Source: https://www.imbb.forth.gr/en/research-en/gene-regulation-epigenetics/item/82-despina-alexandraki
Timestamp: 2019-04-22 02:26:19+00:00

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We are interested on the mechanisms governing gene expression regulated by DNA-binding transcription factors and chromatin regulators in response to environmental changes. Our reference system is metalloregulated transcription in yeast, a major aspect of metal homeostasis. Specific DNA binding transcriptional regulators are functionally modulated by metal availability, Mac1 by copper and Aft1 by iron, by post-translational modifications and specific protein interactions.
We are investigating binary and multiprotein interactions with these factors revealing new protein roles and facts concerning the mechanisms of chromatin organization and transcription per se and new functional connections between transcription (metal-dependent or independent) and other cellular signalling pathways (DNA damage, oxidative stress, etc). S. cerevisiae provides the power of genetics, a complete genome sequence, a variety of tools and procedures for genome/proteome-wide analyses and many genes and processes conserved even in mammals.
Mara P, Fragiadakis GS, Gkountromichos F, Alexandraki D. (2018) The pleiotropic effects of the glutamate dehydrogenase (GDH) pathway in S. cerevisiae. Microbial Cell Factories 17:170.
Andreadis C, Nikolaou C, Fragiadakis GS, Tsiliki G, Alexandraki D. (2014) Rad9 interacts with Aft1 to facilitate genome surveillance in fragile genomic sites under non-DNA damage-inducing conditions in S. cerevisiae. Nucleic Acids Res 42:12650-67.
Gkouskou K, Fragiadakis GS, Voutsina A, Alexandraki D. S. cerevisiae Rad9 recruitment in Mac1 regulated transcription in the absence of DNA damage (Resubmitted for publication).
Fragiadakis GS, Tzamarias D, Alexandraki D. (2004) Nhp6 facilitates Aft1 binding and Ssn6 recruitment both essential for FRE2 transcriptional activation. EMBO J. 23: 333-342.
1. Alexandraki D. and Ruderman J. V. (1981) Sequence heterogeneity, multiplicity and organization of a- and ß-tubulin genes in sea urchins. Molec. Cell. Biol. 1, 1125-1137.
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6. Tzamarias D., Alexandraki D. and Thireos G. (1986) Multiple cis-acting elements modulate the translational efficiency of GCN4 mRNA in yeast. Proc. Natl. Acad. Sci. USA 83, 4849-4853.
7. Oliver S. G., ...Alexandraki D., ...Galland P., ...Thireos G., Tzermia M., ...and Sgouros J. G. (1992) The complete DNA sequence of yeast chromosome III. Nature 357, 38-46.
8. Tzermia M., Horaitis O. and Alexandraki D. (1994) The complete sequencing of a 24.6 kb segment of yeast chromosome XI identified the known loci URA1, SAC1 and TRP3, and revealed 6 new open reading frames including homologues to the threonine dehydratases, membrane transporters, hydantoinases and the phospholipase A2-activating protein. Yeast 10, 663-679.
9. Alexandraki D. and Tzermia M. (1994). Sequencing of a 13.2 kb segment next to the left telomere of yeast chromosome XI revealed five open reading frames and recent recombination events with the right arms of chromosomes III and V. Yeast 10, S81-S91.
10. Georgatsou E. and Alexandraki D. (1994) Two distinctly regulated genes are required for ferric reduction, the first step of iron uptake in Saccharomyces cerevisiae. Molec. Cell. Biol. 14, 3065-3073.
11. Dujon B., ...Alexandraki D., ...Horaitis O., ...Tzermia M.,... and Becker I. (1994) The complete DNA sequence of chromosome XI of Saccharomyces cerevisiae (666 kb). Nature 369, 371-378.
12. Galibert F., Alexandraki D.,...Katsoulou C.,...Tzermia M.,..and Karpfinger-Hartl L. (1996) Complete nucleotide sequence of Saccharomyces cerevisiae chromosome X. EMBO J. 15, 2031-2049.
13. Katsoulou C., Tzermia M., Tavernarakis N. and Alexandraki D. (1996) Sequence analysis of a 40.7 kb segment from the left arm of yeast chromosome X reveals 14 known genes and 13 new open reading frames including homologues of genes clustered on the right arm of chromosome XI. Yeast 12, 787-797.
