Publications

Selected Publications:

1. Rawal, Y., Jia, L., Meir, A., Zhou, S., Kaur, H., Ruben, E.A., Kwon, Y., Bernstein, K.A., Jasin, M., Taylor, A.B., Burma, S., Hromas, R., Mazin, A.V., Zhao, W., Zhou, D., Wasmuth, E.V., Greene, E.C., Sung, P., Olsen, S.K. (2023) Structural insights into BCDX2 complex function in homologous recombination. Nature, 619 (7970): 640-649. https://pubmed.ncbi.nlm.nih.gov/37344589/
   
   

2. Luong, T.T., Li, Z., Priedigkeit, N., Parker, P.S., Böhm, S., Rapchak, K., Lee, A.V., Bernstein, K.A. (2022) Hrq1/RECQL4 regulation is critical for preventing aberrant recombination during DNA intrastrand crosslink repair and is upregulated in breast cancer. PLoS Genetics, 18(9): e1010122. https://pubmed.ncbi.nlm.nih.gov/36126066/
   
   

3. Prakash, R.#.*, Rawal, Y.#, Sullivan, M.R.#, Grundy, M.K., Bret, H., Mihalevic, M.J., Rein, H.L., Baird, J.M., Darrah, K., Zhang, F., Wang, R., Traina, T.A., Radke, M.R., Kaufmann, S.H., Swisher, E.M., Guerois, R., Modesti, M., Sung, P., Jasin, M.*, Bernstein, K.A.* (2022) Homologous recombination-deficient mutation cluster in tumor suppressor RAD51C identified by comprehensive analysis of cancer variants. Proceedings of the National Academy of Sciences. 119(38): e2202727119  #Equal contribution, *Co-corresponding https://pubmed.ncbi.nlm.nih.gov/36099300/
   
   

4. Bonilla, B., Brown, A.J., Hengel, S.R., Rapchak, K.S., Mitchell, D., Pressimone, C.A., Fagunloye, A.A., Luong, T.T., Russell, R.A., Vyas, R.K., Mertz, T.M., Zaher, H.S., Mosammaparast, N., Malc, E.P., Mieczkowski, P.A., Roberts, S.A.*, and Bernstein, K.A.* (2021) The Shu complex prevents mutagenesis and cytotoxicity of single-strand specific alkylation lesions. eLife. 10:e68080. *Co-corresponding pubmed.ncbi.nlm.nih.gov/34723799/
   
   

5. Martino, J., Brunette, G.J., Barroso-González, J., Moiseeva, T.N., Smith, C.M., Bakkenist, C.J., O'Sullivan, R.J., and Bernstein, K.A. (2019) The human Shu complex functions with PDS5B and SPIDR to promote homologous recombination. Nucleic Acids Research. 47(19): 10151-10165. pubmed.ncbi.nlm.nih.gov/31665741/
   
   

6. Brunette, G.J., Jamalruddin, M.A., Baldock, R.A., Clark, N.L., and Bernstein, K.A. (2019) Evolution-based screening enables genome-wide prioritization and discovery of DNA repair genes. Proceedings of the National Academy of Sciences. 116(39): 19593-19599. pubmed.ncbi.nlm.nih.gov/31501324/
   
   

7. Rosenbaum, J.C., Bonilla, B., Hengel, S.R., Mertz, T.M., Herken, B.W., Kazemier, H.G., Pressimone, C.A., Ratterman, T.C., MacNary, E., De Magis, A., Kwon, Y., Godin, S.K., Van Houten, B., Normolle, D.P., Sung, P., Das, S.R., Paeschke, K., Roberts, S.A., VanDemark, A.P., and Bernstein, K.A. (2019) The Rad51 paralogs facilitate a novel DNA strand specific damage tolerance pathway. Nature Communications. 10(1): 3515. www.ncbi.nlm.nih.gov/pubmed/31383866
   
   

8. Gaines, W., Godin, S.K., Kabbinavar, F.F., Rao, T., VanDemark, A.P., Sung, P.*, and Bernstein, K.A.* (2015) Promotion of presynaptic filament assembly by the ensemble of S. cerevisiae Rad51 paralogues with Rad52. *Co-correspoding, Nature Communications. 28(6): 7834.   http://www.ncbi.nlm.nih.gov/pubmed/26215801
   *Interviewed for Pittsburgh's National Public Radio Affiliate WESA
   *Featured on Futurity
   *Featured on GEN News Highlights
   
