Aromatic Metabolic Pathways

Resources for Evolutionary Analysis

About AroPath

AroPath Authors

Dr. Carol BonnerDr. Carol Bonner
Fellowship For Interpretation Of Genomes, 15w155 81st St, Burr Ridge, IL 60527

Biographical Sketch [HTML][PDF]
Captain RoyDr. Roy Jensen (Captain Roy)
Fellowship For Interpretation Of Genomes at 15w155 81st St, Burr Ridge, IL 60527

Biographical Sketch [HTML][PDF]
FangfangFangfang Xia
Computing, Environment and Life Sciences, Argonne National Laboratory, Argonne, IL 60439

Publications

This list of publications includes those publications of the founding members of this website that are relevant to aromatic amino acid metabolism. Authorship by R. Jensen, J. Song, and C. Bonner highlighted with black, red, and blue lettering, respectively. Where possible, HTML and pdf files are provided for download. In some cases, notes, clarifications, text corrections, figure corrections or improvements are also provided.

  1. Jensen, R. A., and E. W. Nester. 1965. The regulatory significance of intermediary metabolites:  control of aromatic acid biosynthesis by feedback inhibition in Bacillus subtilis. J Mol Biol 12:468-481.

  2. Jensen, R. A., and E. W. Nester. 1966. Regulatory enzymes of aromatic amino acid biosynthesis in Bacillus subtilis. I. Purification and properties of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthetase. J Biol Chem 241:3365-3372. [PDF]

  3. Jensen, R. A., and E. W. Nester. 1966. Regulatory enzymes of aromatic amino acid biosynthesis in Bacillus subtilis. II.  The enzymology of feedback inhibition of 3-deoxy-D- arabino-heptulosonate 7-phosphate synthetase. J Biol Chem 241:3373-3380. [PDF]

  4. Nester, E. W., R. A. Jensen. 1966. Control of aromatic acid biosynthesis in Bacillus subtilis: sequential feedback inhibition. J Bacteriol 91:1594-1598. [ABSTRACT][PDF]

  5. Jensen, R. A., D. S. Nasser, and E. W. Nester. 1967. The comparative control of a branch-point enzyme in microorganisms. J Bacteriol 94:1582-1593. [ABSTRACT][PDF]

  6. Jensen, R. A. 1968. A biochemical basis for apparent abortive transformation in Bacillus subtilis. Genetics 60:707-717. [PDF]

  7. Jensen, R. A., and D. S. Nasser. 1968. Comparative regulation of isoenzymic 3-deoxy-D-arabino-heptulosonate 7-phosphate synthetases in microorganisms. J Bacteriol 95:188-196. [ABSTRACT][PDF]

  8. Champney, W. S., and R. A. Jensen. 1969. D-Tyrosine as a metabolic inhibitor of Bacillus subtilis. J. Bacteriol 98:205-214. [ABSTRACT][PDF]

  9. Jensen, R. A. 1969. Antimetabolite action of 5-methyltryptophan in Bacillus subtilis. J Bacteriol 97:1500-1501. [ABSTRACT][PDF]

  10. Jensen, R. A. 1969. Metabolic Interlock: regulatory interactions exerted between biochemical pathways. J Biol Chem 244:2816-2823. [ABSTRACT][PDF]

  11. Nester, E. W., R. A. Jensen, and D. S. Nasser. 1969. Regulation of enzyme synthesis in the aromatic amino acid pathway of Bacillus subtilis. J Bacteriol 97:83-90. [ABSTRACT][PDF]

  12. Champney, W. S., and R. A. Jensen. 1970. Metabolic influences on tyrosine excretion in Bacillus subtilis. J Bacteriol 104:351-359. [ABSTRACT][PDF]

  13. Champney, W. S., and R. A. Jensen. 1970. The enzymology of prephenate dehydrogenase in Bacillus subtilis. J Biol Chem 245:3763-3770. [ABSTRACT][PDF]

  14. Champney, W. S., and R. A. Jensen. 1970. Molecular events in the growth inhibition of Bacillus subtilis by D-tyrosine. J Bacteriol 104:107-116. [ABSTRACT][PDF]

  15. Jensen, R. A. 1970. Taxonomic implications of temperature dependence of the allosteric inhibition of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthetase in Bacillus. J Bacteriol 102:489-497. [ABSTRACT][PDF]

  16. Jensen, R. A., and J. L. Rebello. 1970. Comparative allostery of microbial enzymes at metabolic branch-points:  evolutionary implications, vol. 11. American Institute of Biological Sciences, Washington, DC.

  17. Jensen, R. A., and S. L. Stenmark. 1970. Comparative allostery of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthetase as a molecular basis for classification. J Bacteriol 101:763-769. [ABSTRACT][PDF]

  18. Jensen, R. A., and W. Trentini. 1970. Alternative allosteric effects exerted by end products upon a two-substrate enzyme in Rhodomicrobium vannielii. J Biol Chem 245:2018-2022. [ABSTRACT][PDF]

  19. Kane, J. F., and R. A. Jensen. 1970. Metabolic Interlock:  the influence of histidine on tryptophan biosynthesis in Bacillus subtilis. J Biol Chem 245:2384-2390. [ABSTRACT][PDF]

  20. Kane, J. F., and R. A. Jensen. 1970. Enzyme induction in the tryptophan biosynthetic pathway in Bacillus subtilis. Biochem Biophys Res Commun 38:1161-1167. [ABSTRACT]

  21. Kane, J. F., and R. A. Jensen. 1970. The molecular aggregation of anthranilate synthase in Bacillus subtilis. Biochem Biophys Res Commun 41:328-333. [ABSTRACT][PDF]

  22. Rebello, J. L., and R. A. Jensen. 1970. Metabolic Interlock: the multi-metabolite control of prephenate dehydratase activity in Bacillus subtilis. J Biol Chem 245:3738-3744. [PDF]

  23. Kane, J. F., S. L. Stenmark, D. H. Calhoun, and R. A. Jensen. 1971. Metabolic Interlock:  the role of the subordinate type of enzyme in the regulation of a complex pathway. J Biol Chem 246:4308-4316. [ABSTRACT][PDF]

  24. Calhoun, D. H., M. Carson, and R. A. Jensen. 1972. The branch point metabolite for pyocyanine biosynthesis in Pseudomonas aeruginosa. J Gen Microbiol 72:581-583.