14. Tavernarakis N., Alexandraki D., Liodis P., Tzamarias D. and Thireos G. (1996) Gene overexpression reveals alternative mechanisms that induce GCN4 mRNA translation. Gene 179, 271-277.
15. Georgatsou E., Mavrogiannis L. A., Fragiadakis G. S. and Alexandraki D. (1997) The yeast Fre1p/Fre2p cupric reductases facilitate copper uptake and are regulated by the copper-modulated Mac1p activator. J. Biol. Chem. 272, 13786-13792.
16. Tzermia M., Katsoulou C. and Alexandraki D. (1997) Sequence Analysis of a 33.2 kb Segment from the Left Arm of Yeast Chromosome XV Reveals 8 Known Genes and 10 New Open Reading Frames Including Homologues of ABC Transporters, Inositol Phosphatases and Human ESTs. Yeast 13, 583-589.
17. Dujon, B., ...Alexandraki, D.,...Katsoulou, C.,...Tzermia,...and Kleine, K. (1997). The complete nucleotide sequence of Saccharomyces cerevisiae chromosome XV. Nature 387 (Supp.), 98-102.
18. Goffeau A., … Alexandraki D., … Horaitis O., … Thireos G. … Tzermia M,… (1997) The yeast genome directory. Nature 387 (suppl.).
19. Voutsina A., Riva M., Carles C. and Alexandraki D. (1999) Sequence divergence of the RNA polymerase shared subunit ABC14.5 (Rpb8) affects selectively the RNA polymerase III assembly in Saccharomyces cerevisiae. Nucl. Acids Res. 27, 1047-1055.
20. Georgatsou E. and Alexandraki D. (1999) Regulated Expression of the Saccharomyces cerevisiae Fre1p/Fre2p Fe/Cu Reductase Related Genes. Yeast 15, 573-584.
21. Voutsina A., Fragiadakis G. S., Boutla A. and Alexandraki D. (2001) The second cysteine-rich domain of Mac1p is a potent transactivator that modulates DNA binding efficiency and functionality of the protein. FEBS Lett. 494, 38-43.
22. Georgakopoulos T., Koutroubas G., Vakonakis I., Tzermia M., Prokova V. Voutsina A. and Alexandraki D. (2001) Functional analysis of the Saccharomyces cerevisiae YFR021w/ YGR223c/YPL100w ORF family suggests relations to mitochondrial/peroxisomal functions and amino acid signaling pathways. Yeast 18, 1155-1171.
23. Fragiadakis G.S., Tzamarias D. and Alexandraki D. (2004) Nhp6 facilitates Aft1 binding and Ssn6 recruitment both essential for FRE2 transcriptional activation. EMBO J. 23, 333-342.
24. Andreadis C, Nikolaou C, Fragiadakis GS, Tsiliki G, Alexandraki D. (2014) Rad9 interacts with Aft1 to facilitate genome surveillance in fragile genomic sites under non-DNA damage-inducing conditions in S. cerevisiae. Nucleic Acids Res 42(20): 12650-67.
25. Gkouskou, K., Fragiadakis, G.S., Voutsina, A., Alexandraki, D. S. cerevisiae Rad9 recruitment in Mac1 regulated transcription in the absence of DNA damage (Resubmitted for publication).
26. Mara P., Fragiadakis G.S., Gkountromichos F. and Alexandraki D. (2018) The pleiotropic effects of the glutamate dehydrogenase (GDH) pathway in S. cerevisiae. Microbial Cell Factories, 17: 170.
27. Voutsina, A., Fragiadakis, G.S, Gkouskou, K., Alexandraki, D. (2019) Synergy of Hir1, Ssn6 and Snf2 global regulators is the functional determinant of a Mac1 transcriptional switch in S. cerevisiae copper homeostasis. Current Genetics Jan 28. doi: 10.1007/s00294-019-00935-5.
Alexandraki D. (2002) From DNA Sequence to Function, in Genome Sequencing and Comparative Analysis Eds A. S. Tsaftaris & A. N. Polidoros, pp 133-158.