   

9. Godin, S.K., Meslin, C., Kabbinavar, F., Bratton-Palmer, D.S., Hornack, C., Mihalevic, M.J., Yoshida, K., Sullivan, M., Clark, N.L.*, and Bernstein, K.A.* (2015) Evolutionary and functional analysis of the invariant SWIM domain in the conserved Shu2/SWS1 protein family from Saccharomyces cerevisiae to Homo sapiens. Genetics. 199(4): 1023-1033. *Joint corresponding http://www.ncbi.nlm.nih.gov/pubmed/25659377
   *Issue Highlight
   *Featured as top news on SGD website http://www.yeastgenome.org/once-you-start-looking-shu2-homologs-are-everywhere
   
   

All Publications:

1. Hengel, S.R.*, Oppenheimer, K., Smith, C.M., Schaich, M.A., Rein, H.L., Martino, J., Darrah, K.E., Witham, M., Ezekwenna, O., Burton, K., Van Houten, B., Spies, M., Bernstein, K.A.* (2024) The human Shu complex promotes RAD51 activity by modulating RPA dynamics on ssDNA, Nature Communications, 15(1): 7197. *Co-corresponding

https://pubmed.ncbi.nlm.nih.gov/39169038/

2. Rein, H.L., and Bernstein, K.A. (2024) Variants in the first methionine of RAD51C are homologous recombination proficient due to an alternative start site, DNA Repair, 135: 103644.
   
   

3. Rein, H.L. and Bernstein, K.A. (2023) Finding significance: New perspectives in variant classification of the RAD51 regulators, BRCA2 and beyond. DNA Repair. 130: 103563. https://pubmed.ncbi.nlm.nih.gov/37651978/
   
   

4. Toland, S., Robinson-McCarthy L.R., Lee, N., Schaich, M.A., Hengel, S.A., Li, X., Bernstein, K.A., Van Houten, B., Chang, Y., Moore, P.S. (2023) Unlicensed origin DNA melting by MCV and SV40 polyomavirus LT proteins does not require an active helicase enzyme. Proceedings of the National Academy of Sciences,120 (30): e2308010120. https://pubmed.ncbi.nlm.nih.gov/37459531/
   
   

5. Bai, S., Taylor, S.E., Jamalruddin, M.A., McGonigal, S., Grimley, E., Yang, D., Bernstein, K.A., Buckanovich, R.J. (2022) Targeting therapeutic resistance and multinucleate giant cells in CCNE1-amplified HR-proficient ovarian cancer. Molecular Cancer Therapy. 21(9): 1743-1484. pubmed.ncbi.nlm.nih.gov/35732503/
   
   

6. Luong, T.T. and Bernstein, K.A. (2021) Role and regulation of the RECQL4 family during genomic integrity maintenance. Genes. 12(12): 1919.     pubmed.ncbi.nlm.nih.gov/34946868/
   
   

7. Rein, H.L., Bernstein, K.A., and Baldock, R. (2021) RAD51 paralog function in replicative DNA damage and tolerance. Current Opinions in Genes & Development. 71: 86-91. pubmed.ncbi.nlm.nih.gov/34311385/
   
   

8. Prakash, R., Sandoval, T., Morati, F., Zagelbaum, J.A., Lim, P.X., Taylor, B., Wang, R., Desclos, E.C.B., Sullivan, M.R., Rein, H.L., Bernstein, K.A., Krawczyk, P.M., Gautier, J., Modesti, M., Vanoli, F., and Jasin, M. (2021) Distinct pathways of homologous recombination controlled by the SWS1-SWSAP1-SPIDR complex. Nature Communications. 12(1): 4255. pubmed.ncbi.nlm.nih.gov/34253720/
   
   

9. Sullivan, M.R., Prakash, R.*, Rawal, Y., Wang, W., Sung, P., Radke, M.R., Kauffmann, S.H., Swisher, E.M., Bernstein, K.A.*, and Jasin, M.* (2021) Long-term survival of an ovarian cancer patient harboring a RAD51C missense mutation. Cold Spring Harbor Molecular Case Studies. 7(2): a006083. *Co-corresponding https://pubmed.ncbi.nlm.nih.gov/33832919/ *Featured Article
   
