Lucas Raphael Hoffman MD PhD

PubMed

• Analysis of genetic requirements and nutrient availability forgrowth in cystic fibrosis sputum.
  Lauren M Shull, Daniel J Wolter, Dillon E Kunkle, Katherine A Legg, David P Giedroc
  Mbio. 2025-04-02
• Sticky Staph: A New Story About Mucoidy and Cystic Fibrosis.
  Daniel J Wolter, Lucas R Hoffman
  American Journal of Respiratory and Critical Care Medicine. 2025-03-24
• Effects of Therapeutic Antibiotic Exposure on the Oropharyngeal and Fecal Microbiota in Infants With Cystic Fibrosis.
  Hillary S Hayden, Maria T Nelson, Sydney E Ross, Adrian J Verster, Drake C Bouzek
  Pediatric Pulmonology. 2025-03-01

Journal Articles

• Adaptation of Commensal Proliferating Escherichia Coli to the Intestinal Tract of Young Children with Cystic Fibrosis  
  Samuel I Miller, Lucas R Hoffman, Proceedings of the National Academy of Sciences
• Toward making inroads in reducing the disparity of lung health in Australian Indigenous and New Zealand Maori children  
  Chang, AB; Marsh, R; Upham, J; Hoffman, LR; Smith-Vaughan, H; Holt, D; Byrnes, C; Toombs, M; Yerkovich, S; Torzillo, P; Grady, KO; Grimwood, K, Front Pediatr, 1/13/2015
• Cystic fibrosis-adapted Pseudomonas aeruginosa quorum sensing lasR mutants cause hyperinflammatory responses  
  LaFayette, S; Beaudoin, T; Hoffman, LR; Burns, JL; Brochiero, E; Rousseau, S; Nguyen, D, Science Advances, 1/1/2015
• Cystic fibrosis mouse model-dependent small intestine structural abnormalities and gut microbiome  
  Bazett, M; Honeyman, L; Stefanov, A; Pope, C; Hoffman, LR; and Haston, C, Mamm Genome, 1/1/2015
• The pediatric microbiome and the lung  
  Tracy, M; Cogen, J; Hoffman, LR, Curr Opin Pediatr, 1/1/2015
• Implications of multiple freeze-thawing on respiratory samples for culture-independent analyses  
  Cuthbertson, L; Rogers, GB; Walker, AW; Oliver, A; Hoffman, LR; Carroll, MP; Parkhill, J; Bruce, KD; van der Gast, CJ, J Cyst Fibros, 1/1/2015
• Narrowing in on early cystic fibrosis lung disease  
  Zemanick, ET; Hoffman, L; Rosenfeld, M, Am J Respir Crit Care Med, 1/15/2014
• Pseudomonas aeruginosa in vitro phenotypes distinguish cystic fibrosis infection stages and outcomes  
  Mayer-Hamblett, N; Rosenfeld, M; Gibson, RL; Ramsey, BW; Kulasekara, H; Retsch-Bogart, GZ; Morgan, W; Wolter, DJ; Pope, CE; Houston, LS; Kulasekara, B; Khan, U; Burns,..., Am J Respir Crit Care Med, 1/1/2014
• Escherichia coli dysbiosis correlates with gastrointestinal dysfunction in children with cystic fibrosis  
  Hoffman LR, Pope CE, Hayden HS, Heltshe S, Levy R, McNamara S, Jacobs MA, Rohmer L, Radey M, Ramsey BW, Brittnacher MJ, Borenstein E, Miller SI, Clin Infect Dis, 1/1/2014
• Evaluation of bacterial and fungal diversity in cerebrospinal fluid shunt infection  
  Simon, TD; Pope, CE; Browd, SR; Ojemann, JG; Riva-Cambrin, J; Mayer-Hamblett, N; Rosenfeld, M; Zerr, D; and Hoffman, LR, PLoS ONE, 1/1/2014
• Gastrointestinal Pathology in Juvenile and Adult CFTR-Knockout Ferrets  
  Sun, X; Olivier, AK; Yi, Y; Pope, CE; Hayden, HS; Liang, B; Sui, H; Zhou, W; Hager, KR; et al, American Journal of Pathology, 1/1/2014
• Pseudomonas aeruginosa phenotypes associated with eradication failure in children with cystic fibrosis  
  Mayer-Hamblett, N; Ramsey, BW; Kulasekara, H; Wolter, DJ; Houston, LS; Pope, CE; Kulasekara, B; Armbruster, C; Burns, JL; Retsch-Bogart, G; Rosenfeld, M; Gibson, RL; M..., Clin Infect Dis, 1/1/2014
• Pediatric infection and intestinal carriage due to extended spectrum cephalosporin-resistant Enterobacteriaceae  
