Publications

2009

Selmecki, A. M., Dulmage, K., Cowen, L. E., Anderson, J. B. and Berman, J. 2009. Acquisition of aneuploidy provides increased fitness during the evolution of antifungal drug resistance. PLoS Genetics 5(10): e1000705 [PDF]

Bouchonville, K., Forche, A., Tang, K., Selmecki, A. and Berman, J. 2009. Aneuploid chromosomes are highly unstable during DNA transformation of Candida albicans. Published online ahead of print, August 21, 2009. Euk. Cell 8(10): 1554-1566 [PDF]

Forche, A., Steinbach, M. and Berman, J. 2009. Efficient and rapid identification of Candida albicans allelic status using SNP-RFLP. FEMS Yeast Research. 9: 1061-1069[PDF]

Gerami-Nejad, M., Dulmage, K. and Berman, J. 2009. Additional cassettes for epitope and fluorescent fusion proteins in Candida albicans. Yeast 26(7): 309-406. [PDF] Plasmids that are available through the Fungal Genetics Stock Center

Anja Forche, P. T. Magee, Anna Selmecki, Judith Berman, Georgiana May. 2009. Evolution in Candida albicans populations during single passage through a mouse host. Genetics. 182: 799-811. [PDF]

Geraldine Butler, Matthew D. Rasmussen, Michael F. Lin, Manuel A. S. Santos, Sharadha Sakthikumar, Carol A. Munro, Ester Rheinbay, Manfred Grabherr, Anja Forche, Jennifer L. Reedy, Ino Agrafioti, Martha B. Arnaud, Steven Bates, Alistair J. P. Brown, Sascha Brunke, Maria C. Costanzo, David A. Kirkpatrick, Piet W. J. de Groot, David Harris, Lois L. Hoyer, Bernhard Hube, Frans M. Klis, Chinnappa Kodira, Nicola Lennard, Mary E. Logue, Ronny Martin, Aaron M. Neiman, Elissavet Nikolaou, Michael A. Quail, Janet Quinn, Maria C. Santos, Florian F. Schmitzberger, Gavin Sherlock, Prachi Shah, Peter E. Sudbery, Thyagarajan Srikantha, Qiadong Zeng, Judith Berman, Matthew Berriman, Joseph Heitman, Neil A. R. Gow, Michael C. Lorenz, Bruce W. Birren, Manolis Kellis & Christina A. Cuomo. 2009. Evolution of pathogenicity and sexual reproduction in eight Candida genomes. Nature 459(7247):657-662. [PDF]

Ketel, C., Wang, H., McClellan, M.R., Bouchonville, K., Selmecki, A., Lahav, T., Gerami-Nejad, M., Berman, J. 2009. Neocentromeres form efficiently at multiple possible loci in Candida albicans. PLoS Genetics 5(3): e1000400. [PDF]

2008

Forche, A., Alby, K., Schaefer, D., Johnson, A.D., Berman, J., Bennett, R. 2008. The parasexual cycle in Candida albicans provides an alternative pathway to meiosis for the formation of recombinant strains. PLoS Biology 6(5): E110 0001-0014. [PDF]

Joglekar, A., Bouck, D., Finley, K., Liu, X., Wan, Y., Berman, J., He, X., Salmon, E.D. and Bloom, K. 2008. Molecular architecture of the kinetochore-microtubule attachment site is conserved between point and regional centromeres. JCB 181(4):589-594. [PDF]

Selmecki, A., Gerami-Nejad, M., Paulsen, C., Forche, A. and Berman, J. 2008. An isochromosome confers drug resistance in vivo by amplification of two genes, ERG11 and TAC1. Mol. Microbiology 68(3):624-641. This article is available online from Molecular Microbiology (Blackwell Publishing) here, or email your request to mccle003<at>umn<dot>edu.

Legrande, M., Forche, A., Selmecki, A.M., Kirkpatrick, D., Berman, J. 2007. Haplotype mapping of a diploid non-meiotic organism using existing and induced aneuploidies. PLoS Genetics 4(1): e1 0018-0028. [PDF]

 Finley, K., Bouchonville, K., A. Quick, and J. Berman 2008. Dynein-dependent nuclear dynamics affect morphogenesis in  Candida albicans via the Bub2p spindle checkpoint. J Cell Science 121: 466-476. [PDF]
 
2007

Bergmann, S., Ihmels, J., and J. Berman 2007. Global transcription profiles of C. albicans and the comparison with other yeast species,  In Candida: Comparative and Functional Genomics.  B. Hube and C. D’enfert, editors.[PDF]