   

10. Grimley, E., Cole, A.J., Luong, T.T., McGonigal, S.C., Sinno, S., Yang, D., Bernstein, K.A., and Buckanovich, R.J. (2021) Aldehyde dehydrogenase inhibitors promote DNA damage in ovarian cancer and synergize with ATM/ATR inhibitors. Theranostics. 11(8): 3540-3551. https://pubmed.ncbi.nlm.nih.gov/33664846/
    
    

11. Grundy, M.K., Buckanovich, R.J., and Bernstein, K.A. (2020) Regulation and pharmacological targeting of RAD51 in cancer. NAR Cancer. 2(3): zcaa024. pubmed.ncbi.nlm.nih.gov/33015624/
    *Top 5 most cited Nar Cancer articles of 2020-2021
    
    

12. Huang, J.W., Acharya, A., Taglialatela, A., Nambiar, T.S., Cuella-Martin, R., Leuzzi, G., Hayward, S.B., Joseph, S.A., Brunette, G.J., Anand, R., Soni, R.K., Clark, N.L., Bernstein, K.A., Cejka, P., and Ciccia, A. (2020) MCM8IP activates the MCM8-9 helicase to promote DNA synthesis and homologous recombination upon DNA damage. Nature Communications. 11(1): 2948. pubmed.ncbi.nlm.nih.gov/32528060/
    
    

13. Bonilla, B., Hengel, S.R., Grundy, M.K., Bernstein, K.A. (2020) RAD51 gene family structure and function, Annual Review of Genetics. 54: 24-46. pubmed.ncbi.nlm.nih.gov/32663049/
    
    

14. Garcin, E.B., Gon, S., Sullivan, M.R., Brunette, G.J., De Cian, A., Concordet, J.P., Giovannangeli, C., Dirks, W.G., Eberth, S., Bernstein, K.A., Prakash, R., Jasin, M., and Modesti, M. (2019) Differential requirements for the RAD51 paralogs in genome repair and maintenance in human cells. PLoS Genetics. 15(10): e1008355. pubmed.ncbi.nlm.nih.gov/31584931/
    
    

15. Barroso-González, J., García-Expósito, L., Hoang, S.M., Lynskey, M.L., Roncaioli, J.L., Ghosh, A., Wallace, C.T., de Vitis, M., Modesti, M., Bernstein, K.A., Sarkar, S.N., Watkins, S.C., and O'Sullivan, R.J. (2019) RAD51AP1 Is an essential mediator of alternative lengthening of telomeres. Molecular Cell. 76(1): 11-26. www.ncbi.nlm.nih.gov/pubmed/31400850
    
    

16. Chefetz, I., Grimley, E., Yang, K., Hong, L., Vinogradova, E.V., Suciu, R., Kovalenko, I., Karnak, D., Morgan, C.A., Chtcherbinine, M., Buchman, C., Huddle, B., Barraza, S., Morgan, M., Bernstein, K.A., Yoon, E., Lombard, D.B., Bild, A., Mehta, G., Romero, I., Chiang, C.Y., Landen, C., Cravatt, B., Hurley, T.D., Larsen, S.D., and Buckanovich, R.J. (2019) A Pan-ALDH1A inhibitor induces necroptosis in ovarian cancer stem-like cells. Cell Reports. 26(11):3061-3075. www.ncbi.nlm.nih.gov/pubmed/30865894
    
    

17. Baldock, R.A., Pressimone, C.A., Baird, J.M., Khodakov, A., Luong, T.T., Grundy, M.K., Smith, C.M., Karpenshif, Y., Bratton-Palmer, D.S., Prakash, R., Jasin, M., Garcin, E.B., Gon, S., Modesti, M., and Bernstein, K.A. (2019) RAD51D splice variants and cancer-associated mutations reveal XRCC2 interaction to be critical for homologous recombination. DNA Repair. 76:99-107.  https://www.ncbi.nlm.nih.gov/pubmed/30836272
    
    

18. Sullivan, M.R., ​and Bernstein, K.A. (2018) RAD-ical new insights into RAD51 regulation. Genes. (Basel), 9(12): E629, 1-22    www.ncbi.nlm.nih.gov/pubmed/30551670
    
