Duerkop BA, Huo W, Bhardwaj P, Palmer KL, Hooper LV. Molecular Basis for Lytic Bacteriophage Resistance in Enterococci. MBio. 2016 Aug 30;7(4). PubMed PMID: 27578757
Hughes ER, Winter MG, Duerkop BA, Spiga L, Furtado de Carvalho T, Zhu W, Gillis CC, Büttner L, Smoot MP, Behrendt CL, Cherry S, Santos RL, Hooper LV, Winter SE. Microbial Respiration and Formate Oxidation as Metabolic Signatures of Inflammation-Associated Dysbiosis. Cell Host Microbe. 2017 Feb 8;21(2):208-219. PubMed PMID: 28182951
Zhu W, Winter MG, Byndloss MX, Spiga L, Duerkop BA, Hughes ER, Büttner L, de Lima Romão E, Behrendt CL, Lopez CA, Sifuentes-Dominguez L, Huff-Hardy K, Wilson RP, Gillis CC, Tükel Ç, Koh AY, Burstein E, Hooper LV, Bäumler AJ, Winter SE. Precision editing of the gut microbiota ameliorates colitis. Nature. 2018 Jan 11;553(7687):208-211. PubMed PMID: 29323293
Duerkop BA, Kleiner M, Paez-Espino D, Zhu W4, Bushnell B, Hassell B, Winter SE, Kyrpides NC, Hooper LV. Murine colitis reveals a disease-associated bacteriophage community. Nat Microbiol. 2018 Sep;3(9):1023-1031.
Zhu W, Winter MG, Byndloss MX, Spiga L, Duerkop BA, Hughes ER, Büttner L, de Lima Romão E, Behrendt CL, Lopez CA, Sifuentes-Dominguez L, Huff-Hardy K, Wilson RP, Gillis CC, Tükel Ç, Koh AY, Burstein E, Hooper LV, Bäumler AJ, Winter SE. Precision editing of the gut microbiota ameliorates colitis. Nature. 2018 Jan 11;553(7687):208-211
Chatterjee A, Duerkop BA. Beyond Bacteria: Bacteriophage-Eukaryotic Host Interactions Reveal Emerging Paradigms of Health and Disease. Front Microbiol. 2018 Jun 27;9:1394.
Duerkop BA. Bacteriophages shift the focus of the mammalian microbiota. PLoS Pathog. 2018 Oct 25;14(10):e1007310.
Chatterjee A, Johnson CN, Luong P, Hullahalli K, McBride SW, Schubert AM, Palmer KL, Carlson PE Jr, Duerkop BA. Bacteriophage Resistance Alters Antibiotic-Mediated Intestinal Expansion of Enterococci. Infect Immun. 2019 Jun;87(6). PubMed PMID: 30936157
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 Jul 24;4(4). PubMed PMID: 31341074
Morrisette T, Lev KL, Kebriaei R, Abdul-Mutakabbir JC, 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 Aug 20;64(9). PubMed PMID: 32571816
Canfield GS, Duerkop BA. Molecular mechanisms of enterococcal-bacteriophage interactions and implications for human health. Curr Opin Microbiol. 2020 Aug;56:38-44. PubMed PMID: 32652484
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 Sep 18;88(10). PubMed PMID: 32778611
Rodrigues M, McBride SW, Hullahalli K, Palmer KL, Duerkop BA. Conjugative Delivery of CRISPR-Cas9 for the Selective Depletion of Antibiotic-Resistant Enterococci. Antimicrob Agents Chemother. 2019 Nov;63(11). PubMed PMID: 31527030
Kleiner M, Bushnell B, Sanderson KE, Hooper LV, Duerkop BA. Transductomics: sequencing-based detection and analysis of transduced DNA in pure cultures and microbial communities. Microbiome. 2020 Nov 15;8(1):158. PubMed PMID: 33190645
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. In Press
Chatterjee A, Duerkop BA. Sugar and Fatty Acids Ack-celerate Prophage Induction. Cell Host Microbe. 2019 Feb 13;25(2):175-176. PubMed PMID: 30763529
