Publications
Journal articles:
92. Forche A, Alby K, Schaefer D, Johnson AD, Berman J, Bennett RJ. (2008) The Parasexual Cycle in Candida albicans Provides an Alternative Pathway to Meiosis for the Formation of Recombinant Strains. PLoS Biol 6(6):e110 18462019
91. Tuch BB, Li H, Johnson AD. (2008) Evolution of eukaryotic transcription circuits. Science 319(5871):1797-1799 18369141
90. Tuch BB, Galgoczy DJ, Hernday AD, Li H, Johnson AD. (2008) The evolution of combinatorial gene regulation in fungi. PLoS Biol 6(2):e38 18303948
89. Lohse MB, Johnson AD. (2008) Differential phagocytosis of white versus opaque Candida albicans by Drosophila and mouse phagocytes. PLoS ONE 3(1):e1473 18213381
88. Zordan RE, Miller MG, Galgoczy DJ, Tuch BB, Johnson AD. (2007) Interlocking transcriptional feedback loops control white-opaque switching in Candida albicans. PLoS Biol 5(10):e256 17880264
87. Noble SM, Johnson AD. (2007) Genetics of Candida albicans, a diploid human fungal pathogen. Annu Rev Genet 41:193-211 17614788
86. Mitrovich QM, Tuch BB, Guthrie C, Johnson AD. (2007) Computational and experimental approaches double the number of known introns in the pathogenic yeast Candida albicans. Genome Res 17(4):492-502. 17351132
85. Tsong AE, Tuch BB, Li H, Johnson AD. (2006) Evolution of alternative transcriptional circuits with identical logic. Nature 443(7110):415-420. 17006507
84. Zordan RE, Galgoczy DJ, Johnson AD. (2006) Epigenetic properties of white-opaque switching in Candida albicans are based on a self-sustaining transcriptional feedback loop. Proc Natl Acad Sci U S A 103(34):12807-12. 16899543
83. Stroschein-Stevenson, S.L., Foley, E., O'Farrell, P.H., Johnson, A.D. (2006) Identification of Drosophila gene products required for phagocytosis of Candida albicans. PLoS Biol 4(1):e4 16336044
82. Bennett RJ, Johnson AD. (2006) The role of nutrient regulation and the Gpa2 protein in the mating pheromone response of C. albicans. Mol Microbiol. 62(1):100-19. 16987174
81. Braun, B.R., van Het Hoog, M., d'Enfert, C., Martchenko, M., Dungan, J., Kuo, A., Inglis, D.O., Uhl, M.A., Hogues, H., Berriman, M., Lorenz, M., Levitin, A., Oberholzer, U., Bachewich, C., Harcus, D., Marcil, A., Dignard, D., Iouk, T., Zito, R., Frangeul, L., Tekaia, F., Rutherford, K., Wang, E., Munro, C.A., Bates, S., Gow, N.A., Hoyer, L.L., Kohler, G., Morschhauser, J., Newport, G., Znaidi, S., Raymond, M., Turcotte, B., Sherlock, G., Costanzo, M., Ihmels, J., Berman, J., Sanglard, D., Agabian, N., Mitchell, A.P., Johnson, A.D., Whiteway, M., Nantel, A. (2005) A human-curated annotation of the Candida albicans genome. PLoS Genet 1(1):36-57. 16103911
80. Hromatka, B.S., Noble, S.M., Johnson, A.D. (2005) Transcriptional response of Candida albicans to nitric oxide and the role of the YHB1 gene in nitrosative stress and virulence. Mol Biol Cell 16(10):4814-26. 16030247
79. Bennett, R.J., Johnson, A.D. (2005) Mating in Candida albicans and the search for a sexual cycle. Annu Rev Microbiol 59:233-55. 15910278
78. Kadosh, D., Johnson, A.D. (2005) Induction of the Candida albicans filamentous growth program by relief of transcriptional repression: a genome-wide analysis. Mol Biol Cell 16(6):2903-12. 15814840
77. Green, S.R., Johnson, A.D. (2005) Genome-wide analysis of the functions of a conserved surface on the corepressor Tup1. Mol Biol Cell 16(6):2605-13. 15788561
76. Noble, S.M., Johnson, A.D. (2005) Strains and strategies for large-scale gene deletion studies of the diploid human fungal pathogen Candida albicans. Eukaryot Cell 4(2):298-309. 15701792
