PhD and Master thesis

• Bootsma, M. C. J. (2005) Mathematical studies of the dynamics of antibiotic resistance Ph.D. thesis (Utrecht Univ., Utrecht, The Netherlands). pdf
  
• M.C.J. Bootsma. The influence of impurities on equilibrium crystal shapes. Master's thesis, Utrecht University, 2001. pdf

Articles

• M.C.J.Bootsma, O.Diekmann, and M.J.M. Bonten. Controlling methicillin-resistant Staphylococcus aureus: Quantifying the effects of interventions and rapid diagnostic testing (2006). Proc. Natl. Acad. Sci. USA 103, 5620-5625 Article (pdf), Supplementary material
  
• Marc J.M. Bonten, Jan Kluytmans, Anne Marie de Smet, Martin Bootsma, and Arno Hoes. Correspondence: Selective decontamination of digestive tract in intensive care. Lancet, 362:2118-2119, 2003. pdf
  
• H. Grundmann and M. Bootsma. Predicting the success of preventive measures in infection control using mathematical models. Nederlands Tijdschrift Voor Medische Microbiologie, 12:14-16, 2005. pdf
  
• S. Nijssen, M.C.J. Bootsma, and M.J.M. Bonten. Potential confounding in evaluating infection control interventions in hospital settings: changing antibiotic prescription. Clinical Infectious Diseases, 43:616-623, 2006. pdf
• M. C. J. Bootsma and O. Diekmann. Comment on "linking population level models with growing networks: A class of epidemic models". Phys. Rev. E, 74:018101, 2006. pdf
• M.C.J. Bootsma, Bonten, M.J.M. and Nijssen, A.C. Fluit, and O. Diekmann. An algorithm to estimate the importance of bacterial acquisition routes in hospital settings. Am J Epidemiol, 2007; doi: 10.1093/aje/kwm149 pdf Preprint
• M.C.J. Bootsma, N.M. Ferguson. The effect of public health measures on the 1918 influenza pandemic in US cities. Proc. Natl. Acad. Sci. USA. 2007; 104:7588-7593. Article (pdf), Supplementary material
  