 Tirosh, I., Berman, J., and N. Barkai.  2007. Localized DNA rigidity characterizes TATA-less promoters in yeast. Trends Genet. 23(7): 318-321. [PDF]

Coste, A., Selmecki, A.M., Forche, A, Berman, J., Diogo, D., Bougnoux, E., d’Enfert, C. and D. Sanglard. 2007. Genotypic evolution of azole resistance mechanisms in sequential  C. albicans isolates.  Eukaryot. Cell. 6: 1889-1904. [PDF]

2006

Bergmann, S., Ihmels, J. and Berman, J. 2006. Global Transcription profiles of C. albicans and the camparison with other yeast species. In Candida: Comparative and Functional Genomics. B. Hube and C. D'enfert, editors

Berman, J.  2006.  Morphogenesis and cell cycle progression in Candida albicans  Curr. Opin. Microbiol. 9(12): 595-601. [PDF]

Oberholzer, U., Nantel, A., Berman, J., and M. Whiteway. 2006. Transcript profiles of  Candida albicans cortical actin patch mutants reflect their cellular defects: contribution of the Hog1p and Mkc1p signaling pathways. Eukaryot. Cell 5: 1252-1265. [PDF]

Selmecki, A., Forche, A. and Berman., J. 2006. Aneuploidy and Isochromosome Formation in Drug-Resist Candida albicans. Science. 313(5785):367-370. [Full Text] [Abstract]

Coste, A., Turner, V., Ischer, F., Morschhauser, J., Forche, A., Selmecki, A., Berman, J., Bille, J. and Sanglard, D. 2006. A mutation in Tac1p, a transcription factor regulating CDR1 and CDR2, is coupled with loss of heterozygosity at chromosome 5 to mediate antifungal resistance in Candida albicans. Genetics. 172: 2139-2156. [PDF]

2005

Finley, K. and Berman, J. 2005. Microtubules in Candida albicans hyphae drive nuclear dynamics and connect cell cycle progression to morphogenesis. Eukaryotic Cell., 4(10): 1697-1711. [PDF] [supplemental videos] 

Ihmels, J., Bergmann, S., Berman, J. and Barkai, N. 2005. Comparative gene expression analysis by a differential clustering approach: application to the Candida albicans transcription progam. PLoS Genetics., 1(3): 380-393. [PDF]

Ihmels, J., Bergmann, S., Gerami-Nejad, M., Yanai, I., McClellan, M., Berman, J. and Barkai, N. 2005. Rewiring of the yeast transcriptional network through the evolution of Motif Usage. Science., 309: 938-940. [PDF]

Bensen, E., Clemente-Blanco, A., Finley, K., Correa-Bordes, J. and Berman, J. 2005. The mitotic cyclins Clb2p and Clb4p affect morphogenesis in Candida albicans. Molecular Biology of the Cell.,16:3387-3340. [PDF]

Crampin, H., Finley, K., Gerami-Nejad, M., Court, H., Gale, C., Berman, J. and Sudbery, P. 2005. Candida albicans hyphae have a SpitzenK–rper that is distinct from the polarisome found in yeast and pseudohyphae. Journal of Cell Science., 18(13): 2935-2947. [PDF]

Braun, B., van het Hoog, M., d'Enfert, C., Martchenko., M., Dungan, J., Kuo, A., Inglis, D., 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., Bates, S., Gow, N., Hoyer, L., K_ohler, 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., Johnson, A., Whiteway, M. and Nantel, A. 2005. A human-curated annotation of the Candida albicans genome. PLoS Genetics., 1(1): 1-22. [PDF]

Selmecki, A., Bergmann, S. and Berman, J 2005. Comparative genome hybridization reveals widespread aneuploidy in Candida albicans laboratory strains. Molecular Microbiology., 55(5): 1553-1565. [PDF]

2004

Glowczewski, L., Waterborg, J. and Berman, J. 2004. Yeast Chromatin Assembly Complex 1 Protein Excludes Nonacetylatable Forms of Histone H4 from Chromatin and the Nucleus. Molecular and Cellular Biology., 24(23): 10180-10192.[PDF]

Bensen, E. S., Martin, M. J., Li, M., Berman, J. and Davis, D. A. Transcriptional profiling in Candida albicans reveals new adaptive responses to extracellular pH and functions for Rim101p. Molecular Microbiology. 54(5): 1335-1351.[PDF]

Sudbery, P., Gow, N. and J. Berman 2004. The distinct morphogenic states of Candida albicans. Trends in Microbiology., 12(7): 317-324. [PDF]

Enomoto, S., Glowczewski, L., Lew-Smith, J. and Berman, J.G. (2004). Telomore cap components influence the rate of senescence in telomerase-deficient yeast cells. Mol. Cell. Biol., 24:837-845. [PDF]