75. Bennett, R.J., Miller, M.G., Chua, P.R., Maxon, M.E., Johnson, A.D. (2005) Nuclear fusion occurs during mating in Candida albicans and is dependent on the KAR3 gene. Mol Microbiol 55(4):1046-59. 15686553
74. Galgoczy, D.J., Cassidy-Stone, A., Llinas, M., O'Rourke, S.M., Herskowitz, I., DeRisi, J.L., Johnson, A.D. (2004) Genomic dissection of the cell-type-specification circuit in Saccharomyces cerevisiae. Proc Natl Acad Sci U S A 101(52):18069-74. 15604142
73. Green, S.R., Johnson, A.D. (2004) Promoter-dependent roles for the Srb10 cyclin-dependent kinase and the Hda1 deacetylase in Tup1-mediated repression in Saccharomyces cerevisiae. Mol Biol Cell 15(9):4191-202. 15240822
72. Tsong, A.E., Miller, M.G., Raisner, R.M., Johnson, A.D. (2003) Evolution of a combinatorial transcriptional circuit: a case study in yeasts. Cell 115(4):389-99. 14622594
71. Bennett, R.J., Uhl, M.A., Miller, M.G., Johnson, A.D. (2003) Identification and characterization of a Candida albicans mating pheromone. Mol Cell Biol 23(22):8189-201. 14585977
70. Uhl, M.A., Biery, M., Craig, N., and Johnson, A.D. (2003) Haploinsufficiency-based large-scale forward genetic analysis of filamentous growth in the diploid human fungal pathogen C. albicans. EMBO J 22: 2668-2678. 12773383
69. Bennett, R.J., and Johnson, A.D. (2003) Completion of a parasexual cycle in Candida albicans by induced chromosome loss in tetraploid strains. EMBO J 22: 2505-2515. 12743044
68. Simic, R., Lindstrom, D.L., Tran, H.G., Roinick, K.L., Costa, P.J., Johnson, A.D., Hartzog, G.A., and Arndt, K.M. (2003) Chromatin remodeling protein Chd1 interacts with transcription elongation factors and localizes to transcribed genes. EMBO J 22: 1-11. 12682017
67. Inglis, D.O., and Johnson, A.D. (2002) Ash1 protein, an asymmetrically localized transcriptional regulator, controls filamentous growth and virulence of Candida albicans. Mol Cell Biol 22: 8669-8680. 12446785
66. Lockhart, S.R., Pujol, C., Daniels, K.J., Miller, M.G., Johnson, A.D., Pfaller, M.A., and Soll, D.R. (2002) In Candida albicans, white-opaque switchers are homozygous for mating type. Genetics 162:737-745. 12399384
64. Braun, B.R., Kadosh, D., and Johnson, A.D. (2001). NRG1, a repressor of filamentous growth in C. albicans, is down-regulated during filament induction. EMBO J 20: 4753-4761. 11532939
65. Miller, M.G., and Johnson, A.D. (2002) White-opaque switching in Candida albicans is controlled by mating-type (MTL) locus homeodomain proteins and allows efficient mating. Cell 110: 293-302. 12176317
63. Uhl, M.A., and Johnson, A.D. (2001) Development of Streptococcus thermophilus lacZ as a reporter gene for Candida albicans. Microbiology 147: 1189-1195. 11320122
62. Kadosh, D., and Johnson, A.D. (2001) Rfg1, a homolog of the S. cerevisiae hypoxic regulator Rox1, controls filamentous growth and virulence in C. albicans. Mol Cell Biol 21: 2496-2505. 11259598
61. Braun, B.R., Head S.W., Wang, M.S., and Johnson, A.D. (2000). Identification and characterization of TUP1 – regulated genes in Candida albicans. Genetics 156: 31-44. 10978273
60. Smith, R.L. and Johnson, A.D. (2000). Turning genes off by Ssn6-Tup1: a conserved system of transcriptional repression in eukaryotes. TIBS 25: 325-329. 10871883
59. Hull, C.M, Raisner, R.M., and Johnson, A.D. (2000). Evidence for mating of the "asexual" yeast Candida albicans in a mammalian host. Science 289:307-310. 10894780
58. Sprague, E.R., Redd, J.M., Johnson, A.D. and Wolberger, C. (2000) Structure of the C-terminal domain of Tup1, a corepressor of transcription in yeast. EMBO J. 19:3016-3027. 10856245
57. Braun, B.R. and Johnson, A.D. (2000). TUP1, CPH1 and EFG1 make independent contributions to filamentation Candida albicans. Genetics 155:57-67. 10790384
