Publications

* = peer reviewed, † = at Indiana University

PRIMARY RESEARCH PUBLICATIONS
1. * Bochman, ML and Schwacha, A. (2007) Differences in the single-stranded DNA binding activities of MCM2-7 and MCM467 MCM2 and MCM5 define a slow ATP-dependent step. Journal of Biological Chemistry . Nov 16; 282 (46): 33795-33804. PMID: 17895243.
PDF: Download
2. * Bochman, ML and Schwacha, A. (2008) The Mcm2-7 complex has in vitro helicase activity. Molecular Cell. Jul 25; 31 (2): 287-293. PMID: 18657510.
Evaluated at F1000: http://f1000.com/prime/1116885
PDF: Download
3. * Bochman, ML, Bell, SP, and Schwacha, A. (2008) Subunit organization of Mcm2-7 and the unequal role of active sites in ATP hydrolysis and viability. Molecular and Cellular Biology. Oct; 28 (19): 5565-5573. PMID: 18662997.
PDF: Download
4. * Bochman, ML and Schwacha, A. (2010) The Saccharomyces cerevisiae Mcm6/2 and Mcm5/3 ATPase active sites contribute to the function of the putative Mcm2-7 'gate'. Nucleic Acids Research. Oct; 38 (18): 6078-6088. PMID: 20484375.
PDF: Download
5. * Paeschke, K, Bochman, ML*, Garcia, PD, Cejka, P, Friedman, KL, Kowalczykowski, SC, and Zakian, VA. (2013) Pif1 family helicases suppress genome instability at G-quadruplex motifs. Nature. May 23; 497 (7450): 458-462. PMID: 23657261.
Co-first authors
Subject of Nature News and Views article:
http://www.nature.com/nature/journal/v497/n7450/full/nature12244.html
Evaluated at F1000: http://f1000.com/prime/718243159.
PDF: Download
6. * Simon, N, Bochman, ML, Seguin, S, Brodsky, JL, Seibel, WL, and Schwacha, A. (2013) Ciprofloxacin is an inhibitor of the Mcm2-7 replicative helicase.Bioscience Reports. Oct 7; 33 (5). Pii: e00072. PMID: 24001138.
Co-first authors.
PDF: Download
7. Bochman, ML, Paeschke, K, Chan, A, and Zakian, VA. (2014) Hrq1, a homolog of the human RecQ4 helicase, acts catalytically and structurally to promote genome integrity. Cell Reports. Jan 30; 6 (2): 346-356. PMID: 24440721
First author and corresponding author
Evaluated at F1000:
http://f1000.com/prime/718243159.
PDF: Download
8. *† Zhou, R, Zhang, J, Bochman, ML, Zakian, VA, and Ha, T. (2014) Periodic DNA patrolling underlies diverse functions of Pif1 on R-loops and G-rich DNA. eLife. Apr 29; 3: e02190. PMID: 24843019.
Highlighted paper in journal: http://elifesciences.org/content/3/e02854
PDF: Download
9. † Rogers, CM, Veatch, D, Covey, A, Stanton, C and Bochman, ML (2016) Terminal acidic shock inhibits sour beer bottle conditioning by Saccharomyces cerevisiae. Food Microbiology.. Aug; 57: 151-158.
Undergraduate author.
Inside IU Featured Spotlight: Link
Press coverage: IU press release, IU blog, Indiana on Tap, NUVO, Herald Times, Indianapolis Business Journal, Inside Indiana Business, Indy Star
Podcasts: Through the Gates (IU Provost’s Office), The Sour Hour (The Brewing Network)
PDF: Download
10. *† Rogers, CM, Noguchi, H, Yamada, K, Takagi, Y, and Bochman, ML. (2017) Yeast Hrq1 shares structural and functional homology with the disease-linked human RecQ4 helicase. Nucleic Acids Research. May 19; 45 (9) 5217-5230. PMID 28334827.
PDF: Download
11. *† Rogers, CM and Bochman, ML. Saccharomyces cerevisiae Hrq1 helicase activity is affected by the sequence but not the length of single-stranded DNA. (2017) Biochemistry and Biophysics Research Communications. 486 (4): 1116–1121. PMID: 28385527.