Gerami-Nejad, M., Hausauer,D., Berman, J. and Gale, C.A. (2004). Cassettes for the PCR-mediated construction of regulatable alleles in C. albicans. Yeast, 21:429-436. [PDF] Plasmids that are available through the Fungal Genetics Stock Center

Berman, J. and N. A. R. Gow. 2004. Cell cycle in human fungal pathogens. In: Pathogenic Fungi: Structural Biology and Taxonomy, SanBlas, G. and R. Calderone, eds., Horizon press. Norfolk, UK, Pp. 101-127.[PDF]

2003

Tseng-Rogenski, S.S.-I., Chong, J.-L., Thomas, C.B., Enomoto, S., Berman, J. and Change, T.-H. (2003). Functional conservation for Dhh1p, a DexD/H-box protein in S. cerevisiae. Nucleic Acids Res., 31:4995-5002. [PDF]

Magee, P.T., Gale, C.A., Berman, J. and Davis, D. (2003). Molecular biological and genomic approaches to the study of pathogenic fungi. Infection & Immunity, 71:2299-2309. [PDF]

Dahlseid, J.N., Lew-Smith, J., Lelivelt, M.J., Enomoto, S., Ford, A., Desruisseaux, M., McClellan, M., Lue, N., Culbertson, M.R. and Berman, J. (2003). mRNAs Encoding Telomerase Components and Regulators are Controlled by the UPF Genes in Saccharomyces cerevisiae. Euk. Cell., 2(1):134-142. [PDF]

2002

Berman, J. and Sudbery, P.E. (2002). Candida albicans: a Molecular Revolution Built on Lessons from Saccharomyces cerevisiae. Nature Reviews Genetics, 3:918-32. [PDF]

Bensen, E.S., Filler, S.G. and Berman, J. (2002). A Forkhead Transcription Factor is Important for both Yeast and True Hyphal Growth in Candida albicans, Euk. Cell., 1(5):787-798. [PDF]

Enomoto, S., Glowczewski, L. and Berman, J. (2002). MEC3, MEC1 and DDC2 are Essential Components of a Telomere Checkpoint Pathway that is Required for Cell Cycle Arrest During Senescence in Saccharomyces cerevisiae. Mol. Biol. of the Cell, 13:2626-2638. [PDF]

2001

Cheryl Gale, Maryam Gerami-Nejad, Mark McClellan, Sandy Vandoninck, Mark S. Longtine, and Judith Berman 2001. Candida albicans Int1p Interacts with the Septin Ring in Yeast and Hyphal Cells. Molecular Biology of the Cell, 12(11):3538-3549. [PDF]

Gerami-Nejad M, Berman J, Gale CA. 2001. Cassettes for PCR-mediated construction of green, yellow, and cyan fluorescent protein fusions in Candida albicans. Yeast, 18(9):859-864. [PDF] Plasmids listed in the Fungal Genetics Stock Center

Stephen D. Johnston, Shinichiro Enomoto, Lisa Schneper, Mark R. McClellan, Florence Twu, Nathan D. Montgomery, Steven A. Haney, James R. Broach, and Judith Berman. 2001. CAC3 (MSI1) Suppression of RAS2 -G19V Is Independent of Chromatin Assembly Factor I and Mediated by NPR1. Molecular and Cellular Biology, 21:1784-1794. [PDF]

Catherine M. Asleson, Eric S. Bensen, Cheryl A. Gale, A.-S. Melms, Cornelia Kurischko, and Judith Berman. 2001. Candida albicans INT1Induced Filamentation in Saccharomyces cerevisiae Depends on Sla2p. Molecular and Cellular Biology, 21:1272-1284. [PDF]

2000

Asleson, C.M., J.C. Asleson, E. Malandra, S.D. Johnston and J. Berman. 2000. Filamentous Growth of Saccharomyces cerevisiaeIs Regulated by Manganese. Fungal Genetics and Biology, 30:155-162. [PDF]

Enomoto, S., S.D. Johnston and J. Berman. 2000. Identification of a novel allele of SIR3 defective in the maintenance, but not the establishment, of silencing in Saccharomyces cerevisiae. Genetics, 155(2):523-538. [PDF]

1999

Kinneberg, K., C. Bendel, R. Jechorek, E. Cebelinski, C. Gale, J. Berman, S. Erlandsen, M. Hostetter and C. Wells. 1999. Effect of INT1 gene on Candida albicans murine intestinal colonization. J. Surg. Res., 87(2):245-251. [PDF]

