Peritoneal Effluent Cell-Free DNA Sequencing in Peritoneal Dialysis Patients With and Without PeritonitisPlain Language Summary
Rationale & Objective: Conventional culture can be insensitive for the detection of rare infections and for the detection of common infections in the setting of recent antibiotic usage. Patients receiving peritoneal dialysis (PD) with suspected peritonitis have a significant proportion of ne...
| Main Authors: | , , , , , , , , , , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Elsevier
2022-01-01
|
| Series: | Kidney Medicine |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2590059521002260 |
| _version_ | 1818743546693287936 |
|---|---|
| author | Philip Burnham Fanny Chen Alexandre P. Cheng Vesh Srivatana Lisa T. Zhang Emmanuel Edusei Shady Albakry Brittany Botticelli Xunxi Guo Amanda Renaghan Jeffrey Silberzweig Darshana M. Dadhania Joan S. Lenz Michael Heyang Iliyan D. Iliev Joshua A. Hayden Lars F. Westblade Iwijn De Vlaminck John R. Lee |
| author_facet | Philip Burnham Fanny Chen Alexandre P. Cheng Vesh Srivatana Lisa T. Zhang Emmanuel Edusei Shady Albakry Brittany Botticelli Xunxi Guo Amanda Renaghan Jeffrey Silberzweig Darshana M. Dadhania Joan S. Lenz Michael Heyang Iliyan D. Iliev Joshua A. Hayden Lars F. Westblade Iwijn De Vlaminck John R. Lee |
| author_sort | Philip Burnham |
| collection | DOAJ |
| description | Rationale & Objective: Conventional culture can be insensitive for the detection of rare infections and for the detection of common infections in the setting of recent antibiotic usage. Patients receiving peritoneal dialysis (PD) with suspected peritonitis have a significant proportion of negative conventional cultures. This study examines the utility of metagenomic sequencing of peritoneal effluent cell-free DNA (cfDNA) for evaluating the peritoneal effluent in PD patients with and without peritonitis. Study Design: Prospective cohort study. Setting & Participants: We prospectively characterized cfDNA in 68 peritoneal effluent samples obtained from 33 patients receiving PD at a single center from September 2016 to July 2018. Outcomes: Peritoneal effluent, microbial, and human cfDNA characteristics were evaluated in culture-confirmed peritonitis and culture-negative peritonitis. Analytical Approach: Descriptive statistics were analyzed and microbial cfDNA was detected in culture-confirmed peritonitis and culture-negative peritonitis. Results: Metagenomic sequencing of cfDNA was able to detect and identify bacterial, viral, and eukaryotic pathogens in the peritoneal effluent from PD patients with culture-confirmed peritonitis, as well as patients with recent antibiotic usage and in cases of culture-negative peritonitis. Limitations: Parallel cultures were not obtained in all the peritoneal effluent specimens. Conclusions: Metagenomic cfDNA sequencing of the peritoneal effluent can identify pathogens in PD patients with peritonitis, including culture-negative peritonitis. |
| first_indexed | 2024-12-18T02:30:08Z |
| format | Article |
| id | doaj.art-07991f2dd4e54d8bba497216a3aa2740 |
| institution | Directory Open Access Journal |
| issn | 2590-0595 |
| language | English |
| last_indexed | 2024-12-18T02:30:08Z |
| publishDate | 2022-01-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Kidney Medicine |
| spelling | doaj.art-07991f2dd4e54d8bba497216a3aa27402022-12-21T21:23:55ZengElsevierKidney Medicine2590-05952022-01-0141100383Peritoneal Effluent Cell-Free DNA Sequencing in Peritoneal Dialysis Patients With and Without PeritonitisPlain Language SummaryPhilip Burnham0Fanny Chen1Alexandre P. Cheng2Vesh Srivatana3Lisa T. Zhang4Emmanuel Edusei5Shady Albakry6Brittany Botticelli7Xunxi Guo8Amanda Renaghan9Jeffrey Silberzweig10Darshana M. Dadhania11Joan S. Lenz12Michael Heyang13Iliyan D. Iliev14Joshua A. Hayden15Lars F. Westblade16Iwijn De Vlaminck17John R. Lee18Meinig School of Biomedical Engineering, Cornell University, Ithaca, NY; Department of Bioengineering, University of Pennsylvania, Philadelphia, PAMeinig School of Biomedical