carbamoyltransferase from Canavalia lineata leaves and the effect of site-directed mutagenesis of the carbamoyl phosphate binding site. Plant Mol. Biol. 2001, 46:651-660.
18. Li Y., et al. Establishing glucose- and ABA-regulated transcription networks in Arabidopsis by microarray analysis and promoter classification using a Relevance Vector Machine. Genome Res. 2006, 16:414-427.
19. Lovatt C.J., Cheng A.H. Aspartate carbamyltransferase. Site of end-product inhibition of the orotate pathway in intact cells of Cucurbita pepo. Plant Physiol. 1984, 75:511-515.
20. Lovatt C.J. Stress alters ammonia and arginine metabolism. Polyamines and Ethylene: Biochemistry, Physiology, and Interactions 1990, 166-179. Amer. Soc. Plant. Physiol, Maryland. H.E. Flores, R.N. Arteca, J.C. Shannon (Eds.).
21. Marshall M., Cohen P.P. Ornithine transcarbamylases. Ordering of S-cyano peptides and location of characteristically reactive cysteinyl residues within the sequence. J. Biol. Chem. 1980, 255:7287-7290.
22. Miles B.W., Mareya S.M., Post L.E., Post D.J., Chang S.H., Raushel F.M. Differential roles for three conserved histidine residues within the large subunit of carbamoyl phosphate synthetase. Biochemistry 1993, 32:232-240.
23. O'Neal T.D., Naylor A.W. Partial purification and properties of carbamoyl phosphate synthetase of Alaska Pea (Pisum satum L. cv. Alaska). Biochem. J. 1969, 113:271-279.
24. O'Neal T.D., Naylor A.W. Some regulatory properties of pea leaf carbamoyl phosphate synthetase. Plant Physiol. 1976, 57:23-28.
25. Ong B.L., Jackson J.F. Asparate transcarbamoylase from Phaseolus aureus. Partial purification and properties. Biochem. J. 1972, 129:571-581.
26. Paulus T.J., Switzer R.L. Characterization of pyrimidine-repressible and arginine-repressible carbamyl phosphate synthetases from Bacillus subtilis. J. Bacteriol. 1979, 137:82-91.
27. Pfaffl M.W. A new mathematical model for relative quantification in real-time RT-PCR. Nucleic Acids Res. 2001, 29:e45.
28. Pierard A., Wiame J.M. Regulation and mutation affecting a glutamine-dependent formation of carbamyl phosphate in Escherichia coli. Biochem. Biophys. Res. Commun. 1964, 15:76-81.
29. Pierard A., Messenguy F., Feller A., Hilger F. Dual regulation of the synthesis of the arginine pathway carbamoylphosphate synthase of Saccharomyces cerevisiae by specific and general controls of amino acid biosynthesis. Mol. Gen. Genet. 1979, 174:163-171.
30. Piette J., et al. DNA sequence of the carA gene and the control region of carAB: tandem promoters, respectively controlled by arginine and the pyrimidines, regulate the synthesis of carbamoyl-phosphate synthetase in Escherichia coli K-12. Proc. Natl. Acad. Sci. U. S. A. 1984, 81:4134-4138.
31. Post L.E., Post D.J., Raushel F.M. Dissection of the functional domains of Escherichia coli carbamoyl phosphate synthetase by site-directed mutagenesis. J. Biol. Chem. 1990, 265:7742-7747.
32. Potier S., Lacroute F., Hubert J.C., Souciet J.L. Studies on transcription of the yeast URA2 gene. FEMS Microbiol. Lett. 1990, 60:215-219.
33. Robin J.-P., Penverne B., Herve G. Carbamoyl phosphate biosynthesis and partition in pyrimidine and arginine pathways of Escherichia coli. Eur. J. Biochem. 1989, 183:519-528.
34. Roland K.L., Powell F.E., Turnbough C.L. Role of translation and attenuation in the control of pyrBI operon expression in Escherichia coli K-12. J. Bacteriol. 1985, 163:991-999.
35. Rubino S.D., Nyunoya H., Lusty C.J. Catalytic domains of carbamoyl phosphate synthetase. Glutamine-hydrolyzing site of Escherichia coli carbamoyl phosphate synthetase. J. Biol. Chem. 1986, 261:11321-11327.
36. Sambrook J., Fritsch E.F., Maniatis T. Molecular cloning-a laboratory manual 1989, Cold Spring Harbor Laboratory Press, New York. third ed.
37. Serre V., et al. Integrated allosteric regulation in the S. cerevisiae carbamylphosphate synthetase - aspartate transcarbamylase multifunctional protein. BMC Biochem. 2004, 5:6.
38. Slocum R.D. Genes, enzymes and regulation of arginine biosynthesis in plants. Plant Physiol. Biochem. 2005, 43:729-745.
39. Souaze F., Ntodou-Thome A., Tran C.Y., Rostene W., Forgez P. Quantitative RT-PCR: limits and accuracy. Biotechniques 1996, 21:280-285.
40. Stapleton M.A., Javid-Majd F., Harmon M.F., Hanks B.A., Grahmann J.L., Mullins L.S., Raushel F.M. Role of conserved residues within the carboxy phosphate domain of carbamoyl phosphate synthetase. Biochemistry 1996, 35:14352-14361.
41. Tremblay G.C., Crandall D.E., Knott C.E., Alfant M. Orotic acid biosynthesis in rat liver: studies on the source of carbamoyl phosphate. Arch. Biochem. Biophys. 1977, 178:264-277.
42. Turnbough C.L., Hicks K.L., Donahue J.P. Attenuation control of pyrBI operon expression in Escherichia coli K-12. Proc. Natl. Acad. Sci. U. S. A. 1983, 80:368-372.
43. Williams M.G., Rogers P. Expression of arg Genes of Escherichia coli during arginine limitation dependent upon stringent control of translation. J. Bacteriol. 1987, 169:1644-1650.
44. Williamson C.L., Slocum R.D. Molecular cloning and characterization of the pyrB1 and pyrB2 genes encoding aspartate transcarbamoylase in pea (Pisum sativum L). Plant Physiol. 1994, 105:377-384.
45. Yazaki J., et al. Transcriptional profiling of genes responsive to abscisic acid and gibberellin in rice: phenotyping and comparative analysis between rice and Arabidopsis. Physiol. Genomics 2004, 17:87-100.
46. Zhao S., Fernald D. Comprehensive algorithm for quantitative real-time polymerase chain reaction. J. Comput. Biol. 2005, 12:1047-1064.
47. Zhou Z., Metcalf A.E., Lovatt C.J., Hyman B.C. Alfalfa (Medicago sativa) carbamoylphosphate synthetase gene structure records the deep lineage of plants. Gene 2000, 243:105-114.
48. Zrenner R., Stitt M., Sonnewald U., Boldt R. Pyrimidine and purine biosynthesis and degradation in plants. Annu. Rev. Plant Biol. 2006, 57:805-836.