  25. Calhoun, D. H., and R. A. Jensen. 1972. Significance of altered carbon flow in aromatic amino acid synthesis:  an approach to the isolation of regulatory mutants in Pseudomonas aeruginosa. J Bacteriol 109:365-372. [ABSTRACT][PDF]

  26. Ingram, L. O., D. L. Pierson, J. F. Kane, C. Van Baalen, and R. A. Jensen. 1972. Documentation of auxotrophic mutation in blue-green bacteria:  characterization of a tryptophan auxotroph in   Agmenellum quadruplicatum. J Bacteriol 111:112-118. [ABSTRACT][PDF]

  27. Jensen, R. A., S. L. Stenmark, and W. S. Champney. 1972. Molecular basis for the differential anti-metabolite action of D-tyrosine in strains 23 and 168 of Bacillus subtilis. Arch Microbiol 87:173-180. [PDF]

  28. Jensen, R. A., and R. Twarog. 1972. Allostery of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthetase in Clostridium:  another conserved generic characteristic. J Bacteriol 111:641-648. [ABSTRACT][PDF]

  29. Kane, J. F., W. M. Holmes, and R. A. Jensen. 1972. Metabolic Interlock:  the dual function of a folate pathway gene as an extra-operonic gene of tryptophan biosynthesis. J Biol Chem 247:1587-1596. [PDF]

  30. Calhoun, D. H., D. L. Pierson, and R. A. Jensen. 1973. Channel-shuttle mechanism for the regulation of phenylalanine and tyrosine synthesis at a metabolic branch point in Pseudomonas aeruginosa. J Bacteriol 113:241-251. [ABSTRACT][PDF]

  31. Calhoun, D. H., D. L. Pierson, and R. A. Jensen. 1973. The regulation of tryptophan biosynthesis in Pseudomonas aeruginosa  Mol Gen Genetics 121:117-132.

  32. D'Ambrosio, S. M., G. I. Glover, S. O. Nelson, and R. A. Jensen. 1973. Specificity of the tyrosine-phenylalanine transport system in Bacillus subtilis. J Bacteriol 115:673-681. [ABSTRACT][PDF]

  33. Ingram, L. O., and R. A. Jensen. 1973. Growth inhibition by L-phenylalanine in Agmenellum quadruplicatum:  a clue to some amino acid interrelationships. Arch Microbiol 91:221-233.

  34. Jensen, R. A., D. H. Calhoun, and S. L. Stenmark. 1973. Allosteric inhibition of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthetase by tyrosine, tryptophan and phenylpyruvate in Pseudomonas aeruginosa. Biochim Biophys Acta 293:256-268.

  35. Kane, J. F., W. M. Holmes, K. L. Smiley, and R. A. Jensen. 1973. Rapid regulation of an anthranilate synthase aggregate by hysteresis. J Bacteriol 113:224-232. [ABSTRACT][PDF]

  36. Carson, M., and R. A. Jensen. 1974. Phenotypic recognition of pyocyanine mutants in Pseudomonas aeruginosa. J Bacteriol 117:312-314. [ABSTRACT][PDF]

  37. Jensen, R. A., S. L. Stenmark-Cox, and D. L. Pierson. 1974. Mis-regulation of 3-deoxy-D- arabino-heptulosonate 7-phosphate synthetase does not account for growth inhibition by phenylalanine in Agmenellum quadruplicatum. J Bacteriol 120:1124-1132. [ABSTRACT][PDF]

  38. Pierson, D. L., and R. A. Jensen. 1974. Metabolic Interlock: control of an interconvertible prephenate dehydratase by hydrophobic amino acids in Bacillus subtilis. J Mol Biol 90:563-579.

  39. Stenmark, S. L., D. L. Pierson, F. I. Glover, and R. A. Jensen. 1974. Blue-green bacteria synthesize L-tyrosine by the pretyrosine pathway. Nature 247:290-292.

  40. D'Ambrosio, S. M., F. I. Glover, and R. A. Jensen. 1975. Kinetics of affinity labeling the L-tyrosine/L-phenylalanine transport system in Bacillus subtilis. Arch Biochem Biophys Arch Biochem Biophys:754-760. [PDF]

  41. Glover, G. I., S. M. D'Ambrosio, and R. A. Jensen. 1975. Versatile properties of a nonsaturable, homogeneous transport system in Bacillus subtilis:  genetic, kinetic and affinity-labeling studies. Proc Natl Acad Sci USA 72:814-818. [ABSTRACT][PDF]

  42. Jensen, R. A., and D. L. Pierson. 1975. Evolutionary implications of different types of microbial enzymology for L-tyrosine biosynthesis. Nature 254:667-671.

  43. Jensen, R. A., and S. L. Stenmark. 1975. The ancient origin of a second microbial pathway of L-tyrosine biosynthesis in prokaryotes. J Mol Evol 4:249-259. [PDF]

  44. Stenmark-Cox, S. L., and R. A. Jensen. 1975. Prephenate dehydrogenase from Pseudomonas aeruginosa is a regulated component of the channel-shuttle mechanism controlling tyrosine-phenylalanine synthesis. Arch Biochem Biophys 167:540-546.[ABSTRACT][PDF]

  45. Jensen, R. A. 1976. Enzyme recruitment in evolution of new function. Ann Rev Microbiol 30:409-425. [ABSTRACT][PDF]

  46. Jensen, R. A., L. O. Zamir, M. St. Pierre, N. Patel, and D. L. Pierson. 1977. Isolation and preparation of pretyrosine, accumulated as  a dead-end metabolite by Neurospora crassa. J Bacteriol 132:896-903. [ABSTRACT][PDF]

  47. Patel, N., D. L. Pierson, and R. A. Jensen. 1977. Dual enzymatic routes to L-tyrosine and L-phenylalanine via pretyrosine in Pseudomonas aeruginosa. J Biol Chem 252:5839-5846. [PDF]

  48. Friedman, E., and R. A. Jensen. 1978. An anthranilate synthase of the extreme aminase type in a species of blue-green bacteria (algae). Genetics 16:867-881. [ABSTRACT][PDF]

  49. Patel, N., S. Stenmark-Cox, and R. A. Jensen. 1978. Enzymological basis of reluctant auxotrophy for phenylalanine and tyrosine in Pseudomonas aeruginosa. J Biol Chem 253:2972-2978. [PDF]

  50. Byng, G. S., D. C. Eustice, and R. A. Jensen. 1979. Biosynthesis of phenazine pigments in mutants and wild-type cultures of Pseudomonas aeruginosa. J Bacteriol 138:846-852. [ABSTRACT][PDF]

  51. Fazel, A. M., and R. A. Jensen. 1979. Obligatory biosynthesis of L-tyrosine via the pretyrosine branchlet in coryneform bacteria. J Bacteriol 138:805-815. [ABSTRACT][PDF]

  52. Fazel, A. M., and R. A. Jensen. 1979. Aromatic aminotransferases in coryneform bacteria. J Bacteriol 140:580-587. [ABSTRACT][PDF]

  53. Rubin, J. L., and R. A. Jensen. 1979. The enzymology of L-tyrosine biosynthesis in mung bean (Vigna radiata [L.] Wilczek) Plant Physiol 64:727-734. [ABSTRACT][PDF]

  54. Byng, G. S., R. J. Whitaker, R. L. Gherna, and R. A. Jensen. 1980. Variable enzymological patterning in tyrosine biosynthesis as a means of determining natural relatedness among the Pseudomonadaceae. J Bacteriol 144:247-257. [ABSTRACT][PDF]

  55. Fazel, A. M., J. R. Bowen, and R. A. Jensen. 1980. Arogenate (pretyrosine) is an obligatory intermediate of L-tyrosine biosynthesis:  confirmation in a microbial mutant. Proc Natl Acad Sci USA  (Biochemistry) 77:1270-1273. [ABSTRACT][PDF]

  56. Fazel, A. M., and R. A. Jensen. 1980. Regulation of prephenate dehydratase in coryneform species of bacteria by L-phenylalanine and by remote effectors. Arch Biochem Biophys 200:165-176.