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 Jan 14;10(2). PubMed PMID: 33446593
Johnson CN, Duerkop BA. Dyeing to connect. Nat Microbiol. 2019 Dec;4(12):2033-2034. PubMed PMID: 31754272
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 Jan;17(1):e1009204. PubMed PMID: 33411815
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. 2021 Mar 1. [Epub ahead of print] PubMed PMID: 33649110
Mangalea MR, Paez-Espino D, Kieft K, Chatterjee A, Chriswell ME, Seifert JA, Feser ML, Demoruelle MK, 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 May 12;29(5):726-739.e5. PubMed PMID: 33957082
Palacios Araya D, Palmer KL, Duerkop BA. CRISPR-based antimicrobials to obstruct antibiotic-resistant and pathogenic bacteria. PLoS Pathog. 2021 Jul;17(7):e1009672. PubMed PMID: 34237097
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. 2021 Sep 29;8(1):95-113. PubMed PMID: 34255542
Johnson CN, Sheriff EK, Duerkop BA, Chatterjee A. Let Me Upgrade You: Impact of Mobile Genetic Elements on Enterococcal Adaptation and Evolution. J Bacteriol. 2021 Oct 12;203(21):e0017721. PubMed PMID: 34370561
Morrisette T, Lev KL, Canfield GS, Duerkop BA, Kebriaei R, Stamper KC, Holger D, Lehman SM, Willcox S, Arias CA, Rybak MJ. Evaluation of Bacteriophage Cocktails Alone and in Combination with Daptomycin Against Daptomycin-Nonsusceptible Enterococcus faecium . Antimicrob Agents Chemother. 2021 Nov 1;:AAC0162321. [Epub ahead of print] PubMed PMID: 34723631
Morrisette T, Lev KL, Canfield GS, Duerkop BA, Kebriaei R, Stamper KC, Holger D, Lehman SM, Willcox S, Arias CA, Rybak MJ. Evaluation of Bacteriophage Cocktails Alone and in Combination with Daptomycin against Daptomycin-Nonsusceptible Enterococcus faecium. Antimicrob Agents Chemother. 2022 Jan 18;66(1):e0162321. PubMed PMID: 34723631
Lev K, Kunz Coyne AJ, Kebriaei R, Morrisette T, Stamper K, Holger DJ, Canfield GS, Duerkop BA, Arias CA, Rybak MJ. Evaluation of Bacteriophage-Antibiotic Combination Therapy for Biofilm-Embedded MDR Enterococcus faecium . Antibiotics (Basel). 2022 Mar 15;11(3). PubMed PMID: 35326855
Johnson CN, Palacios Araya D, Schink V, Islam M, Mangalea MR, Decurtis EK, Ngo TC, Palmer KL, Duerkop BA. Genetically distant bacteriophages select for unique genomic changes in Enterococcus faecalis. Microbiologyopen. 2022 Apr;11(2):e1273. PubMed PMID: 35478284
Kunz Coyne AJ, Stamper K, Kebriaei R, Holger DJ, El Ghali A, Morrisette T, Biswas B, Wilson M, Deschenes MV, Canfield GS, Duerkop BA, Arias CA, Rybak MJ. Phage Cocktails with Daptomycin and Ampicillin Eradicates Biofilm-Embedded Multidrug-Resistant Enterococcus faecium with Preserved Phage Susceptibility. Antibiotics (Basel). 2022 Aug 30;11(9). PubMed PMID: 36139953
Kirsch JM, Hryckowian AJ, Duerkop BA. Insertion sequence driven evolution of the microbiota revealed by a novel metagenomics pipeline. bioRxiv. 2023 Nov 10. PubMed PMID: 37873088
Johnson CN, Bullen NP, Andersen SE, Arya G, Marotta SR, Whitney JC, Duerkop BA. Evolution of a small phage protein overcomes antiphage defense in Enterococcus faecalis. bioRxiv. 2023 Dec 2. PubMed PMID: 38014348