56. Tran, H.G., Steger, D.J. Iyer, V.R. and Johnson, A.D. (2000). The chromo domain protein Chd1p from budding yeast is a chromatin remodeling factor. EMBO J. 19:2323-2331. 10811623
55. Smith, RL., and Johnson, A.D. (2000). A sequence resembling a peroxisomal targeting sequence directs the interaction between the tetratricopeptide repeats of Ssn6 and the homeodomain of alpha 2. Proc. Natl. Acad. Sci. USA 97:3901-3906. 10759558
54. Hull, C.M., and Johnson, A.D. (1999). Identification of a mating type-like locus in the asexual pathogenic yeast Candida albicans. Science 285:1271-1275. 10455055
53. Perez-Martin, J., Uria, J.A., and Johnson, A.D. (1999). Phenotypic switching in Candida albicans is controlled by a SIR2 gene. EMBO J. 18:2580-2592. 10228170
52. Straight, A.F., Shou, W., Dowd, G.J., Turck, C.W., Deshaies, R.J., Johnson, A.D., and Moazed, D. (1999). Net1, a Sir2-associated nucleolar protein required for rDNA silencing and nucleolar integrity. Cell 97:245-256. 10219245
51. Stark, M.R., Escher, D., and Johnson, A.D. (1999). A trans-acting peptide activates the yeast a1 repressor by raising its DNA-binding affinity. EMBO J. 18:1621-1629. 10075932
50. Pérez-Martín, J. and Johnson, A.D. (1998). The C-terminal domain of Sin1 interacts with the SWI/SNF complex in yeast. Mol. Cell. Biol. 18:4157-4164. 9632800
49. Pérez-Martín, J. and Johnson, A.D. (1998). Mutations in chromatin components suppress a defect of GCN5 protein in Saccharomyces cerevisiae. Mol. Cell. Biol. 18:1049-1054. 9448002
48. Wahi, M., Komachi,. K., and Johnson, A.D. (1998). Gene regulation by the yeast Ssn6-Tup1 corepressor. Cold Spring Harbor Symposia on Quantitative Biology 63:447-457. 10384309
47. Komachi, K. and Johnson, A.D. (1997). Residues in the WD repeats of Tup1 required for interaction with a2. Mol. Cell. Biol. 17:6023-6028. 9315661
46. Braun, B.R. and Johnson, A.D. (1997). Control of filament formation in Candida albicans by the transcriptional repressor TUP1. Science 277:105-109. 9204892
45. Redd, M.J., Arnaud, M.B. and Johnson A.D. (1997). A complex composed of Tup1 and Ssn6 represses transcription in vitro. J. Biol. Chem. 272:11193-11197. 9111019
44. Moazed, D., Kistler, A., Axelrod, A., Rine, J. and Johnson, A.D. (1997). Silent information regulator protein complexes in Saccharomyces cerevisiae: A SIR2/SIR4 complex and evidence for a regulatory domain in SIR4 that inhibits its interaction with SIR3. Proc. Natl. Acad. Sci. USA 94:2186-2191. 9122169
43. Moazed, D. and Johnson, A.D. (1996). A deubiquitinating enzyme interacts with SIR4 and regulates silencing in S. cerevisiae. Cell 86:667-677. 8752220
42. Redd, M.J., Stark, M.R. and Johnson, A.D. (1996). Accessibility of a2-repressed promoters to the activator Gal4. Mol. Cell. Biol. 16:2865-2869. 8649396
41. Smith, R.L., Redd, M.J. and Johnson, A.D. (1995). The tetratricopeptide repeats of Ssn6 interact with the homeodomain of a2. Genes Dev. 9:2903-2910. 7498787
40. Johnson, A.D. (1995). Molecular mechanisms of cell-type determination in budding yeast. Curr. Op. Genetics & Development 5:552-558. 8664541
39. Li, T., Stark, M.R., Johnson, A.D. and Wolberger, C. (1995). Crystal structure of the MATa1/MATa2
homeodomain heterodimer bound to DNA. Science 270:262-269. 7569974
38. Johnson, A.D. (1995). The price of repression. Cell 81:655-658. 7774005
37. Forbes, D. and Johnson, A.D. (1995). Nucleus and Gene Expression. Editorial Overview, Current Opinion in Cell Biology 7:299-300. 7662357
36. Smith, D.L., Desai, A.B., and Johnson, A.D. (1995). DNA bending by the a1 and a2 homeodomain proteins from yeast. Nuc. Acids Res., 23:1239-1243. 7739902
