Shaltz S, Jinks-Robertson S. Mutagenic repair of a ZFN-induced double-strand break in yeast: Effects of cleavage site sequence and spacer size. DNA Repair (Amst). 2021 Sep 16;108:103228. doi: 10.1016/j.dnarep.2021.103228. Epub ahead of print. PMID: 34601383.
Jinks-Robertson S, Petes TD. Mitotic recombination in yeast: what we know and what we don’t know. Curr Opin Genet Dev. 2021 Jul 23;71:78-85. doi: 10.1016/j.gde.2021.07.002. Epub ahead of print. PMID: 34311384.
Stantial N, Rogojina A, Gilbertson M, Sun Y, Miles H, Shaltz S, Berger J, Nitiss KC, Jinks-Robertson S, Nitiss JL. Trapped topoisomerase II initiates formation of de novo duplications via the nonhomologous end-joining pathway in yeast. Proc Natl Acad Sci U S A. 2020 Oct 27;117(43):26876-26884. doi: 10.1073/pnas.2008721117. Epub 2020 Oct 12. PMID: 33046655; PMCID: PMC7604471.
Gamble D, Hum YF, Jinks-Robertson S. High-Throughput Analysis of Heteroduplex DNA in Mitotic Recombination Products. Methods Mol Biol. 2021;2153:503-519. doi: 10.1007/978-1-0716-0644-5_34. PMID: 32840801.
Gamble D, Shaltz S, Jinks-Robertson S. Recombinational Repair of Nuclease-Generated Mitotic Double-Strand Breaks with Different End Structures in Yeast. G3 (Bethesda). 2020 Oct 5;10(10):3821-3829. doi: 10.1534/g3.120.401603. PMID: 32826304; PMCID: PMC7534431.
Williams JD, Houserova D, Johnson BR, Dyniewski B, Berroyer A, French H, Barchie AA, Bilbrey DD, Demeis JD, Ghee KR, Hughes AG, Kreitz NW, McInnis CH, Pudner SC, Reeves MN, Stahly AN, Turcu A, Watters BC, Daly GT, Langley RJ, Gillespie MN, Prakash A, Larson ED, Kasukurthi MV, Huang J, Jinks-Robertson S, Borchert GM. Characterization of long G4-rich enhancer-associated genomic regions engaging in a novel loop:loop ‘G4 Kissing’ interaction. Nucleic Acids Res. 2020 Jun 19;48(11):5907-5925. doi: 10.1093/nar/gkaa357. PMID: 32383760; PMCID: PMC7293029.
Gusa A, Williams JD, Cho JE, Averette AF, Sun S, Shouse EM, Heitman J, Alspaugh JA, Jinks-Robertson S. Transposon mobilization in the human fungal pathogen Cryptococcus is mutagenic during infection and promotes drug resistance in vitro. Proc Natl Acad Sci U S A. 2020 May 5;117(18):9973-9980. doi: 10.1073/pnas.2001451117. Epub 2020 Apr 17. PMID: 32303657; PMCID: PMC7211991.
Gusa A, Jinks-Robertson S. Mitotic Recombination and Adaptive Genomic Changes in Human Pathogenic Fungi. Genes (Basel). 2019 Nov 7;10(11):901. doi: 10.3390/genes10110901. PMID: 31703352; PMCID: PMC6895784.
Cho JE, Jinks-Robertson S. Deletions associated with stabilization of the Top1 cleavage complex in yeast are products of the nonhomologous end-joining pathway. Proc Natl Acad Sci U S A. 2019 Nov 5;116(45):22683-22691. doi: 10.1073/pnas.1914081116. Epub 2019 Oct 21. PMID: 31636207; PMCID: PMC6842612.
Jenkins SS, Gore S, Guo X, Liu J, Ede C, Veaute X, Jinks-Robertson S, Kowalczykowski SC, Heyer WD. Role of the Srs2-Rad51 Interaction Domain in Crossover Control in Saccharomyces cerevisiae. Genetics. 2019 Aug;212(4):1133-1145. doi: 10.1534/genetics.119.302337. Epub 2019 May 29. PMID: 31142613; PMCID: PMC6707447.
Hum YF, Jinks-Robertson S. Mismatch recognition and subsequent processing have distinct effects on mitotic recombination intermediates and outcomes in yeast. Nucleic Acids Res. 2019 May 21;47(9):4554-4568. doi: 10.1093/nar/gkz126. PMID: 30809658; PMCID: PMC6511840.
