- Varon, M., Dovrat, D., Heuzé, J., Tsirkas, I., Singh, S.P., Pasero, P., Galletto, R., Aharoni, A. (2024) Rrm3 and Pif1 division of labor during replication through leading and lagging strand G-quadruplex. Nucleic Acids Research. Feb 28;52(4):1753-1762.
- Tsirkas, I., Zur, T., Dovrat, D., Paleiov, Z., Ravkaie, L., Aharoni, A. (2023) Enhanced fluorescent imaging of proteins in live yeast cells using fluorescently labeled scFv. STAR Protoc. 2023 Jun 2;4(2):102299.
- Tsirkas, I., Zur, T., Dovrat, D., Cohen, A., Ravkaie, L., Aharoni, A. (2022) Protein fluorescent labeling in live yeast cells using scFv-based probes. Cell Rep Methods. 2022 Dec 6;2(12):100357.
- Tsirkas, I., Dovrat, D., Thangaraj, M., Brouwer, I., Cohen, A., Paleiov, Z., Meijler, M.M., Lenstra, T. and Aharoni, A. (2022) Transcription-replication coordination revealed in single live cells. Nucleic Acids Research, Feb 28;50(4):2143-2156.
- Hendler, A., Akiva, E., Sandhu, M., Goldberg, D., Arbely, E., Jackson C.J., Aharoni, A. (2021) Human SIRT1 multi-specificity is modulated by active-site vicinity substitutions during natural evolution. Molecular Biology and Evolution. Jan 23;38(2):545-556.
- Tsirkas, I., Dovrat, D., Lei, Y., Kalyva, A., Lotysh, D., Li, Q., Aharoni, A., (2021) Cac1 WHD and PIP domains have distinct roles in replisome progression and genomic stability. Curr Genet. Feb;67(1):129-139
- Dahan, D., Tsirkas, I., Dovrat, D., Sparks, M.A, Singh, S.P., Galletto, R., Aharoni, A. (2018) Pif1 is essential for efficient replisome progression through lagging strand G-quadruplex DNA secondary structures. Nucleic Acids Research Dec 14;46(22):11847-11857.
- Dovrat, D., Dahan, D., Sherman, S., Tsirkas, I., Elia, N., Aharoni, A. (2018) A live-cell imaging approach for measuring DNA replication rates. Cell Rep. Jul 3;24(1):252-258.
- Soreanu, I., Hendler, A., Dahan, D., Dovrat, D., Aharoni, A. (2018) Marker-free genetic manipulations in yeast using CRISPR/CAS9 system. Curr Genet. 64 (5) 1129-1139.
- Hendler, A., Medina, E.M., Kishkevich, A., Abu-Qarn, M., Klier, S., Buchler, N.E., de Bruin, R.A.M , Aharoni, A. (2017) Gene duplication and co-evolution of G1/S transcription factors specificity in fungi are essential for optimizing cell fitness. PLoS Genetics May 15;13(5):e1006778.
- Dovrat, D., Stodola, J.L., Burgers, P.M, Aharoni, A. (2014) Sequential switching of binding partners on PCNA during in vitro Okazaki fragment maturation. Proc. Natl. Acad Sci. USA. 111(39):14118-23.
- Zaretsky, M., Etzyoni, R., Kaye, K., Sklair-Tavron, L., Aharoni, A., (2013) Directed Evolution of a Soluble Human IL-17A Receptor for the Inhibition of Psoriasis Plaque in Mice Model. Chemistry and Biology 20: 202-211.
- Zamir, L., Zaretsky, M., Fridman, Y., Ner-Gaon, H., Rubin, E., Aharoni, A., (2012) Tight co-evolution of PCNA-partner interaction networks in fungi leads to inter-species network incompatibility. Proc. Natl. Acad Sci. USA. 109(7):E406-14.
- Amar, D., Berger, I., Amara, N., Tafa, G., Meijler, M., Aharoni, A., (2012) The Transition of Human Estrogen Sulfotransferase from Generalist to Specialist using Directed Enzyme Evolution. J. Mol. Biol. 10;416(1):21-32
- Fridman, Y., Palgi, N., Dovrat, D., Ben-Aroya, S., Hieter, P., Aharoni, A., (2010) Subtle Alterations in PCNA-partner Interactions Severely Impair DNA Replication and Repair. PLoS Biology. 8 (10) e100
- Aharoni, A., Thieme, K., Chiu, C.P.C., Buchini, S., Lairson, L.L., Chen, H., Strynadka, N.C.J., Wakarchuk, W.W., Withers, S.G. (2006) Novel high throughput screening methodology for the directed evolution of glycosyltransferases. Nature Methods 3(8):609-614.
- Aharoni, A., Gaidukov, L., Khersonsky, O., Gould, S.M., Roodveldt, C., Tawfik, D.S. (2005) The 'evolvability' of promiscuous protein functions. Nature Genetics 37(1):73-76.
- Aharoni, A., Griffiths, A. D., Tawfik, D.S. (2005) High-throughput screens and selections of enzyme encoding genes. Curr. Opin. Chem. Biol. 9(2):210-216.
- Aharoni, A., Gaidukov, L., Yagur, S., Toker, L., Silman, I., Tawfik, D.S. (2004) Directed evolution of PON1 and PON3 for bacterial expression and catalytic specialization. Proc. Natl. Acad Sci. USA. 101 (2): 482-487.
- Harel, M.*, Aharoni, A.*, Gaidukov, L., Brumshtein, B., Khersonsky, O., Meged, R., Dvir, H., Ravelli, R.B., McCarthy, A., Toker, L., Silman, I., Sussman, J.L., Tawfik, D.S. (2004) Structure and evolution of the serum paraoxonase family of detoxifying and anti-atherosclerotic enzymes. Nature Struct. Mol. Biol. 11(5):412-419. * These authors contributed equally to this work.
- Aharoni, A., Weiner, L., Lewis, A., Ottolenghi, M. & Sheves, M. (2001). Non-isomerizable non-retinal chromophores initiate light induced conformational alterations in bacterio-opsin. J. Am. Chem. Soc. 123 (27): 6612-6616.
- Aharoni, A., Weiner, L., Ottolenghi, M. & Sheves, M. (2000). Bacteriorhodopsin Experiences Light-induced conformational alterations in nonisomerizable C13=C14 pigments. J. Biol. Chem. 275, 21010-21016.
- Aharoni, A. & Horovitz, A. (1997). Detection of changes in pairwise interactions during allosteric transitions: coupling between local and global conformational changes in GroEL. Proc. Natl. Acad Sci. USA. 94, 1698-1702.
- Aharoni, A. & Horovitz, A. (1996). Inter–ring communication is disrupted in the GroEL Mutant Arg13-Gly; Ala126-Val with known crystal structure. J. Mol. Biol. 258, 732-735.