  57. Hall, G., M. B. Flick, and R. A. Jensen. 1980. Approach to recognition of regulatory mutants of cyanobacteria. J Bacteriol 143:981-988. [ABSTRACT][PDF]

  58. Hall, G. C., and R. A. Jensen. 1980. Enzymological basis for growth inhibition by L-phenylalanine in the cyanobacterium Synechocystis sp. 29108. J Bacteriol 144:1034-1042. [ABSTRACT][PDF]

  59. Zamir, L. O., R. A. Jensen, B. Arison, A. Douglas, G. Albers-Schonberg, and J. R. Bowen. 1980. Structure of arogenate (pretyrosine), an amino acid intermediate of aromatic biosynthesis. J Am Chem Soc 102:4499-4504.

  60. Byng, G. S., R. J. Whitaker, C. Flick, and R. A. Jensen. 1981. Enzymology of L-tyrosine biosynthesis in corn (Zea mays). Phytochemistry 20:1289-1292.

  61. Byng, G. S., R. J. Whitaker, C. L. Shapiro, and R. A. Jensen. 1981. The aromatic amino acid pathway branches at L-arogenate in Euglena gracilis. Mol Cell Biol 1:426-438. [ABSTRACT][PDF]

  62. Flick, C. E., R. A. Jensen, and D. A. Evans. 1981. Isolation, protoplast culture, and plant regeneration of PFP-resistant variants of N. tabacum Su/Su. . Z Pflanzenphysiol 103:239-245.

  63. Hall, G. C., and R. A. Jensen. 1981. Regulatory isozymes of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase in the cyanobacterium Anabaena sp. strain ATCC 29151. J Bacteriol 148:361-364.

  64. Hall, G. C., and R. A. Jensen. 1981. Isolation of cyanobacterial auxotrophs by direct selection of regulatory-mutant phenotypes. Curr Microbiol 6:189-194.

  65. Jensen, R. A., and D. H. Calhoun. 1981. Intracellular roles of microbial aminotransferases: overlap enzymes across different biochemical pathways. Crit Rev Microbiol 8:229-266.

  66. Marusich, W. C., L. O. Zamir, and R. A. Jensen. 1981. Induction of L-phenylalanine ammonia-lyase during utilization of phenylalanine as a carbon or nitrogen source in Rhodotorula glutinis. J Bacteriol 146:1013-1019. [ABSTRACT][PDF]

  67. Shapiro, C. L., R. A. Jensen, K. A. Wilson, and J. R. Bowen. 1981. An assay for activity of arogenate dehydratase based upon the selective oxidation of arogenate. Anal Biochem 110:27-30.

  68. Whitaker, R. J., G. S. Byng, R. L. Gherna, and R. A. Jensen. 1981. Comparative allostery of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase as an indicator of taxonomic relatedness in pseudomonad genera. J Bacteriol 145:752-759. [ABSTRACT][PDF]

  69. Whitaker, R. J., G. S. Byng, R. L. Gherna, and R. A. Jensen. 1981. Diverse enzymological patterns of phenylalanine biosynthesis in pseudomonads are conserved in parallel with deoxyribonucleic acid homology groupings. J Bacteriol 147:526-534. [ABSTRACT][PDF][Table 2][Table 3]

  70. Byng, G. S., J. F. Kane, and R. A. Jensen. 1982. Diversity in the routing and regulation of complex biochemical pathways as indicators of microbial relatedness. Crit Rev Microbiol 9:227-252.

  71. Gaines, C. G., G. S. Byng, R. J. Whitaker, and R. A. Jensen. 1982. L-Tyrosine regulation and biosynthesis via arogenate dehydrogenase in suspension-cultured cells of Nicotiana silvestris (Speg. et Comes). Planta 156:233-240.

  72. Hall, G. C., M. B. Flick, R. L. Gherna, and R. A. Jensen. 1982. Biochemical diversity for biosynthesis of aromatic amino acids among the cyanobacteria. J. Bacteriol 149:65-78. [ABSTRACT][PDF]

  73. Jensen, R. A., and G. C. Hall. 1982. Endo-oriented control of pyramidally arranged metabolic branchpoints. Trends Biochem Sciences  7:177-180.

  74. Rubin, J. L., C. G. Gaines, and R. A. Jensen. 1982. Enzymological basis for herbicidal action of glyphosate. Plant Physiol 70:833-839. [ABSTRACT][PDF]

  75. Whitaker, R. J., M. J. Fiske, and R. A. Jensen. 1982. Pseudomonas aeruginosa possesses two novel regulatory isozymes of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase. J Biol Chem 257:12789-12794. [ABSTRACT][PDF]

  76. Whitaker, R. J., C. G. Gaines, and R. A. Jensen. 1982. A multi-specific quintet of aromatic aminotransferases that overlap different biochemical pathways in Pseudomonas aeruginosa. J Biol Chem 257:13550-13556. [ABSTRACT][PDF]

  77. Byng, G. S., A. Berry, and R. A. Jensen. 1983. A pair of regulatory isozymes for 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase is conserved within Group I pseudomonads. J. Bacteriol 156:429-433. [ABSTRACT][PDF]

  78. Byng, G. S., and R. A. Jensen. 1983. Impact of isozymes upon partitioning of carbon flow and regulation of aromatic biosynthesis in prokaryotes, vol. 8. Alan R. Liss, Inc, New York.

  79. Byng, G. S., J. L. Johnson, R. L. Whitaker, R. L. Gherna, and R. A. Jensen. 1983. The evolutionary pattern of aromatic amino acid biosynthesis and the emerging phylogeny of pseudomonad bacteria. J Mol Evol 19:272-282. [ABSTRACT]

  80. Byng, G. S., R. J. Whitaker, and R. A. Jensen. 1983. Evolution of L-phenylalanine biosynthesis in rRNA homology Group I of Pseudomonas. Arch Microbiol.  136:163-168. [ABSTRACT]

  81. Fiske, M. J., R. J. Whitaker, and R. A. Jensen. 1983. Hidden overflow pathway to L-phenylalanine in Pseudomonas aeruginosa. J Bacteriol 154:623-631. [ABSTRACT][PDF]

  82. Hall, G. C., M. B. MB Flick, and R. A. Jensen. 1983. Regulation of the aromatic pathway in the cyanobacterium Synechococcus sp. strain PCC 6301 (Anacystis nidulans). J. Bacteriol. 153:423-428. [ABSTRACT][PDF]

  83. Zamir, L. O., E. Jung, and R. A. Jensen. 1983. Co-accumulation of prephenate, L-arogenate and spiro-arogenate in a mutant of Neurospora. J Biol Chem 258:6492-6496. [ABSTRACT][PDF]

  84. Zamir, L. O., R. Tiberio, and R. A. Jensen. 1983. Differential acid-catalyzed aromatization of prephenate, arogenate, and spiro-arogenate. Tetrahedron Lett 24:2815-2818.

