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Genomics
Ho S-W, Jona G, Chen CT, JOHNSTON M, Snyder M:
Linking DNA-binding proteins to their recognition sequences by using protein microarrays.
Proc Natl Acad Sci U S A. 2006; 103:9940-5. PMID: 16785442
Cliften PF, Fulton RS, Wilson RK, and JOHNSTON M:
After the duplication: gene loss and adaptation in Saccharomyces genomes.
Genetics 2006; 172:863-872. PMID: 16322519
Cliften P, 7 others, and JOHNSTON M:
Finding Functional Features in Saccharomyces Genomes by Phylogenetic Footprinting.
Science 2003; 301:71-76. PMID: 12775844
Langkjaer RB, Cliften PF, JOHNSTON M, Piskur J:
Yeast genome duplication was followed by asynchronous differentiation of duplicated genes.
Nature 2003; 421:848-52. PMID: 12594514
Giaever G, 72 others, and JOHNSTON M:
Functional Profiling of the S. cerevisiae Genome.
Nature 2002; 418:387-391. PMID: 12140549
Cliften PF, Hillier LW, FultonL, GravesT, MinerT, GishWR, Waterston RH, JOHNSTON M:
Surveying Saccharomyces genomes to identify functional elements by comparative DNA sequence analysis.
Genome Res. 2001; 11:1175-1186. PMID: 11435399
Uetz P, 14 others, JOHNSTON M, Fields S, and Rothberg JM:
A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae.
Nature 2000; 403:623-627. PMID: 10688190
Niedenthal R, Riles L, Güldener U, Klein S, JOHNSTON M and Hegemann JH:
Systematic analysis of S. cerevisiae Chromosome VIII genes.
Yeast 1999; 15:1775-1796. PMID: 10590466
Winzeler EA, 49 others, JOHNSTON M, and Davis RW:
Functional characterization of the S. cerevisiae genome by gene deletion and parallel analysis.
Science 1999; 285:793-972. PMID: 10436161
JOHNSTON M and 56 others:
The nucleotide sequence of Saccharomyces cerevisiae chromosome XII.
Nature 1997; 387:87-90. PMID: 9169871
Erickson JR and JOHNSTON M:
Direct cloning of yeast genes from an ordered set of lambda clones in Saccharomyces cerevisiae
by recombination in vivo.
Genetics 1992; 134:151-157. PMID: 8514124
JOHNSTON M and 34 others:
Complete nucleotide sequence of Saccharomyces cerevisiae chromosome VIII.
Science 1994;265:2077-2082. PMID: 8091229 Genomics reviews
(BR15) Hughes TR, Robinson MD, Mitsakakis N, JOHNSTON M:
The promise of functional genomics: completing the encyclopedia of a cell.
Curr. Opin. Microbiol. 2004; 7:546-54. PMID: 15451511
(BR14) Johnston M and Hieter P: Genomics.
Chapter 14 in Landmark Papers in Yeast Biology (P. Linder, D. Shore and M.N. Hall, eds.) Cold Spring Harbor Press, 2003.
M. Johnston M, Stormo GD:
Evolution: Heirlooms in the attic.
Science 2003; Nov 7; 302(5647):997-9. PMID: 14605357
(BR12) Fields S, Johnston M:
A crisis in postgenomic nomenclature.
Science 2002; 296(5568):671-2. PMID: 11976434
JOHNSTON, M:
The yeast genome: on the road to the golden Age.
Curr. Opin. Genet. Dev. 2000; 10:617-23. PMID: 11088011
JOHNSTON, M and Fields, S:
Grass-roots genomics.
Nature Genetics 2000; 24:5-6. PMID: 10615113
JOHNSTON, M:
Gene chips: Array of hope for understanding gene regulation.
Current Biology 1998; 8:R171 R174. PMID: 9501061
JOHNSTON M:
Genome Sequencing: The complete code for a eukaryotic cell.
Current Biology 1996; 6:500-503. PMID: 8805271
JOHNSTON M:
Towards a complete understanding of how a simple eukaryotic cell works.
Trends in Genetics 1996; 12:242. PMID: 8763492
Goffeau M, Barrell BG, Bussey H, Davis RW, Dujon B, Feldmann H, Galibert F, Hoheisel JD, Jacq C, JOHNSTON M, Louis EJ, Mewes HW, Murakami Y, Philippsen P, Tettelin H, Oliver SG:
Life with 6000 Genes.
Science 1996; 274:546-567. PMID: 8849441
Glucose Sensing and Signaling
Sexton J, Brown V, JOHNSTON M:
Regulation of sugar transport and metabolism by the Candida albicans Rgt1 transcriptional repressor.