35. Li, T., Stark, M.R., Johnson, A.D., and Wolberger, C. (1995). Crystallization and preliminary x-ray diffraction studies of an a1/a2/DNA ternary complex. Proteins 21:161-4. 7777491
34. Wahi, M. and Johnson, A.D. (1995). Identification of genes required for a2 repression in Saccharomyces cerevisiae. Genetics140:79-90. 7635311
33. Vershon, A.K., Jin, Y., and Johnson, A.D. (1995). A homeodomain protein lacking specific side chains of Helix3 can still bind DNA and direct transcriptional repression. Genes Dev. 9:182-192. 7851792
32. Komachi, K., Redd, M.J., and Johnson, A.D. (1994). The WD repeats of Tup1 interact with the homeo domain protein a2. Genes Dev. 8:2857-2867. 7995523
31. Stark, M.R., and Johnson, A.D. (1994). Interaction between two homeodomain proteins is specified by a short C-terminal tail. Nature 371:429-432. 8090224
30. Phillips, C.L., Stark, M.R., Johnson, A.D., and Dahlquist, F.W. (1994). Heterodimerization of the yeast homeodomain transcriptional regulators a2 and a1 induces an interfacial helix in a2. Biochemistry 33:9294-9302. 8049230
29. Herschbach, B.M., Arnaud, M.B., and Johnson, A.D. (1994). Transcriptional repression directed by the yeast a2 protein in vitro. Nature 370:309-311. 8035881
28. Smith, D.L. and Johnson, A.D. (1994). Operator-Constitutive Mutations in a DNA Sequence Recognized by a Yeast Homeodomain. EMBO J. 13:2378-2387. 7910796
27. Goutte, C. and Johnson, A.D. (1994). Recognition of a DNA operator by a dimer composed of two different homeodomain proteins. EMBO J. 13:1434-1442. 7907979
26. Mak, A. and Johnson, A.D. (1993). The carboxy-terminal tail of the homeo domain protein a2 is required for function with a second homeo domain protein. Genes Dev. 7:1862-1870. 8104845
25. Goutte, C. and Johnson, A.D. (1993). Yeast a1 and a2 homeodomain proteins form a DNA-binding activity with properties distinct from those of either protein. J. Mol. Biol. 233:359-371. 8411150
24. Herschbach, B.M. and Johnson, A.D. (1993). The yeast a2 protein can repress transcription by RNA polymerases I and II, but not III. Mol. Cell. Biol. 13:4029-4038. 8321210
23. Herschbach, B.M. and Johnson, A.D. (1993). Transcriptional repression in eukaryotes. Ann. Rev. Cell Biol. 9:479-509. 8280469
22. Hollingsworth, N.M. and Johnson, A.D. (1993). A conditional allele of Saccharomyces cerevisiae HOP1 gene is suppressed by overexpression of two other meiosis-specific genes: RED1 and REC104. Genetics 133:785-797. 8462842
21. Vershon, A.K. and Johnson, A.D. (1993). A short, disordered protein region mediates interactions between the homeodomain of the yeast a2 protein and the MCM1 protein. Cell 72:105-112. 8422672
20. Vershon, A.K., Hollingsworth, N.M., and Johnson, A.D. (1992). Meiotic induction of the yeast HOP1 gene is controlled by positive and negative regulatory sites. Mol. Cell. Biol. 12:3706-3714. 1508177
19. Keleher, C.A., Redd, M.J., Schultz, J., Carlson, M., and Johnson, A.D. (1992). SSN6/TUP1 is a general repressor of transcription in yeast. Cell 68:709-719. 1739976
18. Smith, D. and Johnson, A.D. (1992). A molecular mechanism for combinatorial control in yeast: MCM1 protein sets the spacing and orientation of the homeodomains of an a2 dimer. Cell 68:133-142. 1732062
17. Wolberger, C., Vershon, A.K., Liu, B., Johnson, A.D., and Pabo, C.O. (1991). Crystal structure of a MAT a2 homeodomain-operator complex: Implications for a general model of homeodomain-DNA interactions. Cell 67:517-528. 1682054
16. Phillips, C.L, Vershon, A.K., Johnson, A.D., and Dahlquist, F.W. (1991). Secondary Structure of the Homeodomain of yeast a2 repressor determined by NMR spectroscopy. Genes Dev. 5:764-772. 1673952