  Zerr, DM; Qin, X; Oron, A; Adler, AL; Wolter, D; Berry, JE; Hoffman, L; and Weissman, SJ, Antimicrob Agents Chemother, 1/1/2014
• Three clinically distinct chronic pediatric airway infections share a common core microbiota  
  van der Gast, CJ; Cuthbertson, L; Rogers, GB; Pope, C; Marsh, RL; Redding, GJ; Bruce, KD; Chang, AB; Hoffman, LR, Ann Am Thorac Soc, 1/1/2014
• Time between sputum sample collection and storage significantly influences bacterial sequence composition from cystic fibrosis respiratory infections  
  Cuthbertson, L; Rogers, GB; Walker, AW; Oliver, A; Hafiz, T; Hoffman, LR; Carroll, MP; Parkhill, J; Bruce, KD; van der Gast, CJ, J Clin Microbiol, 1/1/2014
• Strength in diversity  
  Wolter, DJ; Hoffman, LR, Cell Host and Microbe, 1/1/2014
• Interpreting infective microbiota: the importance of an ecological perspective  
  Wolter, DJ; Emerson, JC; McNamara, S; Buccat, AM; Qin, X; Cochrane, E; Houston, LS; Rogers, GB; Marsh, P; Prehar, K; Pope, CE; Blackledge, M; Deziel, E; Bruce, KD; Ram..., Clin Infect Dis, 1/28/2013
• Fosfomycin and tobramycin in combination downregulate nitrate reductase genes narG and narH, resulting in increased activity against Pseudomonas aeruginosa under anaer...  
  McCaughey G, Gilpin DF, Schneiders T, Hoffman LR, McKevitt M, Elborn JS, Tunney MM, Antimicrob Agents Chemother, 1/19/2013
• Interpreting infective microbiota: the importance of an ecological perspective  
  Rogers, GB; Hoffman, LR; Carroll, MP; Bruce, KD, Trends in Microbiology, 1/15/2013
• What to expect when you're expectorating: Cystic fibrosis exacerbations and microbiota  
  Hoffman, LR; Surette, M, Annals of the American Thoracic Society, 1/1/2013
• Long-term cultivation-independent microbial diversity analysis demonstrates that bacterial communities infecting the adult cystic fibrosis lung show stability and resi...  
  Stressman, FA; Rogers, GB; van der Gast, CJ; Marsh, P; Vermeer, LS; Carroll, MP; Hoffman, LR; Daniels, TWV; Patel, N; Forbes, N; and Bruce, KD, Thorax, 1/1/2012
• Reducing bias in bacterial community analysis of lower airway respiratory infections  
  Rogers, GB; Cuthbertson, L; Hoffman, LR; Wing, PAC; Pope, C; Hooftman, DAP; Lilley, AK; Oliver, A; Carroll, MP; Bruce, KD; van der Gast, CJ, ISME J, 1/1/2012
• Emerging drugs for bronchiectasis  
  Chang, AB; Marsh, RL; Smith-Vaughan, HC; Hoffman, LR, Expert Opinion on Emerging Drugs, 1/1/2012
• Novel concepts in antimicrobial therapy for bacterial lung infections in patients with cystic fibrosis  
  Rogers, GB; Hoffman, LR; and Doring, G, Journal of Cystic Fibrosis, 1/1/2011
• Does bacterial density in cystic fibrosis sputum increase prior to pulmonary exacerbation?  
  Stressman, FA; Rogers, GB; Daniels, TWV; Lilley, AK; Marsh, P; Carroll, MP; Hoffman, LR; Jones, G; Allen, CE; Patel, N; Forbes, B; Tuck, A; and Bruce, KD, Journal of Cystic Fibrosis, 1/1/2011
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Books/Book Chapters

• Structural Biology of Viruses 
  Chapter: Attachment and Entry of Influenza Virus into Host Cells: Pivotal Roles of the Hemagglutinin 
  White, JM; Hoffman, LR; Arevalo, JH; and Wilson, IAEditors: Chiu,W; Burnett, RM; and Garcea, RL.Oxford Press, New York, NY1997
• Options for the Control of Influenza III: Proceedings 
  Chapter: Fusion Mechanism of the Influenza Hemagglutinin: Inhibitor Design 
  Hoffman, LR; White, JM; and Kuntz, IDEditors: Brown, LE; Hampson, AW; and Webster, RG.Elsevier Science, BV, The Netherlands1996