  85. Zamir, L. O., R. Tiberio, E. Jung, and R. A. Jensen. 1983. Isolation and structure determination of a novel spiro-γ-lactam:  spiro-arogenate. J Biol Chem 258:6486-6491.

  86. d'Amato, T. A., R. Ganson, C. G. Gaines, and R. A. Jensen. 1984. Subcellular localization of chorismate-mutase isoenzymes in protoplasts from mesophyll and suspension-cultured cells of Nicotiana silvestris. Planta 162:104-108. [PDF]

  87. Goers, S. K., and R. A. Jensen. 1984. Separation and characterization of two chorismate-mutase isoenzymes from Nicotiana silvestris. Planta 162:109-116. [PDF]

  88. Goers, S. K., and R. A. Jensen. 1984. The differential allosteric regulation of two chorismate-mutase isoenzymes of Nicotiana silvestris. Planta 162:117-124.

  89. Rubin, J. L., C. G. Gaines, and R. A. Jensen. 1984. Glyphosate inhibition of 5-enolpyruvylshikimate 3-phosphate synthase from suspension-cultured cells of Nicotiana silvestris. Plant Physiol 75:839-845. [ABSTRACT][PDF]

  90. Berry, A., G. S. Byng, and R. A. Jensen. 1985. Interconvertible molecular-weight forms of the bifunctional chorismate mutase-prephenate dehydratase from Acinetobacter calcoaceticus. Arch Biochem Biophys 243:470-479. [ABSTRACT]

  91. Berry, A., J. L. Johnson, and R. A. Jensen. 1985. Phenylalanine hydroxylase and isozymes of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase in relationship to the phylogenetic position of Pseudomonas acidovorans (Ps. sp. ATCC 11299a). Arch Microbiol 141:32-39. [ABSTRACT][PDF]

  92. Bonner, C. A., and R. A. Jensen. 1985. Novel features of prephenate aminotransferase from cell cultures of Nicotiana silvestris. Arch Biochem Biophys 238:237-246. [ABSTRACT][PDF]

  93. Byng, G. S., A. Berry, and R. A. Jensen. 1985. Evolutionary implications of features of aromatic amino acid biosynthesis in the genus Acinetobacter. Arch Microbiol 143:122-129. [ABSTRACT][PDF]

  94. Byng, G. S., R. L. Whitaker, and R. A. Jensen. 1985. Glyphosate as a probe of the pentafunctional arom protein of Euglena gracilis. Can J Bot 63:1021-1024.

  95. Jensen, R. A. 1985. Biochemical pathways in prokaryotes can be traced backward through evolutionary time. Mol Biol Evol 2:92-108. [ABSTRACT][PDF]

  96. Rubin, J. L., and R. A. Jensen. 1985. Differentially regulated isozymes of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase from seedlings of Vigna radiata [L.] Wilczek. Plant Physiol 79:711-718. [ABSTRACT][PDF]

  97. Whitaker, R. L., A. Berry, G. S. Byng, M. J. Fiske, and R. A. Jensen. 1985. Clues from Xanthomonas campestris about the evolution of aromatic biosynthesis and its regulation. J Mol Evol 21:139-149. [ABSTRACT][Correction]

  98. Zamir, L. O., R. Tiberio, M. J. Fiske, A. Berry, and R. A. Jensen. 1985. Enzymatic and non-enzymatic dehydration reactions of L-arogenate. Biochemistry 24:1607-1612. [ABSTRACT]

  99. Ahmad, S., and R. A. Jensen. 1986. The evolutionary history of two bifunctional proteins that emerged in the purple bacteria. Trends Biochem Sci 11:108-112. [HTML]

  100. Ahmad, S., B. Rightmire, and R. A. Jensen. 1986. Evolution of the regulatory isozymes of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase present in the Escherichia coli genealogy. J Bacteriol 165:146-154. [ABSTRACT][PDF]

  101. Byng, G. S., A. Berry, and R. A. Jensen. 1986. Evolution of aromatic biosynthesis and fine-tuned phylogenetic positioning of Azomonas, Azotobacter and rRNA Group I pseudomonads. Arch Microbiol 144:222-227. [ABSTRACT]

  102. Fischer, R. S., A. Berry, C. G. Gaines, and R. A. Jensen. 1986. Comparative action of glyphosate as a trigger of energy drain in eubacteria. J Bacteriol 168:1147-1154. [ABSTRACT][PDF]

  103. Ganson, R., T. d'Amato, and R. A. Jensen. 1986. The two-isozyme system of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase in Nicotiana silvestris and other higher plants. Plant and Cell Physiol 82:203-210. [ABSTRACT][PDF]

  104. Jensen, R. A. 1986. Tyrosine and phenylalanine biosynthesis:  relationship between alternative pathways, regulation and subcellular location   ISBN 0-306-42283-2. Rec Adv Phytochem 20:57-82.

  105. Jensen, R. A. 1986. The shikimate/arogenate pathway: link between carbohydrate metabolism and secondary metabolism. Physiol Plant 66:164-168.

  106. Jung, E., L. O. Zamir, and R. A. Jensen. 1986. Chloroplasts of higher plants synthesize L-phenylalanine via L-arogenate. Proc Natl Acad Sci USA 83:7231-7235. [ABSTRACT][PDF]

  107. Ahmad, S., and R. A. Jensen. 1987. Evolution of the biochemical pathway for aromatic amino acid biosynthesis in Serpens flexibilis in relationship to its phylogenetic position. Arch Microbiol 147:8-12. [HTML]

  108. Ahmad, S., and R. A. Jensen. 1987. The prephenate dehydrogenase component of the bifunctional T-protein in enteric bacteria can utilize L-arogenate. FEBS Lett 216:133-139. [ABSTRACT][PDF]

  109. Ahmad, S., and R. A. Jensen. 1987. A simple spectrophotometric assay for arogenate dehydratase. Anal Biochem 163:107-111. [ABSTRACT][PDF]

  110. Ahmad, S., J. L. Johnson, and R. A. Jensen. 1987. The recent evolutionary origin of the phenylalanine-sensitive isozyme of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase in the enteric lineage of bacteria. J Mol Biol 25:159-167. [ABSTRACT]

  111. Berry, A., R. K. Bhatnagar, and R. A. Jensen. 1987. Enzymic basis for leakiness of auxotrophs for phenylalanine in Pseudomonas aeruginosa. J Gen Microbiol 133:3257-3263. [ABSTRACT]

  112. Berry, A., R. A. Jensen, and A. T. Hendry. 1987. Enzymatic arrangement and allosteric regulation of the aromatic amino acid pathway in Neisseria gonorrhoeae. Arch Microbiol 149:87-94. [ABSTRACT][PDF]

  113. Berry, A., A. Liss, and R. A. Jensen. 1987. Enzymological features of aromatic amino acid biosynthesis reflect the phylogeny of mycoplasmas. J Gen Microbiol 133:2147-2154. [ABSTRACT]

  114. Bonner, C. A., and R. A. Jensen. 1987. In: METHODS IN ENZYMOLOGY - Prephenate aminotransferase.  142:479-487.

  115. Bonner, C. A., and R. A. Jensen. 1987. Arogenate dehydrogenase. In:  METHODS IN ENZYMOLOGY - Chapter 58 142:488-494.