Klein HL, Bačinskaja G, Che J, Cheblal A, Elango R, Epshtein A, Fitzgerald DM, Gómez-González B, Khan SR, Kumar S, Leland BA, Marie L, Mei Q, Miné-Hattab J, Piotrowska A, Polleys EJ, Putnam CD, Radchenko EA, Saada AA, Sakofsky CJ, Shim EY, Stracy M, Xia J, Yan Z, Yin Y, Aguilera A, Argueso JL, Freudenreich CH, Gasser SM, Gordenin DA, Haber JE, Ira G, Jinks-Robertson S, King MC, Kolodner RD, Kuzminov A, Lambert SA, Lee SE, Miller KM, Mirkin SM, Petes TD, Rosenberg SM, Rothstein R, Symington LS, Zawadzki P, Kim N, Lisby M, Malkova A. Guidelines for DNA recombination and repair studies: Cellular assays of DNA repair pathways. Microb Cell. 2019 Jan 7;6(1):1-64. doi: 10.15698/mic2019.01.664. PMID: 30652105; PMCID: PMC6334234.
Hum YF, Jinks-Robertson S. DNA strand-exchange patterns associated with double-strand break-induced and spontaneous mitotic crossovers in Saccharomyces cerevisiae. PLoS Genet. 2018 Mar 26;14(3):e1007302. doi: 10.1371/journal.pgen.1007302.
Cho JE, Jinks-Robertson S. Topoisomerase I and Genome Stability: The Good and the Bad. Methods Mol Biol. 2018;1703:21-45. doi: 10.1007/978-1-4939-7459-7_2.
Sloan R, Huang SN, Pommier Y, Jinks-Robertson S. Effects of camptothecin or TOP1 overexpression on genetic stability in Saccharomyces cerevisiae. DNA Repair (Amst). 2017 Nov;59:69-75. doi: 10.1016/j.dnarep.2017.09.004.
Guo X, Hum YF, Lehner K, Jinks-Robertson S. Regulation of hetDNA Length during Mitotic Double-Strand Break Repair in Yeast. Mol Cell. 2017 Aug 17;67(4):539-549.e4. doi: 10.1016/j.molcel.2017.07.009. Epub 2017 Aug 3.
Hum YF, Jinks-Robertson S. Mitotic Gene Conversion Tracts Associated with Repair of a Defined Double-Strand Break in Saccharomyces cerevisiae. Genetics. 2017 Sep;207(1):115-128. doi: 10.1534/genetics.117.300057.
Kim N, Jinks-Robertson S. The Top1 paradox: Friend and foe of the eukaryotic genome.
DNA Repair (Amst). 2017 Aug;56:33-41. doi: 10.1016/j.dnarep.2017.06.005.
Cho JE, Jinks-Robertson S. Ribonucleotides and Transcription-Associated Mutagenesis in Yeast.
J Mol Biol. 2017 Oct 27;429(21):3156-3167. doi: 10.1016/j.jmb.2016.08.005.
Cho, J.E., Huang, S.N., Burgers, P.M., Shuman, S., Pommier. Y.and Jinks-Robertson S. (2016). Parallel analysis of ribonucleotide-dependent deletions produced by yeast Top1 in vitro and in vivo. Nucleic Acids Res. 44, 7714-7721.
Andersen, S.L., Sloan, R., Petes, T.D. and Jinks-Robertson, S. (2015). Genome-destabilizing effects associated with Top1 loss or accumulation of Top1 cleavage complexes in yeast. PLoS Genet. 11, e1005098.
Guo X., Lehner, K., O’Connell, K., Zhang, J., Dave, S.S. and Jinks-Robertson, S. (2015). SMRT sequencing for parallel analysis of multiple targets and accurate SNP phasing. G3 5, 2801-2808.
O’Connell, K., Jinks-Robertson, S. and Petes, T.D. (2015). Elevated genome-wide instability in yeast mutants lacking RNase H activity. Genetics 201, 963-975.
Cho, J.E., Kim, N. and Jinks-Robertson, S. (2015). Topoisomerase 1-dependent deletions initiated by incision at ribonucleotides are biased to the non-transcribed strand of a highly activated reporter. Nucleic Acids Res. 43, 9306-9313.
