Description of Research Expertise

microbial ecology; next-generation sequencing; respiratory tract microbiome; ventilator-associated infection; antimicrobial resistance; Clostridium difficile infection

Selected Publications

Matthew J. Ziegler, Leigh Cressman, Anne Jaskowiak-Barr, Pam Tolomeo, , Brendan J. Kelly: Post-antibiotic risk for recurrent lower respiratory tract infection during prolonged hospitalisation European Congress of Clinical Microbiology and Infectious Diseases (ECCMID) 2024 (Barcelona, Spain). : 2024.

Montassier E, Kitsios GD, Radder JE, Le Bastard Q, Kelly BJ, Panzer A, Lynch SV, Calfee CS, Dickson RP, Roquilly A.: Robust airway microbiome signatures in acute respiratory failure and hospital-acquired pneumonia Nat Med : 2023.

Ziegler MJ, Huang E, Cowden L, Lautenbach E, Kelly BJ: Spatial distribution of surface microbiota and resistance genes within and between rooms in an intensive care unit. Infectious Diseases Society of America (IDSA) IDWeek 2023 Conference. Boston, MA. : 2023.

Doernberg SB, Arias CA, Altman DR, Babiker A, Boucher HW, Creech CB, Cosgrove SE, Evans SR, Fowler VG, Fritz SA, Hamasaki T, Kelly BJ, Leal SM, Liu C, Lodise TP, Miller LG, Munita JM, Murray BE, Pettigrew MM, Ruffin F, Scheetz MH, Shopsin B, Tran TT, Turner NA, Williams DJ, Zaharoff S, Holland TL; Antibacterial Resistance Leadership Group.: Priorities and Progress in Gram-positive Bacterial Infection Research by the Antibacterial Resistance Leadership Group: A Narrative Review Clin Infect Dis 77 : S295-S304,2023.

Tanneti NS, Patel AK, Tan LH, Marques AD, Perera RAPM, Sherrill-Mix S, Kelly BJ, Collman RG, Rodino K, Lee C, Bushman FD, Cohen NA, Weiss SR.: Comparison of SARS-CoV-2 variants in primary human nasal cultures indicates Delta as most cytopathic and Omicron as fastest replicating bioRxiv : 2023.

John F. Jachimiak & Brendan J. Kelly: Deciphering the microbiome in patients with C. difficile and inflammatory bowel disease: challenges to analysis Digestive Disease Week (DDW) 2023, Chicago, IL : 2023.

Matthew J. Ziegler, Selamawit Bekele, Sean Loughrey, Elizabeth Huang, Pam Tolomeo, Brendan J. Kelly: Bacterial community similarity between patient and healthcare environment increases during hospitalization European Congress of Clinical Microbiology & Infectious Diseases (ECCMID) 2023 (Copenhagen, Denmark) : 2023.

Matthew J. Ziegler, Selamawit Bekele, Sean Loughrey, Elizabeth Huang, Pam Tolomeo, Brendan J. Kelly: The effect of antibiotic exposures on colonisation resistance to bacteria resident in the healthcare environment European Congress of Clinical Microbiology & Infectious Diseases (ECCMID) 2023 (Copenhagen, Denmark) : 2023.

Redding LE, Habing GG, Tu V, Bittinger KL, O'Day J, Pancholi P, Wang SH, Alexander A, Kelly BJ, Weese JS, Stull JW.: Infrequent intrahousehold transmission of Clostridioides difficile between pet owners and their pets Zoonoses Public Health : 2023.

Strelau KM, Feuerstein-Simon R, Naseer N, Lang M, Rix K, Murray EJ, Morris JS, Wiebe DJ, Nelson HCM, Collman RG, Rodino KG, Bushman FD, Kelly BJ, Cannuscio CC: Variations in COVID-19 impacts by social vulnerability in Philadelphia, June 2020-December 2022 medRxiv 2023 (2023.01.13.23284488): 2023.

View all publications

Academic Contact Information

731 Blockley Hall
Philadelphia, PA 19104
Patient appointments: 800-789-7366