  116. Bonner, C. A., and R. A. Jensen. 1987. A selective assay for prephenate aminotransferase activity in suspension-cultured cells of Nicotiana silvestris cells. Planta 172:417-423. [ABSTRACT]

  117. Fischer, R. S., C. G. Gaines, and R. A. Jensen. 1987. Glyphosate sensitivity of 5-enolpyruvylshikimate 3-phosphate synthase from Bacillus subtilis depends upon state of activation induced by monovalent cations. Arch Biochem Biophys 256:325-334.

  118. Fischer, R. S., and R. A. Jensen. 1987. Arogenate dehydratase. METHODS IN ENZYMOLOGY 142:495-502.

  119. Fischer, R. S., and R. A. Jensen. 1987. Prephenate dehydrogenase (monofunctional). In:  METHODS IN ENZYMOLOGY -Chapter 60 142:503-507.

  120. Fischer, R. S., and R. A. Jensen. 1987. Prephenate dehydratase (monofunctional). In:  METHODS IN ENZYMOLOGY - Chapter 61 142:507-512.

  121. Ganson, R., and R. A. Jensen. 1987. Response of cytosolic-isozyme and plastid-isozyme levels of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase to physiological state of Nicotiana silvestris in suspension culture. Plant Physiol 83:479-482. [ABSTRACT][PDF]

  122. Jensen, R. A., and R. S. Fischer. 1987. The postprephenate biochemical pathways to phenylalanine and tyrosine:  An overview, p. 472-478. In S. P. SP Colowick and N. O. Kaplan (ed.), Metabolism of aromatic amino acids and amines - In:  METHODS IN ENZYMOLOGY-Chapter 56, vol. 142. Academic Press, Inc. , Orlando, FL.

  123. Ahmad, S., and R. A. Jensen. 1988. New prospects for deducing the evolutionary history of metabolic pathways in prokaryotes:  Aromatic biosynthesis as a case-in-point. Origins of Life & Evol Biosphere 18:41-57. [ABSTRACT][PDF]

  124. Ahmad, S., and R. A. Jensen. 1988. Phylogenetic distribution of components of the overflow pathway to L-phenylalanine within the enteric lineage of bacteria. Curr Microbiol 16:295-302. [ABSTRACT][PDF]

  125. Ahmad, S., and R. A. Jensen. 1988. The phylogenetic origin of the bifunctional tyrosine-pathway protein in the enteric lineage of bacteria. Mol Biol Evol 5:282-297. [ABSTRACT][PDF]

  126. Ahmad, S., and R. A. Jensen. 1988. The stable evolutionary fixation of a bifunctional tyrosine-pathway protein in enteric bacteria. FEMS Microbiol Lett 52:109-116. [HTML]

  127. Ahmad, S., A.-T. Wilson, and R. A. Jensen. 1988. Chorismate mutase: prephenate dehydratase from Acinetobacter calcoaceticus:  purification, properties and immunological cross-reactivity. Eur J Biochem 176:69-79. [ABSTRACT][PDF]

  128. Berry, A., and R. A. Jensen. 1988. Biochemical evidence for phylogenetic branching patterns:  Biochemical-pathway characteristics can indicate points of divergence among prokaryotes. BioScience 38:99-103.

  129. Bonner, C. A., J. Vrba, and R. A. Jensen. 1988. Response of aromatic-pathway enzymes to changing physiological states of growth in suspension cultures of Nicotiana silvestris. Physiol Plant 73:451-456. [ABSTRACT]

  130. Ganson, R. L., and R. A. Jensen. 1988. The essential role of cobalt in the inhibition of the cytosolic isozyme of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase from Nicotiana silvestris by glyphosate. Arch Biochem Biophys 260:85-93. [ABSTRACT][PDF]

  131. Jensen, R. A., and S. Ahmad. 1988. Evolution and phylogenetic distribution of the specialized isozymes of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase in Superfamily-B prokaryotes. Microbiol Sci 5:316-319. [ABSTRACT]

  132. Jensen, R. A., T. d'Amato, and L. I. Hochstein. 1988. An extreme-halophile archaebacterium possesses the interlock type of prephenate dehydratase characteristic of the Gram-positive eubacteria. Arch Microbiol 149:365-371. [ABSTRACT][PDF]

  133. Zamir, L. O., R. Tiberio, K. A. Devor, F. Sauriol, and R. A. Jensen. 1988. Structure of D-prephenyllactate:  a carboxycyclohexadienyl metabolite from Neurospora crassa. J Biol Chem 263:17284-17290. [ABSTRACT][PDF]

  134. Ahmad, S., and R. A. Jensen. 1989. The stable phylogenetic distribution of the recently evolved L-phenylalanine-inhibited isozyme of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase in enteric bacteria. Curr Microbiol 18:341-349. [PDF]

  135. Ahmad, S., and R. A. Jensen. 1989. Utility of a bifunctional tryptophan pathway enzyme for the classification of the Herbicola-Agglomerans complex of bacteria. Inter J Syst Bacteriol 39:100-104. [ABSTRACT]

  136. Bhatnagar, R. K., A. Berry, A. T. Hendry, and R. A. Jensen. 1989. The biochemical basis for growth inhibition by L-phenylalanine in Neisseria gonorrhoeae. Mol Microbiol 3:429-436. [ABSTRACT]

  137. Bhatnagar, R. K., A. T. Hendry, K. T. Shanmugam, and R. A. Jensen. 1989. The broad-specificity, membrane-bound lactate dehydrogenase of Neisseria gonorrhoeae:  Ties to aromatic metabolism. J Gen Microbiol 135:353-360. [ABSTRACT]

  138. Jensen, R. A., P. F. Morris, C. A. Bonner, and L. O. Zamir. 1989. Biochemical interface between aromatic amino acid biosynthesis and secondary metabolism, p. 89-107. In N. Lewis and M. Paice (ed.), Plant Cell Wall Polymers Biogenesis and Biodegradation, vol. 399.

  139. Morris, P. F., C. A. Bonner, R.-L. Doong, P. S. Subramaniam, R. S. Fischer, and R. A. Jensen. 1989. Mechanical wounding induces the entire primary pathway of aromatic amino acid biosynthesis  (Life Sci. Advances)  (Series B). Plant Physiol 8:35-39.