Lehner, K. and Jinks-Robertson, S. (2014). Shared genetic pathways contribute to the tolerance of endogenous and low-dose exogenous DNA damage in yeast. Genetics 198, 519-530.
Guo, X. and Jinks-Robertson, S. (2013). Roles of exonucleases and translesion synthesis DNA polymerases during mitotic gap repair in yeast. DNA Repair 12, 1024-1030.
Guo, X. and Jinks-Robertson, S. (2013). Removal of N-6-methyladenine by the nucleotide excision repair pathway triggers the repair of mismatches in yeast gap-repair intermediates. DNA Repair 12, 1053-1061.
Kim, N. and Jinks-Robertson, S. (2013). RNA:DNA hybrids initiate quasi-palindrome-associated mutations in highly transcribed yeast DNA. PLoS Genet. 9, e100392.
Boiteux, S. and Jinks-Robertson, S. (2013). DNA repair mechanisms and the bypass of DNA damage in Saccharomyces cerevisiae. Genetics, 193, 1025-64.
Mitchel, K., Lehner, K. and Jinks-Robertson, S. (2013). Heteroduplex DNA position defines the roles of the Sgs1, Srs2 nad Mph1 helicases in promoting distinct recombination outcomes. PLoS Genet., 9, e1003340
Kozmin SG, Jinks-Robertson S. The mechanism of nucleotide excision repair-mediated UV-induced mutagenesis in nonproliferating cells. Genetics. 2013 Mar;193(3):803-17. doi: 10.1534/genetics.112.147421.
Cho, J.-E., Kim, N. and Jinks-Robertson, S. (2013). Two distinct mechanisms of Topoisomerase 1-dependent mutatgenesis in yeast. DNA Repair, 1, 205-11.
Kim N, Jinks-Robertson, S. (2012). Transcription as a source of genome instability. Nat. Rev. Genet. 13, 204-214.
Lehner K, Mudrak SV, Minesinger BK, Jinks-Robertson S. (2012). Frameshift mutagenesis: the roles of primer-template misalignment and the nonhomologous end-joining pathway in Saccharomyces cerevisiae. Genetics 190, 501-510.
Kim, N., Mudrak, S.V. and Jinks-Robertson, S. (2011). The dCMP transferase activity of yeast Rev1 is biologically relevant during the bypass of endogenous AP sites in yeast. DNA Repair 10, 1262-1271.
Kim, N. and Jinks-Robertson, S. (2011). Guanine repeat-containing sequences confer transcription-dependent instability in an orientation-specific manner in yeast. DNA Repair 10, 953-960.
Lippert, M.J., Kim, N., Cho, J.E., Larson, R.P., Schoenly, N.E., O’Shea, S.H. and Jinks-Robertson, S. (2011). Role for topoisomerase 1 in transcription-associated mutagenesis in yeast. Proc. Natl. Acad. Sci. USA 108, 698-703.
Kim, N., Huang, S.Y., Williams, J.S., Li, Y.C., Clark, A.B., Cho, J.E., Kunkel, T.A., Pommier, Y., and Jinks-Robertson, S. (2011) Mutagenic processing of ribonucleotides in DNA by yeast topoisomerase I. Science 24, 1561-1564.
Kim, N., and Jinks-Robertson, S. (2010) Abasic sites in the transcribed strand of yeast DNA are removed by transcription-coupled necleotide excision repair. Mol. Cell. Bio. 30, 3206-3215.
Mitchel, K., Zhang, H., Welz-Voegele, C., and Jinks-Robertson, S. (2010) Molecular structures of crossover and noncrossover intermediates during gap repair in yeast: Implications for recombination. Mol. Cell. 38, 211-222.
Mudrak, S.V., Welz-Voegele, C., and Jinks-Robertson, S. (2009) The polymerase eta translesion synthesis DNA polymerase acts independently of the mismatch repair system to limit mutagenesis caused by 7,8-dihydro-8-oxoguanine in yeast. Mol. Cell. Biol. 29, 5316-5326.
Kim, N. and Jinks-Robertson, S. (2009) dUTP incorporation into genomic DNA is linked to transcription in yeast. Nature 459,1150-1153.
Lehner, K. and Jinks-Robertson, S. (2009) The mismatch repair system promotes DNA polymerase zeta-dependent translesion synthesis in yeast.Proc. Natl. Acad. Sci. USA 106, 5749-5754.