    

19. Westmoreland J.W., Mihalevic M.J., Bernstein, K.A., and Resnick M.A. (2018) The global role for CDC13 and YKu70 in preventing telomere resection across the genome. ​DNA Repair. 62: 8-17. https://www.ncbi.nlm.nih.gov/pubmed/29247743
    
    

20. Varlakhanova N.V., Mihalevic M.J., Bernstein, K.A., Ford M.G.J. (2017) Pib2 and EGO Complex are both required for activation of TORC1. Journal of Cell Science. 130(22):3878-3890. https://www.ncbi.nlm.nih.gov/pubmed/28993463
    
    

21. Zacchi, L.F., Dittmar, J.C., Mihalevic, M.J., Shewan, A.M., Schulz, B.L., Brodsky, J.L., and Bernstein, K.A. (2017) Early-onset dystonia: a novel high-throughput yeast genetic screen for factors modifying protein levels of torsinA∆E. Disease Models and Mechanisms. 10(9):1129-1140.​
    
    

22. Kondrashova O., Nguyen M., Shield-Artin, K., Tinker, A.V., Teng, N.N.H., Harrell, M.I., Kuiper, M.J., Ho, G.Y., Barker, H., Jasin, M., Prakash, R., Kass, E.M., Sullivan, M.R., Brunette, G.J., Bernstein, K.A., Coleman, R.L., Floquet, A., Friedlander, M., Kichenadasse, G., O'Malley, D.M., Oza, A.M., Sun, J., Robillard L., Maloney, L., Bowtell, D., AOCS Study Group, Giordano, H., Wakefield M.J., Kaufmann S.H., Simmons, A.D., Harding, T.C., Raponi, M., McNeish, I.A., Swisher, E.M., Lin K., and Scott, C.L. (2017) Secondary somatic mutations restoring RAD51C and RAD51D associated with acquired resistance to the PARP inhibitor Rucaparib in high-grade ovarian carcinoma. Cancer Discovery. 7(9):984-998. ​https://www.ncbi.nlm.nih.gov/pubmed/28588062​​​
    *Featured on Cover
    
    

23. Kong, M., Liu, L., Chen, X., Driscoll, K.I., Mao, P., Böhm, S., Kad, N.M., Watkins, S.C., Bernstein, K.A., Wyrick, J.J., Min, J.H., and Van Houten, B. (2016) Single-molecule imaging reveals that Rad4 employs a dynamic DNA damage recognition process. Molecular Cell. 64(2): 376-387. ​https://www.ncbi.nlm.nih.gov/pubmed/2772064
    
    

24. Martino, J. and Bernstein, K.A. (2016) The Shu complex is a conserved regulator of homologous recombination. FEMS Yeast Research. 16(6): fow073. https://www.ncbi.nlm.nih.gov/pubmed/27589940
    
    

25. ​Godin, S.K., Zhang, Z., Herken, B.W., Westmoreland, J.W., Lee, A.G., Mihalevic, M.J., Yu, Z., Sobol, R.W., Resnick, M.A., and Bernstein, K.A. (2016) The Shu complex promotes error-free tolerance of alkylation-induced base excision repair products. Nucleic Acids Research. 44(17): 8199-8215. ​http://www.ncbi.nlm.nih.gov/pubmed/27298254
    ​​

26. Godin, S.K., Sullivan, M.R., and Bernstein, K.A. (2016) Novel insights into RAD51 activity and regulation during homologous recombination and DNA replication. Journal of Biochemistry and Cell Biology. 94: 1-12. http://www.ncbi.nlm.nih.gov/pubmed/27224545
    
    

27. McClendon, T.B., Sullivan, M.R., Bernstein, K.A.*, and Yanowitz, J.L.* (2016) Promotion of homologous recombination by SWS-1 in complex with RAD-51 paralogs in Caenorhabditis elegans. Genetics. 203(1): 133-145. *Co-corresponding       http://www.ncbi.nlm.nih.gov/pubmed/26936927
    *Featured as a Genetics Primer [Turcotte, C.A., Andrews, N.P., Sloat, S.A., Checchi, P.M. CRISPR Technology Reveals RAD(51)-ical Mechanisms of Repair in Roundworms: An Educational Primer for Use with “Promotion of Homologous Recombination by SWS-1- in Complex with RAD-51 Paralogs in Caenorhabditis elegans” (2016) Genetics 204: 883-891]
    