  140. Morris, P. F., R.-L. Doong, and R. A. Jensen. 1989. Evidence from Solanum tuberosum in support of the dual-pathway hypothesis of aromatic biosynthesis. Plant Physiol 89:10-14. [ABSTRACT][PDF]

  141. Ahmad, S., W. G. Weisburg, and R. A. Jensen. 1990. Evolution of aromatic amino acid biosynthesis and application to the fine-tuned phylogenetic positioning of enteric bacteria. J Bacteriol 172:1051-1061. [ABSTRACT][PDF]

  142. Bonner, C. A., R. S. Fischer, S. Ahmad, and R. A. Jensen. 1990. Remnants of an ancient pathway to L-phenylalanine and L-tyrosine in enteric bacteria:  evolutionary implications and biotechnological impact. Appl Environ Microbiol 56:3741-3747. [ABSTRACT][PDF]

  143. Hendry, A. T., R. K. Bhatnagar, K. T. Shanmugam, and R. A. Jensen. 1990. Exploitation of the broad specificity of the membrane-bound isozyme of lactate dehydrogenase for direct selection of null mutants in Neisseria gonorrhoeae. J Gen Microbiol 136:45-50. [ABSTRACT]

  144. Hrazdina, G., and R. A. Jensen. 1990. Multiple parallel pathways in plant aromatic metabolism?, p. 27-42. In P. A. Srere, M. E. Jones, and C. Mathews (ed.), Plant Cell Wall Polymers Biogenesis and Biodegradation, vol. 133, Wiley-Liss, NY.

  145. Jensen, R. A., and S. Ahmad. 1990. Nested gene fusions as markers of phylogenetic branchpoints in prokaryotes. Trends Ecol Evol 5:219-224. [HTML]

  146. Xia, T., and R. A. Jensen. 1990. A single cyclohexadienyl dehydrogenase specifies the prephenate dehydrogenase and arogenate dehydrogenase components of the dual pathways to L-tyrosine in Pseudomonas aeruginosa. J Biol Chem 265:20033-20036. [ABSTRACT][PDF]

  147. Bonner, C. A., and R. A. Jensen. 1991. Response of arogenate dehydratase to changing physiological states of growth in suspension cultures of Nicotiana silvestris. Plant Science 74:229-234. [HTML]

  148. Doong, R.-L., S. Ahmad, and R. A. Jensen. 1991. Higher plants express 3-deoxy-D-manno-octulosonate   8-phosphate synthase. Plant Cell & Envir 14:113-120. [HTML]

  149. Fischer, R. S., G. Zhao, and R. A. Jensen. 1991. Cloning, sequencing, and expression of the P-protein gene (pheA) of Pseudomonas stutzeri in Escherichia coli:  implications for evolutionary relationships in phenylalanine biosynthesis. J Gen Microbiol 137:1293-1301. [ABSTRACT]

  150. Xia, T., S. Ahmad, G. Zhao, and R. A. Jensen. 1991. A single cyclohexadienyl dehydratase specifies the prephenate dehydratase and arogenate dehydratase components of one of two independent pathways to L-phenylalanine in Erwinia herbicola. Arch Biochem Biophys 286:461-465. [ABSTRACT]

  151. Zamir, L. O., K. A. Devor, R. A. Jensen, R. Tiberio, F. Sauriol, and O. Mamer. 1991. Biosynthesis of isochorismate in Klebsiella pneumoniae:  origin of 0-2. Can J Microbiol 37:276-280. [ABSTRACT]

  152. Doong, R.-L., J. E. Gander, R. J. Ganson, and R. A. Jensen. 1992. The cytosolic isoenzyme of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase in Spinacia oleracea and other higher plants:  extreme substrate ambiguity and other properties. Physiol Plant 84:351-360. [ABSTRACT]

  153. Doong, R.-L., and R. A. Jensen. 1992. Synonymy of the three apparent isoenzymes of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase in Pisum sativum L. with 3-deoxy-D-manno-octulosonate 8-phosphate synthase and the DS-Co/DS Mn isoenzyme pair. The New Phytologist 121:165-171. [ABSTRACT]

  154. Hrazdina, G., and R. A. Jensen. 1992. Spatial organization of enzymes in plant metabolic pathways. Annu Rev Plant Physiol  Plant Mol Biol 43:241-267. [PDF]

  155. Jensen, R. A. 1992. An emerging outline of the evolutionary history of aromatic amino acid biosynthesis, p. 205-236. In R. P. Mortlock (ed.), The Evolution of Metabolic Function, vol. Chapter 9. CRC Press, Inc, Boca Raton, FL.

  156. Xia, T., and R. A. Jensen. 1992. Monofunctional chorismate mutase from Serratia rubidaea:  a paradigm system for the three-isozyme gene family of enteric bacteria. Arch Biochem Biophys 294:147-153. [ABSTRACT]

  157. Xia, T., G. Zhao, R. Fischer, and R. A. Jensen. 1992. A monofunctional prephenate dehydrogenase created by cleavage of the 5' 109-bp of the tyrA gene from Erwinia herbicola. J Gen Microbiol 138:1309-1316. [ABSTRACT]

  158. Xia, T., G. Zhao, and R. A. Jensen. 1992. Loss of allosteric control but retention of the bifunctional catalytic competence of a fusion protein formed by excision of 260 base pairs from the 3' terminus of pheA from Erwinia herbicola. Appl Environ Microbiol 58:2792-2798. [ABSTRACT][PDF]

  159. Zhao, G. S., T. H. Xia, R. S. Fischer, and R. A. Jensen. 1992. Cyclohexadienyl dehydratase from Pseudomonas aeruginosa. Molecular cloning of the gene and characterization of the gene product. J Biol Chem 267:2487-93. [ABSTRACT][PDF]

  160. Doong, R.-L., R. Ganson, and R. A. Jensen. 1993. Plastid-localized 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase (DS-Mn):  the early-pathway target of sequential feedback inhibition in higher plants. Plant, Cell & Envir 16:393-402. [HTML]

  161. Fischer, B., C. A. Bonner, D. R. Boone, and R. A. Jensen. 1993. Clues from a halophilic methanogen about aromatic amino acid biosynthesis in archaebacteria. Arch Microbiol 160:440-446. [ABSTRACT][PDF]

  162. Fischer, R. S., C. A. Bonner, M. E. Theodorou, W. C. Plaxton, G. Hrazdina, and R. A. Jensen. 1993. Response of aromatic pathway enzymes of plant suspension cells to phosphate limitation. Bioorg & Med Chem Lett 7:1415-1420. [HTML]

  163. Obmolova, G., A. Teplyakov, T. Xia, and R. Jensen. 1993. Preliminary crystallographic study of cyclohexadienyl dehydratase from Pseudomonas aeruginosa. J Mol Biol 232:992-994. [ABSTRACT][PDF]

  164. Xia, T., J. Song, G. Zhao, and R. A. Jensen. 1993. The aroQ-encoded monofunctional chorismate mutase (CM-F) protein is a periplasmic enzyme in Erwinia herbicola. J Bacteriol 175:4729-4737. [ABSTRACT][PDF]

  165. Xia, T., G. Zhao, and R. A. Jensen. 1993. The pheA/tyrA/aroF region from Erwinia herbicola:  An emerging comparative basis for analysis of gene organization and regulation in enteric bacteria. J Mol Evol 36:107-120. [ABSTRACT]