Abstracts/Posters

• Survey of the Treatment of Pediatric Parapneumonic Effusion and Empyema.
  Richards, MK; McAteer, J; Hoffman, L; Kronman, M; Shaw, D; Goldin, AB, International Pediatric Endosurgery Group 25th Annual Congress for Endosurgery in Children, Fukuoka, Japan, 1/27/2016
• Short-term and long-term effects of ivacaftor treatment on sputum microbiota in CF patients with the G551D CFTR mutation.
  Hoffman, L; Pope, C; Jorth, P; Hisert, KB; Welsh, M; Singh, PD; McKone, EF, The 2016 American Thoracic Society International Conference, Am J Respir Crit Care Med, San Francisco, CA, 1/16/2016
• Staphylococcus aureus protein A mediates interspecies interactions at the cell surface of Pseudomonas aeruginosa.
  Armbruster, CR; Mishra, M; Wolter, DJ; Hayden, H; Radey, M; Merrihew, G; Wozniak, DJ; MacCoss, MJ; Parsek, MR; Hoffman, L, The 7th American Society of Microbiology (ASM) Conference on Biofilms, Chicago, IL, 1/29/2015
• Initial and chronic MRSA infection in cystic fibrosis.
  Gilpin, DF; Murdock, S; Hoffman, LR; Vallières, E; McGrath, S; Tunney, MM; Elborn, JS; Muhlebach, MS, Journal of Cystic Fibrosis, Brussels, Belgium, 1/11/2015
• Short-term and long-term effects of ivacaftor treatment on sputum microbiota in people with the G551D CFTR mutation.
  Pope, CE; Jorth, P; Hisert, KB; Grogan, B; Gallagher, C; Cooke, G; Donnelly, SC; Welsh, M; Singh, PK; McKone, E; Hoffman, LR, The 38th European Cystic Fibrosis Conference, Journal of Cystic Fibrosis, Brussels, Belgium, 1/11/2015
• An optimized in vitro antibiotic susceptibility testing method for Staphylococcus aureus small colony variants.
  Precit, MR; Wolter, DJ; Griffith, A; Burns, JL; Hoffman, LR, The 38th European Cystic Fibrosis Conference, Brussels, Belgium, 1/11/2015
• Staphylococcus aureus should not be treated aggressively in infants and young children with CF.
  Hoffman, LR, The 29th Annual North American Cystic Fibrosis Foundation Conference (NACFC), Pediatric Pulmonology, Phoenix, AZ, 1/10/2015
• Ivacaftor decreases sputum Pseudomonas density and inflammation in CF patients with G551D mutations.
  Hisert, KB; Cooke, G; Pope, C; Jorth, P; Hoffman, LR; Grogan, B; Launspach, J; Gallagher, C; Welsh, M; Singh, P; McKone, E, The 29th Annual North American Cystic Fibrosis Conference, Pediatric Pulmonology, Phoenix, AZ, 1/10/2015
• Epidemiology and outcomes of Staphylococcus aureus infection in CF.
  Hoffman, LR, The 29th Annual North American Cystic Fibrosis Conference, Pediatric Pulmonology, Phoenix, AZ, 1/8/2015
• Phenotypic variability of clinical Pseudomonas aeruginosa lasR mutants: A functional analysis of the quorum sensing master regulator.
  Feltner, J; Wolter, DJ; Pope, CE: Mayer-Hamblett, N; Hoffman, LR; Dandekar, AA, The 29th Annual North American Cystic Fibrosis Conference, Pediatric Pulmonology, Phoenix, AZ, 1/8/2015
• Analysis of the microbiota in bronchoalveolar lavage from children with bronchiectasis.
  Marsh, RL; Smith-Vaughan, HC; Kestli, M; Chang, AB; and Hoffman, LR, 15th International Symposium on Microbial Ecology, Seoul, Korea, 1/24/2014
• Sequence - function analysis of clinical LasR variants of Pseudomonas aeruginosa.
  Wolter, DJ; Pope, CE; Dandekar, AA; Hoffman, LR, The 37th European Cystic Fibrosis Conference, Journal of Cystic Fibrosis, Gothenberg, Sweden, 1/12/2014
• Polymicrobial interactions between P. aeruginosa and S. aureus influence biofilm formation.
  Armbruster, CF; Wolter, DJ; Parsek, MR; Hoffman, LR, Biofilm 6, Vienna, Austria, 1/1/2014
• An optimized susceptibility testing method for Staphylococcus aureus small-colony variants.
  Precit, MR; Wolter, DJ; Griffith, A; Burns, JL; and Hoffman, LR, International Conference on Antimicrobial Agents and Chemotherapeutics (ICAAC) International Conference, Washington, DC, 1/1/2014