Open access available at: http://hdl.handle.net/2022/21360
PDF: Download
12. *† Osburn, K, Amaral, J, Metcalf, SR, Nickens, DM, Rogers, CM, Sausen, CJ, Caputo, R, Miller, J, Li, H, Tennessen, JM, and Bochman, ML. Primary souring: a novel bacteria-free method for sour beer production. Food Microbiology. Apr; 70: 76-84.
Preprint available at bioRχiv: http://biorxiv.org/content/early/2017/03/27/121103
Undergraduate author
Press coverage: Microbiome Digest (blog), The Node (blog), Science News (blog & magazine pieces) PDF: Download
13. *† Andis, NM, Sausen, CW, Alladin, A, and Bochman, ML (2018) The WYL domain of the PIF1 helicase from the thermophilic bacterium Thermotoga elfii is an accessory single-stranded DNA binding module Biochemistry.. 57 (7): 1108-1118. PMID: 29341597.
Pre-print available at bioRχiv: http://biorxiv.org/cgi/content/short/163188v2
PDF: Download
14. *† Hustmyer, CM, Simpson, C, Olney, SG, Bochman, ML, and van Kessel, JC (2018) Promoter boundaries for the luxCDABE and betIBA-proXWV operons in Vibrio harveyi defined by RAIL: Rapid Arbitrary PCR Insertion Libraries. Journal of Bacteriology.. 200 (11): e00724-17. PMID: 29531178.
15. *† Nero, TM, Dalia, TN, Wang, JC-Y, Bochman, ML, and Dalia, AB. (2018) ComM is a hexameric helicase that promotes branch migration during natural transformation in diverse Gram-negative species. Nucleic Acids Research. 46 (12): 6099-6111. PMID: 29722872.
Structure deposited to wwPDB: EMD-8575
Pre-print available at bioRχiv: http://biorxiv.org/content/early/2017/06/08/147660
PDF: Download
16. *† Barry, JP, Metz, MS, Hughey, J, Quirk, A, and Bochman, ML. (2018) Two novel strains of Torulaspora delbrueckii isolated from the honey bee gut microbiome and their use in honey fermentation. Fermentation. 4(2), 22; doi:10.3390/fermentation4020022.
Reprint at bioRχiv: http://biorxiv.org/cgi/content/short/264317v2
Undergraduate authors
Cover image: http://www.mdpi.com/2311-5637/4/2
Press coverage: Microbiome Digest (blog)
PDF: Download
17. *† Nickens, DG, Rogers, CM, and Bochman, ML. The Saccharomyces cerevisiae Hrq1 and Pif1 DNA helicases synergistically modulate telomerase activity in vitro. (accepted at JBC). PMID: 30068549.
REVIEWS AND BOOK CHAPTERS
1. * Bochman, ML and Schwacha, A. (2009) The Mcm complex unwinding the mechanism of a replicative helicase .Microbial and Molecular Biology Reviews. Dec; 73 (4): 652-683. PMID: 19946136.
PDF: Download
2. * Bochman, ML, Sabouri, N*, and Zakian, VA. (2009) Unwinding the functions of the Pif1 family helicases . DNA Repair (Amst). Mar 2; 9 (3): 237-249. PMID: 20097624.
Top 10 most cited DNA repair articles since 2010: http://www.journals.elsevier.com/dna-repair/most-cited-articles/
PDF: Download
3. * Bochman, ML, Judge, CP, and Zakian, VA. (2011) The Pif1 family in prokaryotes: What are our helicases doing in your bacteria? Molecular Biology of the Cell. Jun 15; 22 (12): 1955-1959. PMID: 21670310.
PDF: Download
4. * Bochman, ML, Paeschke, K, and Zakian, VA. (2012) DNA secondary structures: consequences of G-quadruplex structures on genome stability . Nature Reviews Genetics. Nov; 13 (11): 770-780. PMID: 23032257.
PDF: Download
5. † Rogers, C, van Kessel, K, and Bochman, ML. (2014) Helicases involved in DNA inter-strand crosslink repair . OA Biology. Feb 22; 2 (1): 4.
PDF: Download
6. Bochman, ML. (2014). Roles of DNA helicases in the maintenance of genome integrity . Molecular and Cellular Oncology 1:3, e963429.
PDF: Download
COMMENTARIES
1. † Bochman, ML, and Schwacha, A. (2015). DNA replication: Strand separation unravelled . Nature. Aug 13; 524 (7564): 166-167. PMID: 26222029.
PDF: Download