• P. Trapman, M.C.J. Bootsma. A useful relationship between epidemiology and queueing theory: the distribution of the number of infectives at the moment of the first detection. Math. Biosci. 2009; 219: 15-22 arXiv preprint or MBS site
• M.W. Wassenberg, M.C. Bootsma, A. Troelstra, J.A. Kluytmans, M.J. Bonten. Transmissibility of livestock-associated methicillin-resistant Staphylococcus aureus (ST398) in Dutch hospitals. Clin Microbiol Infect. 2010. Clin Microbiol Infect. site
• M.C.J. Bootsma, M.W.M. Wassenberg, P. Trapman, M.J.M. Bonten. The nosocomial transmission rate of Animal-associated ST398 Methicillin-resistant Staphylococcus aureus.J. R. Soc. Interface. 2011:8 578-84.
• R. van Mansfeld, I. Jongerden, M. Bootsma, A. Buiting, M. Bonten, R. Willems. The population genetics of Pseudomonas aerigunosa isolates from different patient populations exhibit high-level host-specificity. Accepted for PLoS One, 2010
• Anne Marie G A de Smet, Jan A J W Kluytmans, Hetty E M Blok, Ellen M Mascini, Robin F J Benus, Alexandra T Bernards, Ed J Kuijper, Maurine A Leverstein-van Hall, Arjan R Jansz, Bartelt M de Jongh, Gerard J van Asselt, Ine H M E Frenay, Steven F T Thijsen, Simon N M Conijn, Jan A Kaan, Jan P Arends, Patrick D J Sturm, Martin C J Bootsma, Marc J M Bonten. Selective digestive tract decontamination and selective oropharyngeal decontamination and antibiotic resistance in patients in intensive-care units: an open-label, clustered group-randomised, crossover study. The Lancet Infectious Diseases. Early Online Publication, 21 March 2011 doi:10.1016/S1473-3099(11)70035-4
• Gijs Hubben, Martin Bootsma, Michiel Luteijn, Diarmuid Glynn, David Bishai, Marc Bonten, Maarten Postma. Modelling the costs and effects of selective and universal hospital admission screening for methicillin-resistant Staphylococcus aureus. PLoS ONE 6(3): e14783. doi:10.1371/journal.pone.0014783
• T.G. Guryeva, M.C.J. Bootsma, M.J.M. Bonten. The successfull veteran affairs initiative to prevent methicillin-resistant Staphylococcus aureus revisited. CID, accepted + accepted reply.
• MC Bootsma, MA van der Horst, T Guryeva, BH Ter Kuile, and O Diekmann Modeling Non-inherited Antibiotic Resistance. Bull Math Biol 74 (2012), 1691-1705
• Gurieva TV, Bootsma MC, Bonten MJ. Decolonization of patients and health care workers to control nosocomial spread of methicillin-resistant Staphylococcus aureus: a simulation study. BMC Infect Dis. (2012);12:302. doi: 10.1186/1471-2334-12-302.
• David J. Hetem, Henrik Westh, Kit Boye, Jens Otto Jarløv, Marc J.M. Bonten, Martin CJ Bootsma. Nosocomial transmission of community-associated methicillin-resistant Staphylococcus aureus in Danish Hospitals. J. Antimicrob. Chemother. 67 1775-1880 (2012).
• Constance Schultsz, Martinus C. J. Bootsma, Huynh T. Loan, Tran T. T. Nga, Le T. P. Thao, Tran T. D. Thuy, James Campbell, Le M. Vien, Ngo T. Hoa, Nguyen V. M. Hoang, Ferdinand Wit, Nguyen V. V. Chau, Jeremy Farrar, Marc J. M. Bonten, Lam M. Yen. Effects of infection control measures on acquisition of five antimicrobial drug-resistant microorganisms in a tetanus intensive care unit in Vietnam. Intensive Care Medicine. 39 661-671 (2013).
• Martin CJ Bootsma, Marc JM Bonten. Unravelling the dynamics of community-associated methicillin-resistant Staphylococcus aureus. Clin Infect Dis. 56 (2013) 1075-1077.
• Tanya Gurieva, Martin C. J. Bootsma, Marc J. M. Bonten. Cost and effects of different admission screening strategies to control the spread of methicillin-resistant Staphylococcus aureus. PLoS Comput Biol. 2013;9(2):e1002874. doi: 10.1371/journal.pcbi.1002874
• David J. Hetem, Martin C.J. Bootsma, Annet Troelstra, Marc J.M. Bonten. Transmissibility of Livestock-associated Methicillin-Resistant Staphylococcus aureus. Emerg. Infect. Dis. 19 (2013). 1797-1802.
• W. G. Melsen, M. C. J. Bootsma, M. M. Rovers, M. J. M. Bonten. The effects of clinical and statistical heterogeneity on the predictive values of results from meta-analyses. Clin. Microbiol. Infect. 20 (2014). 123-129.
• Bram A. D. van Bunnik, Amos Ssematimbaa, Thomas J. Hagenaars, Gonnie Nodelijk, Manon R. Haverkate, Marc J. M. Bontend, Mary K. Hayden, Robert A. Weinstein, Martin C. J. Bootsma, Mart C. M. De Jonga. Small distances can keep bacteria at bay for days. Proc. Natl. Acad. Sci. USA 111 (2014), 3556-3560.
• Manon R. Haverkate, Lennie P. G. Derde, Christian Brun-Buisson, Marc J. M. Bonten, Martin C. J. Bootsma. Duration of colonization with antimicrobial-resistant bacteria after ICU discharge. Intensive Care Med. 40 (2014) 564-571.

Chapter in Book

• "Nosocomial transmission: Meticillin-resistant Staphylococcus aureus (MRSA)." Marc Bonten and Martin Bootsma. In "Modern Infectious Disease Epidemiology: Concepts, Methods, Mathematical Models, and Public Health (Statistics for Biology and Health)" (2010). Editors: Alexander Krämer, Mirjam Kretzschmar and Klaus Krickeberg.