• Pseudomonas aeruginosa adaptation during chronic CF airway infections impairs bacterial clearance in vivo and dysregulated ICAM-I responses in vitro.
  LaFayette, SL; Houle, D; Radzloch, D; Hoffman, L; Burns, JL; Nguyen, D, 28th Annual North American Cystic Fibrosis Foundation Conference (NACFC), Pediatric Pulmonology, Atlanta, GA, 1/1/2014
• Ivacaftor treatment of patients with the CFTR G551D mutation produces both acute and long term changes in the infecting Pseudomonas aeruginosa populations.
  Hisert, KB; Jorth, P; Cooke, G; Garudathri, J; Wu, X; Pope, C; Grogan, B; Gallagher, CG; Donnelly, SC; Hoffman, L; Bruce, J; Welsh, MJ; McKone, EF; Singh, P, 28th Annual North American Cystic Fibrosis Foundation Conference (NACFC), Pediatric Pulmonology, Atlanta, GA, 1/1/2014
• Studies on the effects of ciprofloxacin on Pseudomonas aeruginosa evolution in cystic fibrosis patients.
  Jorth, P; Hisert, KB; Garudathri, J; Wolter, D; Hoffman, L; Singh, P, 28th Annual North American Cystic Fibrosis Foundation Conference (NACFC), Pediatric Pulmonology, Atlanta, GA, 1/1/2014
• Intestinal Dysbiosis in CF.
  Hoffman, L, 28th Annual North American Cystic Fibrosis Foundation Conference (NACFC), Atlanta, GA, 1/1/2014
• Staphylococcus aureus Small-Colony Variants Are Independently Associated With Worse Lung Disease In A Cohort Of Children With Cystic Fibrosis.
  Hoffman, LR, D. Wolter, PhD, J. Emerson, S. McNamara, A.M. Buccat, X. Qin, E. Cochrane, L. Houston, G. Rogers, P. Marsh, K. Prehar, C. Pope, M. Blackledge, E. Deziel, ..., The 2013 American Thoracic Society Annual Conference, Am J Respir Crit Care Med, Philadelphia, PA, 1/21/2013
• Microarray analysis of the effect of fosfomycin and tobramycin against Pseudomonas aeruginosa from CF patients.
  McCaughey, G; Gilpin, DF; Schneiders, T; Hoffman, LR; McKevitt, M; Elborn, JS; Tunney, M, The 36th European Cystic Fibrosis Conference, Journal of Cystic Fibrosis, Lisbon, Portugal, 1/14/2013
• Staphylococcus aureus Small-Colony Variants Are Independently Associated With Worse Lung Disease Children With Cystic Fibrosis.
  Wolter, D; Emerson, JC; McNamara, S; Buccat, AM; Qin, X.; Cochrane, E; Houston, LS; Rogers, GB; Marsh, P; Prehar, K; Pope, CE; Blackledge, M; Déziel, E; Bruce, KD; Ram..., The 36th European Cystic Fibrosis Conference, Journal of Cystic Fibrosis, Lisbon, Portugal, 1/14/2013
• Three clinically distinct chronic pediatric airway infections share a common core microbiota.
  van der Gast, CJ; Cuthbertson, L; Pope, CE; Marsh, RL; Rogers, GB; Smith-Vaughan, HC; Redding, GJ; Bruce, KD; Chang, AB; Hoffman, LR, The 36th European Cystic Fibrosis Conference, Journal of Cystic Fibrosis, Lisbon, Portugal, 1/13/2013
• CF lung microbiome: What have we learned?
  Hoffman, LR, The 27th Annual North American Cystic Fibrosis Foundation Conference (NACFC), Pediatric Pulmonology, Salt Lake City, UT, 1/1/2013
• Pseudomonas aeruginosa Phenotypes Distinguish Initial, Intermittent, and Persistent Stages of CF Airway Infection.
  Hoffman, LR; Gibson, RL; Rosenfeld, M; Ramsey, BW; Kulasekara, HD; Retsch-Bogart, GZ; Wolter, DJ; Pope, CE; Houston, LS; Kulasekara, BR; Foster, JM; Khan, U; Burns, JL..., The 27th Annual North American Cystic Fibrosis Foundation Conference (NACFC), Pediatric Pulmonology, Salt Lake City, UT, 1/1/2013
• Escherichia coli gastrointestinal dysbiosis in young children with cystic fibrosis and nutrient malabsorption.
  Hoffman, LR; Pope, CE; Hayden, HS; Levy, R; Jacobs, MA; Heltshe, SL; McNamara, S; Rohmer, L; Radey, M; Ramsey, BW; Brittnacher, MJ; Borenstein, E; and Miller, SI, The 27th Annual North American Cystic Fibrosis Foundation Conference (NACFC), Pediatric Pulmonology, Salt Lake City, UT, 1/1/2013
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Lectures