    

28. Godin, S.K., Lee, A.G., Baird, J.M., Herken, B.W., and Bernstein, K.A. (2016) Tryptophan biosynthesis is important for resistance to replicative stress in Saccharomyces cerevisiae. Yeast. 33(5): 183-189. ​http://www.ncbi.nlm.nih.gov/pubmed/26804060
    ​​

29. Böhm, S., Szakal, B., Herken, B.W., Sullivan, M.R., Mihalevic, M.J., Kabbinavar, F.F., Branzei, D., Clark, N.L., and Bernstein, K.A. (2016) The budding yeast ubiquitin protease Ubp7 is a novel component involved in S-phase progression. Journal of Biological Chemistry. 291(9): 4442. ​http://www.ncbi.nlm.nih.gov/pubmed/26740628
    ​

30. Wei, L., Nakajima, S., Böhm, S., Bernstein, K.A., Shen, Z., Tsang, M., Levine, A.S., and Lan, L. (2015) DNA damage during the G0/G1 phase triggers RNA-templated, Cockayne Syndrome B-dependent homologous recombination. Proceedings of the National Academy of Sciences. 11(27): 3495-3504. ​http://www.ncbi.nlm.nih.gov/pubmed/26100862
    
    

31. Böhm, S., Mihalevic, M.J., Casal, M.A., and Bernstein, K.A. (2015) Disruption of SUMO-targeted ubiquitin ligases Slx5-Slx8/RNF4 alters RecQ-like helicase Sgs1/BLM localization in yeast and human cells. DNA Repair. 26: 1-14. ​http://www.ncbi.nlm.nih.gov/pubmed/25588990
    
    

32. Böhm, S. and Bernstein, K.A. (2014) The role of post-translational modifications in fine-tuning BLM helicase function during DNA repair. DNA Repair, 22: 123-132. ​http://www.ncbi.nlm.nih.gov/pubmed/25150915
    
    

33. Fu Q., Chow, J., Bernstein, K.A., Makharashvili, N., Arora, S., Lee, C.F., Person, M.D., Rothstein, R., Paull, T.T. (2014) Phosphorylation-regulated transitions in an oligomeric state control the activity of the Sae2 DNA repair enzyme. Molecular and Cellular Biology. (34)5: 778-793. ​http://www.ncbi.nlm.nih.gov/pubmed/24344201
    
    

34. Bernstein, K.A., Mimitou, E.P., Mihalevic, M.J., Chen, H., Sunjaveric, I., Symington, L.S., and Rothstein R. (2013) Resection activity of the Sgs1 helicase alters the affinity of DNA ends for homologous recombination proteins in Saccharomyces cerevisiae. Genetics. 195(4): 1241-1251. ​http://www.ncbi.nlm.nih.gov/pubmed/24097410 ​*Issue Highlight
    
    

35. Bernstein, K.A., Juanchich, A., Sunjevaric, I., and Rothstein, R. (2013) The Shu complex regulates Rad52 localization during rDNA repair. DNA Repair. 12(9): 786-790. ​http://www.ncbi.nlm.nih.gov/pubmed/23790361
    
    

36. Godin, S., Wier, A., Kabbinavar, F., Bratton-Palmer, D.S., Ghodke, H., Van Houten, B., VanDemark, A.P., and Bernstein, K.A. (2013) The Shu complex interacts with Rad51 through the Rad51 paralogues Rad55-Rad57 to mediate error-free recombination. Nucleic Acids Research. 41(8): 4525-4534. ​http://www.ncbi.nlm.nih.gov/pubmed/23460207
    ​​​

37. Karpenshif, Y. and Bernstein, K.A. (2012) From yeast to mammals: recent advances in genetic control of homologous recombination. DNA Repair. 11(10): 781-788. ​http://www.ncbi.nlm.nih.gov/pubmed/22889934 ​*One of five most downloaded DNA Repair articles in 2013​
    
    