Yeast 2007; 24:847-60. PMID: 17605131
Brown V, Sexton JA, JOHNSTON M:
A glucose sensor in Candida albicans.
Eukaryot Cell. 2006; 5:1726-37. PMID: 17030998
Kim J-H, JOHNSTON M:
Two glucose-sensing pathways converge on Rgt1 to regulate expression of glucose transporter genes in Saccharomyces cerevisiae.
J Biol Chem. 2006; 281:26144-9. 16844691
Kim J-H, Brachet V, Moriya H, and JOHNSTON M:
Integration of transcriptional and post-translational regulation in a glucose signal transduction pathway in Saccharomyces cerevisiae.
Eukaryotic Cell 2006; 5:167-73. PMID: 16400179
Polish J, Kim J-H and JOHNSTON M:
How the Rgt1 transcription factor of S. cerevisiae is regulated by glucose.
Genetics 2005; 169(2):583-594. PMID: 15489524
Moriya H and JOHNSTON M:
Glucose Sensing and Signaling in S. cerevisiae through the Rgt2 Glucose Sensor and Casein
Kinase I.
Proc. Natl. Acad. Sci. USA 2004; 101:1572-1577. PMID: 14755054
Kaniak A, Xue Z, Macool D, Kim J-H and JOHNSTON M:
Regulatory Network Connecting Two Glucose Signal Transduction Pathways in S. cerevisiae.
Eukaryotic Cell 2004; 221-231. PMID: 14871952
Kim J-H, Polish J and JOHNSTON M:
Specificity and Regulation of DNA-binding by the Yeast GlucoseTransporter Gene Repressor Rgt1.
Mol. Cell. Biol. 2003; 23: 5208–5216. PMID: 12861007
DeVit MJ and JOHNSTON M:
The nuclear exportin Msn5 is required for nuclear export of the Mig1 glucose repressor of Saccharomyces cerevisiae.
Curr. Biol. 1999; 9:1231-1241. PMID: 10556086
Frolova E, JOHNSTON M, and Majors, J:
Binding of the glucose-dependent Mig1p repressor to the GAL1 and GAL4 promoters in vivo: regulation by glucose and chromatin structure.
NAR. 1999; 27(5):1350-1358. PMID: 9973625
Lutfiyya L, Iyer V R, DeRisi J, DeVit M, Brown P, and JOHNSTON M:
Characterization of Three Related Glucose Repressors and Genes They Regulate in Saccharomyces cerevisiae.
Genetics 1998; 150:1377-1391. PMID: 9832517
Özcan S, Dover J, and JOHNSTON M:
Glucose sensing and signaling by two glucose receptors in the yeast Saccharomyces cerevisiae.
EMBO J. 1998; 17:2566-2573. PMID: 9564039
Devit M, Waddle J, and JOHNSTON M:
Regulated nuclear translocation of the Mig1 glucose repressor.
Mol. Biol. of the Cell 1997; 8:1603-1618. PMID: 9285828
Li F, and JOHNSTON M:
Grr1 of Saccharomyces cerevisiae is connected to the ubiquitin proteolysis machinery though Skp1: coupling glucose sensing to gene expression and the cell cycle.
EMBO J. 1997; 6:101-110. PMID: 9312022
Özcan S, Vallier LG, Flick JS, Carlson M, JOHNSTON M:
Expression of the SUC2 gene of Saccharomyces cerevisiae is inducible by low levels of glucose.
Yeast 1996; 13:127-137. PMID: 9046094
Özcan S and JOHNSTON M:
Two different repressors collaborate to restrict expression of yeast glucose transporter genes HXT2 and HXT4 to low levels of glucose.
Mol. Cell. Biol. 1996; 16:5536-5545. PMID: 8816466
Ostergaard S, Olsson L, JOHNSTON M, Nielsen J:
Increasing galactose consumption by Saccharomyces cerevisiae through metabolic engineering of the GAL gene regulatory network.
Nature Biotech. 2000; 18:1283-1286. PMID: 11101808
Özcan S, Dover J, Rosenwald AG, Woelfl S, JOHNSTON M:
Two glucose transporters in Saccharomyces cerevisiae are glucose sensors that generate a signal for induction of gene expression.
Proc. Nat. Acad. Sci. USA. 1996; 93:12428-12432. PMID: 8901598
Özcan S, Leong T, JOHNSTON M:
Rgt1p of S. cerevisiae, a key regulator of glucose-induced genes, is both an activator and repressor of transcription.
Mol. Cell. Biol. 1996; 16:6419-6426. PMID: 8887670
Lutfiyya, LL and JOHNSTON M:
Two Zinc-Finger-Containing Repressors are Responsible for Glucose Repression of SUC2 Expression.