  166. Zamir, L. O., A. Nikolakakis, C. A. Bonner, and R. A. Jensen. 1993. Evidence for enzymatic formation of isoprephenate from isochorismate. Bioorg & Med Chem Lett 7:1441-1446. [HTML]

  167. Zhao, G., T. Xia, H. Aldrich, and R. A. Jensen. 1993. Cyclohexadienyl dehydratase from Pseudomonas aeruginosa is a periplasmic protein. J Gen Microbiol 139:807-813. [ABSTRACT]

  168. Zhao, G., T. Xia, L. O. Ingram, and R. A. Jensen. 1993. An allosterically insensitive class of cyclohexadienyl dehydrogenase from Zymomonas mobilis. Eur J Biochem 212:157-165. [ABSTRACT]

  169. Bonner, C. A., and R. A. Jensen. 1994. Cloning of cDNA encoding the bifunctional dehydroquinase:shikimate dehydrogenase of aromatic amino acid biosynthesis in Nicotiana tabacum. Biochem J 302:11-14. [ABSTRACT][PDF]

  170. Gu, W., G. Zhao, C. Eddy, and R. A. Jensen. 1994. Imidazole acetol phosphate aminotransferase in Zymomonas mobilis:  molecular-genetic, biochemical and evolutionary analyses. J Bacteriol 177:1576-1584. [ABSTRACT][PDF]

  171. Subramaniam, P. S., R. K. Bhatnagar, A. Hooper, and R. A. Jensen. 1994. The dynamic progression of evolved character states for aromatic amino acid biosynthesis in gram-negative bacteria. Microbiology 140:3431-3440. [ABSTRACT][PDF]

  172. Zhao, G., T. Xia, J. Song, and R. A. Jensen. 1994. Pseudomonas aeruginosa possesses homologues of mammalian phenylalanine hydroxylase and 4a-carbinolamine dehydratase/DCoH as part of a three-component gene cluster. Proc Natl Acad Sci USA 91:1366-1370. [ABSTRACT][PDF]

  173. Abou-Zeid, A., G. J. W. Euverink, G. I. Hessels, and R. A. Jensen. 1995. Biosynthesis of L-phenylalanine and L-tyrosine in the actinomycete Amycolatopsis methanolica. Appl & Environ Microbiol 61:1298-1302. [ABSTRACT][PDF]

  174. Bonner, C. A., R. S. Fischer, R. R. Schmidt, P. W. Miller, and R. A. Jensen. 1995. Distinctive enzymes of aromatic amino acid biosynthesis that are highly conserved in land plants are also present in the chlorophyte alga Chlorella sorokiniana. Plant and Cell Physiol 36:1013-1022. [ABSTRACT][PDF]

  175. Jensen, R. A. 1996. Evolution of metabolic pathways in enterics, p. 2649-2662. In F. C. Neidhardt (ed.), Escherichia coli and Salmonella typhimurium. ASM Publications.

  176. Jensen, R. A., and W. Gu. 1996. Evolutionary recruitment of biochemically specialized subdivisions of Family-I within the protein superfamily of aminotransferases. J. Bacteriol 178:2161-2171. [PDF]

  177. Song, J., and R. A. Jensen. 1996. PhhR, a divergently transcribed activator of the phenylalanine hydroxylase gene cluster of Pseudomonas aeruginosa. Mol Microbiol 22:497-507. [ABSTRACT][PDF]

  178. Fischer, R. S., J. Song, W. Gu, and R. A. Jensen. 1997. L-Arogenate is a chemoattractant which can be utilized as the sole source of carbon and nitrogen by Pseudomonas aeruginosa. Appl Environ Microbiol 63:567-573. [PDF]

  179. Gu, W., D. S. Williams, H. C. Aldrich, G. Xie, D. W. Gabriel, and R. A. Jensen. 1997. The aroQ and pheA domains of the bifunctional P-protein from Xanthomonas campestris in a context of genomic comparison. Microb Comp Genomics 2:141-158. [ABSTRACT][PDF]

  180. Rebrin, I., J. E. Ayling, J. Song, and R. A. Jensen. 1997. Mechanistic studies of 4a-hydroxytetrahydropterin dehydratase from Pseudomonas aeruginosa. (Proceedings of the 11th International Symposium). Eds. W. Pfleiderer and H. Rokos. Blackwell Science, Berlin pp. 631-634 (1997). [PDF]

  181. Bonner, C. A., and R. A. Jensen. 1998. Upstream metabolic segments that support lignin biosynthesis, p. 29-41. In N. G. Lewis and S. Sarkanen (ed.), Lignin and Lignan Biosynthesis. ACS Symposium Series 399. [PDF]

  182. Song, J., G. Xie, P. K. Elf, K. D. Young, and Roy A. Jensen. 1998. Comparative analysis of Pseudomonas aeruginosa penicillin-binding protein 7 in the context of its membership in the family of low-molecular-mass PBPs. Microbiology 144:975-983.[ABSTRACT][PDF]

  183. Gu, W., J. Song, C. A. Bonner, G. Xie, and R. A. Jensen. 1998. PhhC is an essential aminotransferase for aromatic amino acid catabolism in Pseudomonas aeruginosa. Microbiology 144 ( Pt 11):3127-34. [PDF]

  184. Subramaniam, P. S., G. Xie, T. Xia, and R. A. Jensen. 1998. Substrate ambiguity of 3-deoxy-D-manno-octulosonate 8-phosphate synthase from Neisseria gonorrhoeae in the context of its membership in a protein family containing a subset of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthases. J Bacteriol 180:119-127. [HTML][PDF]

  185. Kongsaeree, P., J. Liang, R. A. Jensen, and J. Clardy. 1999. Crystallization and preliminary X-ray crystallographic analysis of the Pseudomonas aeruginosa cyclohexadienyl dehydratase. Acta Crystallogr D Biol Crystallogr 55 ( Pt 2):539-141. [PDF]

  186. Song, J., T. Xia, and R. A. Jensen. 1999. PhhB, a Pseudomonas aeruginosa homolog of mammalian pterin 4a-carbinolamine dehydratase/DCoH, does not regulate expression of phenylalanine hydroxylase at the transcriptional level. J Bacteriol 181:2789-2796. [PDF]

  187. Xie, G., C. A. Bonner, and R. A. Jensen. 1999. A probable mixed-function supraoperon in Pseudomonas exhibits gene organization features of both intergenomic conservation and gene shuffling. J Mol Evol 49:108-21. [ABSTRACT][PDF][Erratum][Notes]

  188. Xie, G., T. S. Brettin, C. A. Bonner, and R. A. Jensen. 1999. Mixed-function supraoperons that exhibit overall conservation, albeit shuffled gene organization, across wide intergenomic distances within eubacteria. Microb Comp Genomics 4:5-28. [ABSTRACT][PDF][Notes]

  189. Ossipov, V., C. A. Bonner, S. Ossipov, and R. A. Jensen. 2000. Broad-specificity quinate (shikimate) dehydrogenase from Pinus taeda needles. Plant Physiol & Biochem 38:923-928. [HTML]