• Microbiology and Microbiome of Pediatric Bronchiectasis: Post-infectious, CF, and PCD. 
  1/20/2016
• Short-term and long-term effects of ivacaftor treatment on sputum microbiota in CF patients with the G551D CFTR mutation. 
  San Francisco, CA - 1/16/2016
• Pediatric CF GI (Fecal) Microbiomes and Correlation with Clinical Outcomes. 
  1/14/2016
• Modern culture and its discontents: Traditional and molecular microbiology for CF respiratory infections. 
  Malvern, PA - 1/13/2016
• Antibiotic susceptibility testing for Staphylococcus aureus clinical small-colony variants. 
  San Diego, CA - 1/5/2016
• Recent advances in CF microbiology. 
  1/5/2016
• What to expect when you're expectorating: An ecological perspective on the lung in health and disease. 
  1/21/2015
• It's the little things: The significance and characterization of Staphylococcus aureus small-colony variants in chronic infections. 
  1/21/2015
• What to expect when you're expectorating: The microbiota of the pediatric lung in health and disease. 
  University of Washington, Seattle, WA - 1/19/2015
• Molecular approaches to CF Microbiology: Microbiomes from Above and Below 
  Seattle, WA - 1/16/2015
• Short-term and long-term effects of ivacaftor treatment on sputum microbiota in people with the G551D CFTR mutation. 
  Brussels, Belgium - 1/11/2015
• Staphylococcus aureus should not be treated aggressively in infants and children with CF. 
  Phoenix, AZ - 1/10/2015
• Epidemiology and outcomes of Staphylococcus aureus infection in CF. 
  Phoenix, AZ - 1/9/2015
• What to expect when you're expectorating: An ecological perspective on chronic infections in the lung and elsewhere. 
  Darwin, Australia - 1/29/2014
• Considerations for sampling in respiratory microbiota studies: Lessons from cystic fibrosis 
  Royal Children's Hospital, Brisbane, Australia - 1/24/2014
• Airway microbiome in children: Contribution to health and disease 
  San Diego, CA - 1/19/2014
• Lung Phenotype of Juvenile and Adult CFTR-Knockout Ferrets 
  1/10/2014
• Intestinal Dysbiosis in CF. 
  Atlanta, GA - 1/9/2014
• CF lung microbiome. 
  Salt Lake City, UT - 1/25/2013
• CF lung microbiome: What have we learned? 
  Salt Lake City, UT - 1/24/2013
• Staphylococcus aureus Small-Colony Variants Are Independently Associated With Worse Lung Disease In A Cohort Of Children With Cystic Fibrosis. 
  Philadelphia, PA - 1/21/2013
• The prevalence and clinical significance of Staphylococcus aureus small-colony variants in chronic CF lung infections. 
  1/19/2013
• Potential interaction between inhaled tobramycin and azithromycin. 
  1/18/2013
• Staphylococcus aureus Small-Colony Variants Are Independently Associated With Worse Lung Disease Children With Cystic Fibrosis. 
  Lisbon, Portugal - 1/14/2013
• Three clinically distinct pediatric airway infections share a common core microbiota. 
  Lisbon, Portugal - 1/13/2013
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Other

• The Low pH-induced Conformational Change in the Influenza Hemagglutinin: Inhibitor Design 
  Hoffman, LR, PhD thesis, UCSF
  1/1/1996
• How aspirin works 
  Hoffman, LR, How Stuff Works
  http://health.howstuffworks.com/aspirin.htm