Mol. Cell. Biol. 1996; 16:4790-4797. PMID: 8756637
Özcan S and JOHNSTON M:
Three different regulatory mechanisms enable yeast hexose transporter (HXT) genes to be induced by different levels of glucose.
Mol. Cell. Biol. 1995; 15:1564-1572. PMID: 7862149
Erickson JR and JOHNSTON M:
Suppressors reveal two classes of glucose repression genes in the yeast Saccharomyces cerevisiae.
Genetics 1994; 136:1271-1278. PMID: 8013904
Erickson JR and JOHNSTON M:
Genetic and molecular characterization of GAL83: Its interaction and similarities with other genes involved in glucose repression in Saccharomyces cerevisiae.
Genetics 1993; 135:655-664. PMID: 8293971
Flick J and JOHNSTON M:
Analysis of URSG-mediated glucose repression of the GAL1 promoter of S. cerevisiae.
Genetics 1992; 130:295-304. PMID: 1541392
Flick J and JOHNSTON M:
GRR1 of S. cerevisiae is required for glucose repression and encodes a protein with leucine-rich repeats.
Mol. Cell. Biol. 1991; 11:5101-5112. PMID: 1922034
Flick J and Johnston M:
Two systems of glucose repression of the GAL1 promoter in S. cerevisiae.
Mol. Cell. Biol. 1990; 10:4757-4769. PMID: 2201902
Glucose sensing reviews
(BR16) JOHNSTON M and Kim J-H:
Glucose as a hormone: receptor-mediated glucose sensing in the yeast Saccharomyces cerevisiae.
Biochem. Soc. Trans. 2005; 33:247-52. PMID: 15667318
(BR8) Özcan, S. and JOHNSTON, M:
Function and regulation of yeast hexose transporters.
Microbiol. & Mol. Biol. Rev. 1999; 63:554-569. PMID: 10477308
(BR7) JOHNSTON, M:
Feasting, fasting and fermenting: glucose sensing in yeast and other cells.
Trends in Genetics 1999; 15:29-34. PMID: 10087931
(BR2) JOHNSTON M and Carlson M:
Regulation of carbon and phosphate utilization
in The Molecular Biology of the Yeast Saccharomyces (B. Jones, J. Pringle, J.Broach, eds.) Cold Spring Harbor Press, Cold Spring Harbor, NY. 1993; 193-281.
GAL gene regulation
JOHNSTON M, Flick JS, Pexton T:
Multiple mechanisms provide rapid and stringent glucose repression of GAL gene expression in Saccharomyces cerevisiae.
Mol. Cell. Biol. 1994; 14:3834-3841. PMID: 8196626
Griggs D and JOHNSTON M:
Promoter elements determining weak expression of the GAL4 regulatory gene of Saccharomyces cerevisiae.
Mol. Cell. Biol. 1993; 13: 4999-5009. PMID: 8393142
Griggs D and JOHNSTON M:
Regulated expression of the GAL4 transcriptional activator provides a sensitive genetic switch for glucose repression in yeast.
Proc. Nat. Acad. Sci. USA 1991; 88:8597-8601. PMID: 1924319
Mylin LM, JOHNSTON M, Hopper J:
Phosphorylated forms of GAL4 are correlated with ability to activate transcription.
Mol. Cell. Biol. 1990; 10:4623-4629. PMID: 2201897
Hovland P, Flick J, JOHNSTON M, Sclafani RA:
Galactose as a gratuitous inducer of GAL gene expression in yeasts growing on glucose.
Gene 1989; 83:57-64. PMID: 2512199
JOHNSTON M:
Genetic evidence that zinc is an essential co-factor in the DNA binding domain of GAL4 protein.
Nature 1987; 328:353-355. PMID: 3299106
Johnston M and Dover J:
Mutational analysis of the gal4-encoded transcriptional regulatory protein of Saccharomyces cerevisiae.
Genetics 1988; 120:63-74. PMID: 3065140
Johnston M and Dover J:
Mutations that inactivate a yeast transcriptional regulatory protein cluster in an evolutionarily conserved DNA binding domain.
Proc. Natl. Acad. Sci. USA 1987; 84:2401-2405. PMID: 3550810
GAL regulation review
(BR1) Johnston M:
A model fungal gene regulatory mechanism: The GAL genes of Saccharomyces cerevisiae.
Microbiological Reviews 1987; 51:458-476. PMID: 2830478
Methods
Wang H, JOHNSTON M, Mitra RD:
Calling Cards for DNA-binding Proteins.