Johnston, S., J.E. Lew and J. Berman. 1999. Gbp1p, a protein with RNA recognition motifs, binds single-stranded telomeric DNA and changes its binding specificity upon dimerization. Mol. Cell. Biol., 19(1):923-933. [PDF]

1998

Gale, C., C. Bendel, M. Hostetter and J. Berman. 1998. Is INT1 an integrin? Trends Microbiol., 6(8):302-303. [PDF]

Lew, J.E., S. Enomoto and J. Berman. 1998. Telomere length regulation and telomeric chromatin require the nonsense-mediated mRNA decay pathway. Mol. Cell. Biol., 18(10):6121-6130. [PDF]

Qian, Z., H. Huang, J.Y. Hong, C.L. Burck, S.D. Johnston, J. Berman, A. Carol and S.W. Liebman. 1998. Yeast Ty1 retrotransposition is stimulated by a synergistic interaction between mutations in chromatin assembly factor I and histone regulator proteins. Mol. Cell. Biol., 18(8):4783-4792. [PDF]

Enomoto, S., G. Chen J. and Berman. 1998. Vectors for expressing T7 epitope- and His6-affinity tagged fusion proteins in S. cerevisiae. BioTechniques, 24(5):782-788. [Abstract] [PDF]

Gale, C.A., C.M. Bendel, M. McClellan, M. Hauser, J.M. Becker, J. Berman and M.K. Hostetter. 1998. Linkage of adhesion, filamentous growth, and virulence in Candida albicans to a single gene, INT1. Science, 279(5355):1355-1358. [PDF]

Schnell, J.R., J. Berman and V.A. Bloomfield. 1998. Insertion of telomere repeat sequence decreases plasmid DNA condensation by cobalt (III) hexaammine. Biophys. J., 74(3):1484-1491. [PDF]

Enomoto, S. and J. Berman. 1998. Chromatin assembly factor I contributes to the maintenance, but not the re-establishment, of silencing at the yeast silent mating loci. Genes Dev., 12(2):219-232. [PDF]

1997

Enomoto, S., P.D. McCune-Zierath, M. Gerami-Nejad, M.A. Sanders and J. Berman. 1997. RLF2, a subunit of yeast chromatin assembly factor-I, is reqauired for telomeric chromatin function in vivo. Genes Dev., 11(3):358-370. [PDF]

1995

Konkel, L.C., S. Enomoto, E. Chamberlain, P. McCune-Zierath, S.J.P. Iyadurai and J. Berman. 1995. A class of single-stranded telomeric DNA-binding proteins required for Rap1p localization in yeast nuclei. Proc. Natl. Acad. Sci. USA, 92(12):5558-5562. [PDF]

1994

Enomoto, S., M.S. Longtine and J. Berman. 1994. TEL+CEN antagonism on plasmids involves telomere repeat sequence tracts and gene products that interact with chromosomal telomeres. Chromosoma, 103(4):237-250. [PDF]

Petracek, M.E., L. Konkel, M. Kable and J. Berman. 1994. A Chlamydomonas protein that binds single-stranded G-strand telomere DNA. EMBO J., 13(15):3648-3658. [PDF]

Enomoto, S., M.S. Longtine and J. Berman. 1994. The enhancement of telomere plasmid segregation by the X-Telomere Associated Sequence in Saccharomyces cerevisiae involves SIR2, SIR3, SIR4 and ABF1. Genetics, 136(3):757-767. [PDF]

1993

Longtine, M.S., S. Enomoto, S.L. Finstad and J. Berman. 1993. Telomere-mediated plasmid segregation in Saccharomyces cerevisiae involves gene products required for transcriptional repression at silencers and at telomeres. Genetics, 133(2):171-182. [PDF]

1992

Longtine, M.S., S. Enomoto, S.L. Finstad and J. Berman. 1992. Yeast telomere repeat sequence (TRS) improves circular plasmid segregation, and TRS plasmid segregation involves the RAP1 gene product. Mol. Cell. Biol., 12(5):1997-2009. [PDF]

Petracek, M.E. and J. Berman. 1992. Chlamydomonas reinhardtii telomere repeats form unstable structures involving guanine-guanine base pairs. Nucleic Acids Res., 20(1):89-95. [PDF]

1990

Petracek, M.E., P.A. Lefebvre, C.D. Silflow and J. Berman. 1990. Chlamydomonas telomere sequences are A+T-rich but contain three consecutive G-C base pairs. Proc. Natl. Acad. Sci. USA, 87(21):8222-8226. [PDF]

1989

Longtine, M.S., N.M. Wilson, M.E., Petracek and J. Berman. 1989. A yeast telomere binding activity binds to two related telomere sequence motifs and is indistinguishable from RAP1. Curr. Genet., 16(4):225-229. [PDF]