Abstracts

• S. Nijssen, M. Bootsma, M. Bonten, and A. Hoepelman. Dynamics of colonization with third generation cephalosporin-resistant enterobacteriaceae in icu patients. 2002. abstract no: 2179 ICAAC.
• M. Bootsma, M. Kooistra-Smid, H. Verburgh, O. Diekmann, and M. Bonten. A mathematical model for the transmission of s. aureus (sa) in a burn wound center. 2002. abstract no: K106, 42nd ICAAC.
• M. Bootsma, M. Bonten, I. Pelupessy, A. Hoepelman, and O. Diekmann. Nosocomial infection (ni) and length of stay (los) in intensive care: A simple observation on cause and effect. 2002. abstract no: K-656, 42nd ICAAC.
• M.C.J. Bootsma, O. Diekmann, and M.J.M. Bonten. How to control interhospital spread (ihs) of multi-drug resistant pathogens (mdrp): Preditions from a mathematical model. 2003. abstract no: K1102.
• K. Schurink, M. Bootsma, and M. Bonten. Early- and late-onset ventilatorassociated pneumonia (vap): Relevance of definition. 2003. abstract no: K-452 43rd ICAAC.
• M.C.J. Bootsma, O. Diekmann, and M.J.M. Bonten. A mathematical model (mm) for the effects of selective digestive decontamination (sdd) on antibiotic resistance. 2003. abstract no: K698, 43rd ICAAC.
• S. Nijssen, J. Top, R. Willems, M. Bootsma, A. Fluit, and M. Bonten. Prospective validation of a mathematical model to determine relative importance of different acquisition routes in intensive care units. 2003. abstract no: K-124, 43rd ICAAC.
• M.C.J. Bootsma, O. Diekmann, and M.J.M. Bonten. Estimating transmission parameters for infectious diseases in small hospital units. In Design and Analysis of Infectious Disease Studies, Mathematisches Forschungsinstitut Oberwolfach. Report No. 49/2004.
• A. van der Zee, M. Bootsma, R. Radersma, J. Nelson, and A. Buiting. A comparision of mathematic modeling and molecular genotyping for assesment of transmission routes of escherichia coli among icu patients. 2005. abstract no: 16B, IMMEM7.
• M.C.J. Bootsma, O. Diekmann, and M.J.M. Bonten. Efficacy of search and destroy (s&d) in high endemic mrsa settings (hes): Results from a simulation model (sm). 2005. abstract no: K548/419, 45th ICAAC.
• M.C.J. Bootsma, O. Diekmann, and M.J.M. Bonten. Quantitative effects of individual measures of search and destroy (s&d) of mrsa. 2005. abstract no: K549/420, 45thICAAC.
• M.C.J. Bootsma, O. Diekmann, and M.J.M. Bonten. Pros and cons of rapid diagnostic testing (rdt) for controlling mrsa. 2005. abstract no: K550/421, 45th ICAAC.
• M.C.J. Bootsma, B. Hota, O. Diekmann, R.A. Weinstein, and M.J.M. Bonten. A mathematical model to determine the growth rate of ca-mrsa and options for control. 2006. abstract no: K-1680. 46th ICAAC
• M.C.J. Bootsma, O. Diekmann, and M.J.M. Bonten. The influence of High-Risk Units (HRUs) on the Spread of Antibiotic Resistant Bacteria (ARB). 2007. abstract no: K-2143 47th ICAAC
• M.C.J. Bootsma, P. Trapman, M.W.M. Wassenberg, M.J.M. Bonten. A birth-death model with detection to estimate nosocomial transmission rates of two methicillin-resistant Staphylococcus aureus strains. 2008. Epidemics conference, Asilomar CA, USA.
• M.C.J. Bootsma, A.H. Havelaar, M.J.M. Bonten, J.A. Wagenaar. Modeling the ban of fluoroquinolone use in the poultry industry on fluoroquinolone-resistance among Campylobacter species. 2008 Epidemics conference, Asilomar CA, USA.
• K.R. Philipsen,M.C.J. Bootsma, M.A. Leverstein-Van Hall, J.C. Stuart, M.L.E. Christiansen, H. Madsen, M.J.M. Bonten. Parameter estimation for a discrete stochastic model of ESBL colonization in a human population. Conference of the Eastern Mediterranean Region of the International Biometric Society, 2009, Istanbul, Turkey
• K.R. Philipsen, M.C.J. Bootsma, M.A. Leverstein-van Hall, J. Cohen Stuart, M.J.M. Bonten Dynamics of extended-spectrum beta-lactamases in ,Escherichia coli and Klebsiella pneumoniae: a mathematical model (2009) 19th ECCMID P 668
• T. Gurieva, M.C.J. Bootsma, M.J.M. Bonten. Quantitative analysis of different approaches to control methicillin-resistant Staphylococcus aureus in hospitals. Epidemics conference, Athens, Greece, 2009.
• T. Gurieva, M.C.J. Bootsma, M.J.M. Bonten. Cost-effectiveness of different admission screening strategies to control the spread of methicillin-resistant Staphylococcus aureus Epidemics conference, Athens, Greece, 2009.
• M.C.J. Bootsma, H. Barreto dos Santos, R. de Souza Kuchenbecker, M. Bernardes Wagner, M.J.M. Bonten. Detrimental effects of patient isolation in controlling methicillin-resistant Staphyloccoccus aureus transmission due to increased workload. Epidemics conference, Athens, Greece, 2009.