  190. Xie, G., C. A. Bonner, and R. A. Jensen. 2000. Cyclohexadienyl dehydrogenase from Pseudomonas stutzeri exemplifies a widespread type of tyrosine-pathway dehydrogenase in the TyrA protein family. Comp Biochem Physiol C Toxicol Pharmacol 125:65-83. [PDF]

  191. Calhoun, D. H., C. A. Bonner, W. Gu, G. Xie, and R. A. Jensen. 2001. The emerging periplasm-localized subclass of AroQ chorismate mutases, exemplified by those from Salmonella typhimurium and Pseudomonas aeruginosa. Genome Biol 2:RESEARCH0030.1-0030.16. [HTML][PDF]

  192. Gosset G, C. A. Bonner, and R. A. Jensen. 2001. Microbial origin of plant-type 2-keto-3-deoxy-D-arabino-heptulosonate 7-phosphate synthases, exemplified by the chorismate- and tryptophan-regulated enzyme from Xanthomonas campestris. J Bacteriol 183:4061-4070. [HTML][PDF]

  193. Jensen, R. 2001. Orthologs and paralogs -- we need to get it right. Genome Biol 2:interactions1002.1-1002.3. [PDF]

  194. Jensen, R. A., G. Xie, D. H. Calhoun, and C. A. Bonner. 2002. The correct phylogenetic relationship of KdsA (3-deoxy-D-manno-octulosonate 8-phosphate synthase) with one of two independently evolved classes of AroA (3-deoxy-D-arabino-heptulosonate 7-phosphate synthase). J Mol Evol 54:416-23. [PDF]

  195. Xie, G., C. A. Bonner, and R. A. Jensen. 2002. Dynamic diversity of the tryptophan pathway in chlamydiae: reductive evolution and a novel operon for tryptophan recapture. Genome Biol 3:research0051.1-0051.17. [PDF]

  196. Xie, G., C. Forst, C. A. Bonner, and R. A. Jensen. 2002. Significance of two distinct types of tryptophan synthase beta chain in Bacteria, Archaea and higher plants. Genome Biol 3:RESEARCH0004.1-0004.13. [HTML][PDF][Replacement for Fig. 6]

  197. Xie G, N. O. Keyhani, C. A. Bonner, and R. A. Jensen. 2003. Ancient origin of the tryptophan operon and the subsequent dynamics of evolutionary change. Microbiol Mol Biol Rev 67:303-342. [HTML][PDF][Corrected version of Fig. 9][Colored version of Fig. 10][Corrected version of Fig. 12]

  198. Xie, G., C. A. Bonner, T. Brettin, R. Gottardo, N. O. Keyhani, and R. A. Jensen. 2003. Lateral gene transfer and ancient paralogy of operons containing redundant copies of tryptophan-pathway genes in Xylella species and in heterocystous cyanobacteria. Genome Biol 4:R14. [PDF]

  199. Bonner CA, R. A. Jensen, J. E. Gander, and N. O. Keyhani. 2004. A core catalytic domain of the TyrA protein family: arogenate dehydrogenase from Synechocystis. Biochem J 382:279-291. [PDF][Correction to Fig. 7]

  200. Xie G, C. A. Bonner, J. Song, N. O. Keyhani, and R. A. Jensen. 2004. Inter-genomic displacement via lateral gene transfer of bacterial trp operons in an overall context of vertical genealogy. BMC Biology 2:15. [HTML][PDF][Supplementary Table]

  201. Gutierrez-Preciado, A., R. A. Jensen, C. Yanofsky, and E. Merino. 2005. New insights into regulation of the tryptophan biosynthetic operon in Gram-positive bacteria. Trends Gen 21:432-436. [ABSTRACT][PDF]

  202. Overbeek, R., T. Begley, R. M. Butler, J. V. Choudhuri, H.-Y. Chuang, M. Cohoon, V. de Crecy-Lagard, N. Diaz, T. Disz, R. Edwards, M. Fonstein, E. D. Frank, S. Gerdes, E. M. Glass, A. Goesmann, A. Hanson, D. Iwata-Reuyl, R. Jensen, N. Jamshidi, L. Krause, M. Kubal, N. Larsen, B. Linke, A. C. McHardy, F. Meyer, H. Neuweger, G. Olsen, R. Olson, A. Osterman, V. Portnoy, G. D. Pusch, D. A. Rodionov, C. Ruckert, J. Steiner, R. Stevens, I. Thiele, O. Vassieva, Y. Ye, O. Zagnitko, and V. Vonstein. 2005. The Subsystems Approach to Genome Annotation and its Use in the Project to Annotate 1000 Genomes. Nucl. Acids Res. R10.1093/nar/gki866 33:5691-5702. [HTML][PDF]

  203. Song, J., C. A. Bonner, M. Wolinsky, and R. A. Jensen. 2005. The TyrA family of aromatic-pathway dehydrogenases in phylogenetic context.    BMC Biology  3:13. [HTML][PDF][Table of Contents][Replacement for Fig. 2]

  204. Bonner, C. A., T. Disz, K. Hwang, J. Song, V. Vonstein, R. Overbeek, and R. A. Jensen 2008. Cohesion Group Approach for Evolutionary Analysis of TyrA, a Protein Family with Wide-Ranging Substrate Specificities.    Microbiol Mol Biol Rev  72(1):13-53. [HTML][PDF]

  205. Merino, E., R. A. Jensen, and C. Yanofsky. 2008. Evolution of bacterial trp operons and their regulation.     Curr Opin Microbiol 11:78-86. [HTML][PDF]
  206. Lo, C-C., C. A. Bonner, G. Xie, D'Souza, M., and R. A. Jensen. 2009. Cohesion group approach for evolutionary analysis of aspartokinase, an enzyme that feeds a branched network of many biochemical pathways.    MMBR  73(4):594-651. [HTML][PDF]
  207. Stöveken, N., M. Pittelkow, T. Sinner, R. A. Jensen, J. Heider, and E., Bremer. 2011. A specialized aspartokinase enhances the biosynthesis of the osmoprotectants ectoine and hydroxyectoine in Pseudomonas stutzeri A1501.     J. Bacteriol.  193(17):4456-4468. [HTML][PDF]
  208. Chien-Chi Lo, Gary Xie, Carol A. Bonner and Roy A. Jensen. 2012. The alternative translational profile that underlies the immune-evasive state of persistence in Chlamydiaceae exploits differential tryptophan contents of the protein repertoire. Microbiology and molecular biology reviews MMBR 76(2): 405-43.[HTML][PDF][Suppl Materials]
  209. C. A. Bonner, G. I. Byrne and R. A. Jensen. 2014. Chlamydia exploit the mammalian tryptophan-depletion defense strategy as a counter-defensive cue to trigger a survival state of persistence. Frontiers in cellular and infection microbiology 4:17. [HTML][PDF][Topical Outline]
  210. F. Xia, C. A. Bonner, R. A. Jensen. 2018. A model system of gene-enzyme nomenclature in the genome era applied to aromatic biosynthesis. PeerJ PrePrints 6:e26855v1 [HTML][PDF][Figure 1][Figure 2][Figure 3]