Welz-Voegele, C. and Jinks-Robertson, S. (2008) Sequence divergence impedes crossover more than noncrossover events during mitotic gap repair in yeast. Genetics 179, 1251-1262.
Stone, J.E., Ozbirn, R.G., Petes, T.D and Jinks-Robertson, S. (2008). Role of proliferating cell nuclear antigen interactions in the mismatch repair-dependent processing of mitotic and meiotic recombination intermediates in yeast. Genetics 178, 1221-1236.
Abdulovic, A.L., Minesinger, B.K. and Jinks-Robertson, S. (2008). The effect of sequence context on spontaneious Polzeta-dependent mutagenesis in Saccharomyces cerevisiae. Nucleic Acids Res. 36, 2082-2093.
Abdulovic, A.L., Minesinger, B.K. and Jinks-Robertson, S. (2007). Identification of a strand-related bias in the PCNA-mediated bypass of spontaneous lesions by yeast Poleta. DNA Repair (Amst). 6, 1307-1318.
Kow, Y.W., Bao, G., Reeves, J.W., Jinks-Robertson, S. and Crouse, G.F. (2007). Oligonucleotide transformation of yeast reveals mismatch repair complexes to be differentially active on DNA replication strands. Proc. Natl. Acad. Sci. USA 104, 11352-11357.
Abdulovic, A.L., Kim, N. and Jinks-Robertson, S. (2006). Mutagenesis and the three R’s in yeast. DNA Repair 5, 409-421.
Abdulovic, A.L. and Jinks-Robertson, S. (2006). The in vivo characterization of translesion synthesis across UV-induced lesions in Saccharomyces cerevisiae: novel insight into Polζ and Polη dependent frameshift mutagenesis. Genetics 172, 1487-1498.
Sabbioneda, S., Minesinger, B.K., Giannattasio, M., Plevani, P., Muzi-Falconi, M. and Jinks-Robertson, S. (2005). The 9-1-1 checkpoint clamp physically interacts with Polζ and is partially required for spontaneous Polζ-dependent mutagenesis in Sacchaormyces cerevisiae. J. Biol. Chem. 280, 38657-38665.
Minesinger, B.K. and Jinks-Robertson, S. (2005). Roles of RAD6 epistasis group members in spontaneous Polζ-dependent translesion synthesis in Saccharomyces cerevisiae. Genetics 169, 1939-1955.
Lippert, M.J., Freedman, J.A., Barber, M.A. and Jinks-Robertson, S. (2004). Identification of a distinctive mutation spectrum associated with high levels of transcription in yeast. Mol. Cell. Biol. 24, 4801-4809.
Welz-Voegele C1, Stone JE, Tran PT, Kearney HM, Liskay RM, Petes TD, Jinks-Robertson S. Alleles of the yeast Pms1 mismatch-repair gene that differentially affect recombination- and replication-related processes. Genetics. 2002 Nov;162(3):1131-45.
Harfe, B.D. and Jinks-Robertson, S (2000). DNA polymerase ζ introduces multiple mutations when bypassing spontaneous DNA damage in Saccharomyces cerevisiae. Mol. Cell 6, 1491-1499.
Saxe, D., Datta, A. and Jinks-Robertson, S. (2000). Stimulation of mitotic gene conversion and crossover events by high levels of RNA polymerase II transcription in yeast. Mol. Cell. Biol. 20, 5404-5414.
Chen, W. and Jinks-Robertson, S. (1998). Mismatch repair proteins regulate heteroduplex formation during mitotic recombination in yeast. Mol. Cell. Biol. 18, 6525-6537.
Datta, A., Hendrix, M., Lipsitch, M. and Jinks-Robertson, S. (1997). Dual roles for DNA sequence identity and the mismatch repair system in the regulation of mitotic recombination in yeast. Proc. Natl. Acad. Sci. USA 94, 9757-9762.
Greene, C.N. and Jinks-Robertson, S. (1996). Frameshift intermediates in homopolymer runs are removed efficiently by yeast mismatch repair proteins. Mol. Cell. Biol. 17, 2844-2850.
Datta, A. and Jinks-Robertson, S. (1995). Association of increased spontaneous mutation rates with high levels of transcription in yeast. Science 268, 1616-1619.