15. Wolberger, C., Pabo, C., Vershon, D., and Johnson, A.D., (1991). Crystallization and preliminary X-ray diffraction studies of a MATa2-DNA complex. J. Mol. Biol. 217:11-13. 1988673
14. Keleher, C., Passmore, S., and Johnson, A.D. (1989). Yeast repressor a2 binds cooperatively with yeast protein Mcml. Mol. Cell. Biol. 9:5228-5230. 2689875
13. Sauer, R.T., Smith, D.L., and Johnson, A.D. (1988). Flexibility of the yeast a2 repressor enable it to occupy the ends of its operator, leaving the center free. Genes Dev. 2:807-816. 3061876
12. Keleher, C., Goutte, C., and Johnson, A.D. (1988). The yeast cell-type specific repressor a2 acts cooperatively with a non-cell-type specific protein. Cell 53:927-936. 3289753
11. Goutte, C., and Johnson, A.D. (1988). al protein alters the DNA-binding specificity of a2 repressor. Cell 52:875-882. 3127056
10. Hall, M.N., and Johnson, A.D. (1987). Homeodomain of the yeast repressor a2 is a sequence-specific DNA-binding domain but is not sufficient for repression. Science 237:1007-1012. 2887035
9. Johnson, A.D., and Herskowitz, I. (1985). A repressor (MATa2 Product) and its operator control a set of cell-type specific genes in yeast. Cell 41:237-247. 3893743
8. Hawley, D.K., Johnson, A.D., and McClure, W.R. (1985). Functional and physical characterization of transcription initiation complexes in the bacteriophage l OR region. J. Biol. Chem. 260:8618-8626. 3159734
7. Ptashne, M., Johnson, A.D., and Pabo, C.O. (1982). A genetic switch in a bacterial virus. Scientific American 247:128-140. 6216590
6. Ackers, G.K., Johnson, A.D., and Shea, M.A. (1982). Quantitative model for gene regulation by the l phage repressor. Proc. Natl. Acad. Sci. USA 79:1129-1133. 6461856
5. Johnson, A.D., Poteete, A.R., Lauer, G.L., Sauer, R.T., Ackers, G.K., and Ptashne, M. (1981). lambda repressor and cro—components of an efficient molecular switch. Nature 294:217-223. 6457992
4. Ptashne, M., Jeffery, A., Johnson, A.D., Maurer, R., Meyer, B.J., Pabo, C.O., Roberts, T.M., and Sauer, R.T. (1980). How the l repressor and cro work. Cell 19:1-11. 6444544
3. Johnson, A.D., Pabo, C.O., and Sauer, R.T. (1980). Bacteriophage l repressor and cro protein: Interactions with operator DNA. Methods Enzymol. 65:839-856. 6445470
2. Johnson, A.D., Meyer, B.J., and Ptashne, M. (1979). Interactions between DNA-bound repressors govern regulation by the l phage repressor. Proc. Natl. Acad. Sci. USA 76:5061-5065. 159452
1. Johnson, A.D., Meyer, B.J., and Ptashne, M. (1978). Mechanism of action of the cro protein of bacteriophage l. Proc. Natl. Acad. Sci. USA 75:1783-1787. 273909
Search current articles at NCBI
Book Chapters:
3. Johnson, A.D. (1994). Genetic variability of microorganisms. Chapter
3: Medical Microbiology by Baron, E.J. et al., Wiley-Liss, New York. pp.
39-60.
2. Johnson, A.D. (1992). A combinatorial regulatory circuit in budding
yeast. In: Transcriptional Regulation, eds. S.L. McKnight and K.R. Yamamoto.
Cold Spring Harbor Press, pp. 975-1006.
1. Gussin, G.N., Johnson, A.D., Pabo, C.O., and Sauer, R.T. (1983). Repressor
and cro protein: Structure, function and role in lysogenization. In Lambda
II, (R.W. Hendrix, J.W. Roberts, F.W. Stahl, R.A. Weisberg, eds.) New
York: Cold Spring Harbor Laboratory, pp. 93-121.
Books:
2. Alberts, B, Johnson, A., Lewis, J., Raff, M., Roberts, K., and Walter,
P. (2007) Molecular Biology of the Cell (5th ed.). New York: Garland
Publishing. 978-0-8153-4105-5
NLM electronic version (4th ed.)
1. Alberts, B., Bray, D., Hopkin, K., Johnson, A., Lewis, J., Raff, M., Roberts, K.
and Walter, P. (2003). Essential Cell Biology (2nd ed.). New York: Garland Publishing, Inc.
Publisher site