DUERKOP LAB

 

IMMUNOLOGY

&

MICROBIOLOGY

@ CU ANSCHUTZ

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The Duerkop Lab would like to thank the following funding sources 

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RESEARCH

The Duerkop lab studies bacterial viruses (bacteriophages or phages) and their interactions with their hosts. The long-term goal of the Duerkop lab is to understand how phages and other forms of mobile DNA contribute to host-microbe interactions in the intestine and their overall impact on human health.

Our lab seeks to: 1) Determine the mechanisms underlying phage interactions with multidrug resistant enterococci and how phages impact enterococcal colonization of the intestine; 2) Understand how native CRISPR-Cas systems function as barriers to nucleic acid acquisition in the intestine and how CRISPR-Cas contributes to the genetic diversity and ecology of the microbiota; 3) Explore the role phage communities play in maintaining a healthy intestinal microbiota and assess whether intestinal phages can shape the composition of the microbiota leading to chronic intestinal inflammation. 

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PROJECTS

PUBLICATIONS

2021

Johnson CN, Sheriff EK, Duerkop BA, Chatterjee A. Let me upgrade you: Impact of mobile genetic elements on enterococcal adaptation and evolution. J Bacteriol. In Press. PMID: 34370561 View in PubMed  

 

Kirsch JM, Brzozowski RS, Faith D, Round JL, Secor PR, Duerkop BA. Bacteriophage-bacteria interactions in the gut - from invertebrates to mammals. Annu Rev Virol. 8:17.1–17.19. PMID: 34255542 View in PubMed

 

Palacios Araya D, Palmer KL, Duerkop BA. 2021. CRISPR-based antimicrobials to obstruct antibiotic-resistant and pathogenic bacteria. PLoS Pathog. 17(7):e1009672. PMID: 34237097 View in PubMed

Mangalea MR, Paez-Espino D, Kieft KA, Chatterjee A, Seifert JA, Feser ML, Demoruelle MK, Chriswell ME, Sakatos A, Anantharaman K, Deane KD, Kuhn KA, Holers VM, Duerkop BA. Individuals at risk for rheumatoid arthritis harbor differential intestinal bacteriophage communities with distinct metabolic potential. Cell Host Microbe. 2021. 29(5):726-739.e5 doi: 10.1016/j.chom.2021.03.020. PMID: 33957082 View in PubMed

Canfield GS, Chatterjee A, Espinosa J, Mangalea MR, Sheriff EK, Keidan M, McBride SW, McCollister BD, Hang HC, Duerkop BA. Lytic bacteriophages facilitate antibiotic sensitization of Enterococcus faecium. Antimicrob Agents Chemother. 65:e00143-21. doi: 10.1128/AAC.00143-21. PMID: 33649110 View in PubMed

Chatterjee A, Willett JLE, Dunny GM, Duerkop BA. Phage infection and sub-lethal antibiotic exposure mediate Enterococcus faecalis type VII secretion system dependent inhibition of bystander bacteria. PLoS Genet. 2021; 17(1):e1009204.

 doi: 10.1371/journal.pgen.1009204. PMID: 33411815 View in PubMed

Spencer BL, Chatterjee A, Duerkop BA, Baker CJ, Doran KS. Complete genome sequence of neonatal clinical group B streptococcal isolate CJB111. Microbiol Resour Announc. 2021;10(2):e01268-20. doi: 10.1128/MRA.01268-20. PMID: 

33446593 View in PubMed

2020

Kleiner M, Bushnell B, Sanderson KE, Hooper LV and Duerkop BA. Transductomics: sequencing based detection and analysis of transduced DNA in pure cultures and microbial communities. Microbiome. 2020; 8(1):158.

doi: 10.1186/s40168-020-00935-5. PMID: 33190645 View in PubMed

Alhajjar N, Chatterjee A, Spencer BL, Burcham LR, Willett JLE, Dunny GM, Duerkop BA, Doran KS. Genome-wide mutagenesis identifies factors involved in Enterococcus faecalis vaginal adherence and persistence. Infect Immun. 2020; 88(10):e00270-20. doi: 10.1128/IAI.00270-20. PMID: 32778611 View in PubMed

 

Canfield GS and Duerkop BA. Molecular mechanisms of enterococcal-bacteriophage interactions and implications for human health. Curr Opin Microbiol. 2020; 56:38-44. doi: 10.1016/j.mib.2020.06.003. PMID: 32652484 View in PubMed

 

Morrisette T, Lev KL, Kebriaei R, Abdul-Mutakabbir J, Stamper KC, Morales S, Lehman SM, Canfield GS, Duerkop BA, Arias CA, Rybak MJ. Bacteriophage-antibiotic combinations for Enterococcus faecium with varying bacteriophage and daptomycin susceptibilities. Antimicrob Agents Chemother. 2020; 64(9):e00993-20. doi: 10.1128/AAC.00993-20 PMID: 32571816 View in PubMed

 

Chatterjee A, Willett JLE, Nguyen UT, Monogue B, Palmer KL, Dunny GM, Duerkop BA. Parallel genomics uncover novel enterococcal-bacteriophage interactions. mBio. 2020; 11:e03120-19. doi: 10.1128/mBio.03120-19. PMID: 32127456 

View in PubMed

Mangalea MR and Duerkop BA. Fitness trade-offs resulting from bacteriophage resistance potentiate synergistic antibacterial strategies. Infect Immun. 2020;88(7). doi: 10.1128/IAI.00926-19. PMID: 32094257  View in PubMed

2019

Johnson CN and Duerkop BA. Dyeing to connect. Nat Microbiol. 2019;4(12):2033-2034. doi: 10.1038/s41564-019-0616-1. PMID: 31754272. View in PubMed  