Genome Res. 2007; 17:1202-1209. PMID: 17623806
Johnston M, Riles L, Hegemann JH:
Gene disruption.
Meth. Enzymol. 2002; 350:290-315. PMID: 12073319
Niedenthal RK, Riles L, JOHNSTON M, Hegemann JH:
Green Fluorescent Protein as a Marker for Gene Expression and Subcellular Localization in Budding Yeast.
Yeast 1996; 12:773-786. PMID: 8813764
Hamer L, JOHNSTON M, Green ED:
Isolation of yeast artificial chromosomes free of endogenous yeast chromosomes: construction of alternate hosts with defined karyotypic alterations.
Proc. Nat. Acad. Sci. USA 1995; 92:11706-11710. PMID: 8524833
Wilson TE, Padgett KE, JOHNSTONM, Milbrandt J:
A genetic method for defining DNA binding domains: Application to the Nuclear Receptor NGFI-B.
Proc. Nat. Acad. Sci. USA 1993; 90:9186-9190. PMID: 8415675
Liu J, Wilson TE, Milbrandt J, JOHNSTON M:
Identifying DNA -binding sites and analyzing DNA-binding domains using a yeast selection system.
Methods 1993;5:125-137.
Other topics
(BR17) Fields S, Johnston M:
Whither Model Organism Research?
Science 2005; March 25; 307:1886-1886. PMID: 15790833
Wood A, Krogan NJ, Dover J, Schneider J, Heidt J, Boateng MA, Dean K, Golshani A,
Zhang Y, Greenblatt JF, JOHNSTON M, Shilatifard A:
Bre1, an E3 ubiquitin ligase required for recruitment and substrate selection of Rad6 at a promoter.
Mol. Cell 2003; 11:267-74. PMID: 12535539
Krogan NJ, Dover J, Wood A, Schneider J, Heidt J, Boateng MA, Dean K, Ryan OW, Golshani A, JOHNSTON M, Greenblatt JF, Shilatifard A:
The Paf1 Complex Is Required for Histone H3 Methylation by COMPASS and Dot1p. Linking Transcriptional Elongation to Histone Methylation.
Mol. Cell 2003; 11:721-9. PMID: 12667454
Chen CN, Porubleva L, Shearer G, Svrakic M, Holden LG, Dover JL, JOHNSTON M, Chitnis PR, Kohl DH:
Associating protein activities with their genes: rapid identification of a gene encoding a methylglyoxal reductase in the yeast Saccharomyces cerevisiae.
Yeast 2003; 20:545-54. PMID: 12722185
Dover J, Schneider J, Tawiah-Boateng MA, Wood A, Dean K, Johnston M, Shilatifard A:
Methylation of Histone H3 by COMPASS Requires Ubiquitination of Histone H2B by Rad6.
J. Biol. Chem. 2002; 277:28368-71. PMID: 12070136
Krogan N, Dover J, Khorrami S, Greenblatt JF, Schneider J, JOHNSTON M, Shilatifard A:
COMPASS: a histone H3 (Lysine 4) methyltransferase required for telomeric silencing of gene expression.
J. Biol. Chem. 2002; 277:10753-5. PMID: 11805083
Miller T, Krogan NJ, Dover J, Erdjument-Bromage H, Tempst P, JOHNSTON M, Greenblatt JF, Shilatifard A:
COMPASS: a complex of proteins associated with a trithorax-related SET domain protein.
Proc. Natl. Acad. Sci. USA 2001; 98:12902-7. PMID: 11687631
Hull MW, Erickson J, JOHNSTON M, Engelke DR:
tRNA Genes as Transcriptional Repressor Elements.
Mol. Cell. Biol. 1994; 14:1266-1277. PMID: 8289806
Wilson TE, Day ML, Pexton T, Padgett KA, JOHNSTON M, Milbrandt J:
In Vivo Mutational Analysis of the NGFI-A Zinc Fingers.
J. Biol. Chem. 1992; 267:3718-3724. PMID: 1740423
Wilson TE, Fahrner TJ, JOHNSTON M, Milbrandt J:
Identification of the DNA binding site of NGFI-B using genetic selection in yeast.
Science 1991; 252:1297-1300. PMID: 1925541
Nogae I and JohnstonM:
Isolation and characterization of the ZWF1 gene encoding glucose-6-phosphate dehydrogenase of Saccharomyces cerevisiae.
Gene 1990; 96:161-169. PMID: 2269430
Orser CS, Goodner BW, Johnston M, Gelvin SB, Csonka LN:
The Escherichia coliproB gene corrects the proline auxotrophy of Saccharomyces cerevisiae pro1 mutants.
Mol. Gen. Genet. 1988; 212:124-128. PMID: 2836700
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