38. Robert, T., Vanoli, F., Chiolo, I., Shubassi, G., Bernstein, K.A., Rothstein, R., Botrugno, O.A., Parazzoli, D., Oldani, A., Miunucci, S., and Foiani, M. (2011) HDACs link the DNA damage response, processing of double-strand breaks and autophagy. Nature. 471(7336): 74-79. ​http://www.ncbi.nlm.nih.gov/pubmed/21368826
    
    

39. Bernstein, K.A., Reid, R.J., Sunjevaric, I., Demuth, K., Burgess, R.C., and Rothstein, R. (2011) The Shu complex, which contains Rad51 paralogues, promotes DNA repair through inhibition of the Srs2 anti-recombinase. Molecular Biology of the Cell. 22(9): 1599-1607. ​http://www.ncbi.nlm.nih.gov/pubmed/21372173
    
    

40. Bernstein, K.A., Gangloff, S., and Rothstein, R. (2010) The RecQ DNA Helicases in DNA repair. Annual Review of Genetics. 44: 393-417.    http://www.ncbi.nlm.nih.gov/pubmed/21047263
    
    

41. Bernstein, K.A. and Rothstein, R. (2009) At loose ends: Resecting a double strand break. Cell. 137(5): 807-810. http://www.ncbi.nlm.nih.gov/pubmed/19490890
    
    

42. Bernstein, K.A., Shor, E., Sunjevaric, I.,  Fumasoni, M., Burgess, R.C., Foiani, M., Branzei, D., and Rothstein R. (2009) The role of the Sgs1 helicase in DNA replication is separate from its role in recombinational repair. EMBO Journal. 28(7): 915-925. http://www.ncbi.nlm.nih.gov/pubmed/19214189
    ​

43. Bernstein, K.A., Bleichert, F., Bean J., Cross, F.R., and Baserga, S.J. (2007) Ribosome biogenesis is sensed at the Start cell cycle checkpoint.  Molecular Biology of the Cell. 18(3):953-964. ​http://www.ncbi.nlm.nih.gov/pubmed/17192414
    
    

44. Bernstein, K.A., Granneman, S., Lee, A.V., Manickam, S., and Baserga, S.J. (2006) A comprehensive mutational analysis of yeast DExD/H box RNA helicases involved in large ribosomal subunit biogenesis.  Molecular and Cellular Biology. 26(4): 1195-1208. ​http://www.ncbi.nlm.nih.gov/pubmed/16449635
    
    

45. Granneman, S., Bernstein, K.A., Bleichert, F., and Baserga, S.J. (2006) A comprehensive mutational analysis of yeast DExD/H box RNA helicases required for small ribosomal subunit synthesis.  Molecular and Cellular Biology. 26(4): 1183-1194. ​http://www.ncbi.nlm.nih.gov/pubmed/16449634
    ​​​​

46. Bernstein, K.A., and Baserga, S.J. (2004). The SSU processome is required for cell cycle progression at G1. Molecular Biology of the Cell. 15(11): 5038-5046. ​http://www.ncbi.nlm.nih.gov/pubmed/15356263
    
    

47. Bernstein, K.A., Gallagher, J.E.G., Mitchell, B.M., Granneman, S., and Baserga, S.J. (2004). The SSU processome is a ribosome assembly intermediate. Eukaryotic Cell. 3(6): 1619-1626. ​http://www.ncbi.nlm.nih.gov/pubmed/15590835
    
    Former Name:  Kara Porwancher
                                                                                                                        

48. Dragon, F., Gallagher, J.E., Compagnone-Post, P.A., Mitchell, B.M., Porwancher, K.A., Wehner, K.A., Wormsley, S., Settlage, R.E., Shabanowitz, J., Osheim, Y., Beyer, A.L., Hunt, D.F., and Baserga, S.J. (2002). A large nucleolar U3 ribonucleoprotein required for 18S ribosomal RNA biogenesis. Nature. 417: 967-970. ​http://www.ncbi.nlm.nih.gov/pubmed/12068309                                                                     ​*Recommended by Faculty of 1000
    
    

49. Alonso, M., Hamelin, R., Kim, M., Porwancher, K., Sung, T., Parhar, P., Miller, D.C., and Newcomb, E.W. (2001) Microsatellite instability occurs in distinct subtypes of pediatric but not adult central nervous system tumors. Cancer Research. 61: 2124-2128. ​http://www.ncbi.nlm.nih.gov/pubmed/11280776