Rodrigues M, McBride SW, Hullahalli K, Palmer KL  and Duerkop BA. Conjugative delivery of CRISPR-Cas9 for the selective depletion of antibiotic-resistant enterococci. Antimicrob Agents Chemother. 2019;63(11). doi: 10.1128/AAC.01454-19. PMID: 31527030. View in PubMed

Price VJ, McBride SW, Hullahalli K, Chatterjee A, Duerkop BA, Palmer KL. Enterococcus faecalis CRISPR-Cas is a robust barrier to conjugative antibiotic resistance dissemination in the murine intestine. mSphere. 2019;4(4). doi: 10.1128/mSphere.00464-19. PMID: 31341074. View in PubMed

 

Chatterjee A, Johnson CN, Luong P, Hullahalli K, McBride SW, Schubert AM, Palmer KL, Carlson PE Jr and Duerkop BA. Bacteriophage resistance alters antibiotic-mediated intestinal expansion of enterococci. Infect Immun. 2019;87(6). doi: 10.1128/IAI.00085-19. PMID: 30936157. View in PubMed

 

Chatterjee A and Duerkop BA. Sugar and fatty acids Ack-celerate prophage induction. Cell Host Microbe. 2019;25(2):175-176. doi: 10.1016/j.chom.2019.01.012. PMID: 30763529. View in PubMed

2018

Duerkop BA. Bacteriophages shift the focus of the mammalian microbiota. PLoS Pathog. 2018;14(10):e1007310. doi: 10.1371/journal.ppat.1007310. PMID: 30359456. View in PubMed

Duerkop BA, Kleiner M, Paez-Espino D, Zhu W, Bushnell B, Hassell B, Winter SE, Kyrpides NC and Hooper LV. Murine colitis reveals a disease-associated bacteriophage community. Nat Microbiol. 2018;3(9):1023-1031. doi: 10.1038/s41564-018-0210-y. PMID: 30038310. View in PubMed

Chatterjee A and Duerkop BA. Beyond Bacteria: Bacteriophage-eukaryotic host interactions reveal emerging paradigms of health and disease. Front Microbiol. 2018;9:1394. doi: 10.3389/fmicb.2018.01394. PMID: 29997604. View in PubMed   

 
 

PEOPLE

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Breck Duerkop (Assistant Professor, Co-Director - CU Anschutz Microbiology Graduate Program)

breck.duerkop@cuanschutz.edu

Breck received his BS in Biology from the University of Wisconsin-Milwaukee and a PhD in Microbiology from the University of Washington. He completed postdoctoral training at the University of Texas Southwestern Medical Center. Breck joined the faculty in the Department of Immunology and Microbiology at the University of Colorado School of Medicine in December 2016. 

Cydney Johnson (PhD Student, Ruth L. Kirschstein NRSA Fellow - NIH)

cydney.johnson@cuanschutz.edu

Cydney attended Rhodes College where she earned a BS in Biology and a minor in Spanish. She joined the Biomedical Sciences Graduate Program at the University of Colorado School of Medicine in 2017. Cydney's research focuses on the biochemistry of enterococcal phage receptors and mechanisms of enterococcal transmission among mammalian hosts.     

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Josh Kirsch (PhD Student)

josh.kirsch@cuanschutz.edu

Josh received a BS in Biochemistry from Western Washington University. He joined the Biomedical Sciences Graduate Program in 2019. His projects focus on how phage infection influences mobile elements in the E. faecalis genome and how the lung virome is shaped following stem cell transplantation in humans.     

Emma Sheriff (PhD Student)

emma.culbertson@cuanschutz.edu

Emma attended the University of Alabama where she earned a BS in Biology with a minor in the Randall Research Scholars Program. She joined the Microbiology Graduate Program at the University of Colorado School of Medicine in 2019. Emma's interests fall within the scope of phage-host interactions and their impact on T7SS gene regulation and antagonism.   

Shannon Ely (MS Student)

shannon.ely@cuanschutz.edu

Shannon received a BS in Biology and minor in Chemistry from Montclair State University. Shannon joined the Professional Science Master’s Program in Biomedical Sciences and Biotechnology in 2020. Shannon's project explores the role of IS256 elements in the emergence of antibiotic resistance traits in E. faecalis.  

Lab Alumni

Jason Hickman (Visiting Scientist, 2017)

Current position: Research Director of Biotechnology and Ethanol, Archer Daniels Midland (AMD), Decatur, IL

 

Phat Luong (Master's Student, 2017-2018)

Current position: Medical School, Ross University, Barbados

Sara McBride (Lab Manager, 2017-2019)

Current position: Laboratory Coordinator, Salk Institute, La Jolla, CA

Viviane Schink (Visiting Master's Student, 2019)

Current position: Process Engineer at Elanco, Cuxhaven, Germany

Micah Keidan (Lab Manager, 2019-2020)

Current position: Laboratory Technician, University of Michigan, Ann Arbor, MI

Greg Canfield (Infectious Diseases Fellow, 2019-2021)

Current position: Infectious Diseases Fellow, Stanford University, Stanford, CA 

Anushila Chatterjee (Postdoctoral Fellow, 2017-2021)

Current position: STEM Research Project Developer, Vigyanshaala International, Delhi, India   

Mihnea "Mike" Mangalea (Postdoctoral Fellow, 2019-2021)

Current position: Bioinformatician, Centers for Disease Control, Atlanta, GA

CONTACT

The Duerkop Lab is located at the University of Colorado School of Medicine's  Anschutz Medical Campus in Aurora, Colorado, 8 miles from downtown Denver and 20 miles from the foothills of the Rocky Mountains   

12800 E. 19th Ave. 

Research Complex I

P18-9402D

Aurora, CO, 80045

Tel: 303-724-0940

Fax: 303-724-4226