10. Thireos, G., Alexandraki, D., Georgakopoulos, T., Dialynas, G., Krupitza, G., Maniataki, E., Roussou I., Tzamarias, D. and Tzortzakis, N. Translational regulation of GCN4 mRNA and the control of protein synthetic rates in yeast. C.G.E.B. Colloquium on “Eukaryotic Gene Regulation and Expression”, Heraklio, Crete, Greece, May 1990.
11. Alexandraki, D., Tzamarias, D., and Thireos, G. (1990). High levels of uncharged tRNAs override the known signalling pathway for the translational activation of the GCN4 mRNA. Yeast, 6, special issue, s390. 15th International Conference on Yeast Genetics and Molecular Biology, The Hague, The Netherlands, July 1990.
14. Thireos, G., Alexandraki, D., Dialynas, G., Georgakopoulos, T., Georgatsou, E., Maniataki, E. and Tavernarakis, N. Transcriptional and translational control mechanisms: the GCN4 model in yeast. 9th Balkan Biochemical and Biophysical Days, May 1992.
15. Thireos, G., Alexandraki, D., Georgakopoulos, T., Maniataki, E. and Tavernarakis, N. Transcriptional and translational control mechanisms: the GCN4 model in yeast. 16th International Conference of Yeast Genetics and Molecular Biology, Vienna, Austria, August 1992.
17. Thireos, G., Alexandraki, D., Georgakopoulos, T., Maniataki, E. and Tavernarakis, N. Translational and transcriptional regulation of gene expression: The GCN4 model in yeast. Workshop on “Control of Gene Expression in Yeast”. Madrid, Spain, December 1992.
33. Alexandraki. a) From DNA sequence to function. b) Functional analysis of the yeast Saccharomyces cerevisiae genome. Genome Sequence and Comparative Analysis: Advanced Workshop in Biotechnology, organized by the European Commission, in the framework of the Biotechnology R&D Programme (1999 – 2000), Thessaloniki, Greece 21-25 November 1999. (Presentation and review paper).
38. Voutsina, K. Gkouskou, Y. Kagiampakis, G. S. Fragiadakis and D. Alexandraki. Mac1p interacting proteins reveal novel copper-independent Mac1p regulation. The XXth International Conference on Yeast Genetics and Molecular Biology. Prague, Czech Republic, August 26-31, 2001. [Poster]. YEAST, 18, Supplement 1, S93.
39. S. Fragiadakis, E. Georgatsou, A. Voutsina and D. Alexandraki. THE HMG PROTEINS Nhp6A/B PROMOTE THE Aft1p-MEDIATED TRANSCRIPTIONAL ACTIVATION OF FRE2 FERRIC REDUCTASE GENE IN Saccharomyces cerevisiae. Cold Spring Harbor Laboratory Meeting in Mechanisms of Eukaryotic Transcription, August 29-September 2, 2001.
40. Voutsina, G.S. Fragiadakis and D. Alexandraki. Mac1p modulation by copper and protein interactions in Saccharomyces cerevisia. SMYTE 19 (Small Meeting on Yeast Transport and Energetics), Chania, Crete, Greece, September 14-17, 2001 [Oral presentation].
41. Alexandraki. Molecular information and perspectives. P.E.V. (Union of Greek Biologists) 2nd Greek Meeting on Health. Postgenomic Era: Genomic Applications and Perspectives. Athens October 5-6, 2001 [Oral presentation].
46. Kokkinaki M, Koutelou E, Bazopoulou M-D, Georgakopoulos T, Alexandraki D, Pavlopoulos E, Moschonas NK. Neuralized has ligase E3 activity for protein sumoylation and is part of the ubiquitination complex. ΕΕΒΜΒ (Biochemical Society Conference) Athens, November 13-15 2003 [Poster] .
47. Voutsina A, Gkouskou Kand Alexandraki D. Hir1 and Ssn6 coregulators function in combination on the Mac1-dependent CTR1 The XXII International Conference on Yeast Genetics & Molecular Biology. Bratislava, Slovak Republic, August 7-12, 2005 [Poster].
50. Gkouskou, A. Voutsina, G. S. Fragiadakis, C. Andreadis and D. Alexandraki. Á novel role for the S. cerevisiae Rad9 DNA damage checkpoint protein in metalloregulated transcription. ΕΕΒΜΒ (Biochemical Society Conference) Athens, December 7-9 2007. [Oral presentation and Poster].

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