Engineering, Cornell University, Ithaca, NYMeinig School of Biomedical Engineering, Cornell University, Ithaca, NYRogosin Institute, New York, NYDivision of Nephrology and Hypertension, Department of Medicine, Weill Cornell Medicine, New York, NYDivision of Nephrology and Hypertension, Department of Medicine, Weill Cornell Medicine, New York, NYDivision of Nephrology and Hypertension, Department of Medicine, Weill Cornell Medicine, New York, NYDivision of Nephrology and Hypertension, Department of Medicine, Weill Cornell Medicine, New York, NYDivision of Nephrology and Hypertension, Department of Medicine, Weill Cornell Medicine, New York, NYDivision of Nephrology and Hypertension, Department of Medicine, Weill Cornell Medicine, New York, NYRogosin Institute, New York, NYDivision of Nephrology and Hypertension, Department of Medicine, Weill Cornell Medicine, New York, NY; Department of Transplantation Medicine, New York-Presbyterian Hospital–Weill Cornell Medical Center, New York, NYMeinig School of Biomedical Engineering, Cornell University, Ithaca, NYMeinig School of Biomedical Engineering, Cornell University, Ithaca, NYDivision of Gastroenterology and Hepatology, Department of Medicine, Weill Cornell Medicine, New York, NYDepartment of Pathology and Laboratory Medicine, Weill Cornell Medicine, New York, NY; Division of Infectious Diseases, Department of Medicine, Weill Cornell Medicine, New York, NY; Department of Chemistry, Norton Healthcare, Louisville, KYDepartment of Pathology and Laboratory Medicine, Weill Cornell Medicine, New York, NYMeinig School of Biomedical Engineering, Cornell University, Ithaca, NY; Address for Correspondence: Iwijn De Vlaminck, Meinig School of Biomedical Engineering, Cornell University, Weill Hall Room 301, Ithaca, NY, 14853.Division of Nephrology and Hypertension, Department of Medicine, Weill Cornell Medicine, New York, NY; Department of Transplantation Medicine, New York-Presbyterian Hospital–Weill Cornell Medical Center, New York, NY; John R. Lee, Division of Nephrology and Hypertension, Department of Medicine, Weill Cornell Medicine, 525 E. 68th Street Box 3, New York, NY, 10065.Rationale & Objective: Conventional culture can be insensitive for the detection of rare infections and for the detection of common infections in the setting of recent antibiotic usage. Patients receiving peritoneal dialysis (PD) with suspected peritonitis have a significant proportion of negative conventional cultures. This study examines the utility of metagenomic sequencing of peritoneal effluent cell-free DNA (cfDNA) for evaluating the peritoneal effluent in PD patients with and without peritonitis. Study Design: Prospective cohort study. Setting & Participants: We prospectively characterized cfDNA in 68 peritoneal effluent samples obtained from 33 patients receiving PD at a single center from September 2016 to July 2018. Outcomes: Peritoneal effluent, microbial, and human cfDNA characteristics were evaluated in culture-confirmed peritonitis and culture-negative peritonitis. Analytical Approach: Descriptive statistics were analyzed and microbial cfDNA was detected in culture-confirmed peritonitis and culture-negative peritonitis. Results: Metagenomic sequencing of cfDNA was able to detect and identify bacterial, viral, and eukaryotic pathogens in the peritoneal effluent from PD patients with culture-confirmed peritonitis, as well as patients with recent antibiotic usage and in cases of culture-negative peritonitis. Limitations: Parallel cultures were not obtained in all the peritoneal effluent specimens. Conclusions: Metagenomic cfDNA sequencing of the peritoneal effluent can identify pathogens in PD patients with peritonitis, including culture-negative peritonitis.http://www.sciencedirect.com/science/article/pii/S2590059521002260Cell-free DNAperitoneal dialysisperitonitis |
| spellingShingle | Philip Burnham Fanny Chen Alexandre P. Cheng Vesh Srivatana Lisa T. Zhang Emmanuel Edusei Shady Albakry Brittany Botticelli Xunxi Guo Amanda Renaghan Jeffrey Silberzweig Darshana M. Dadhania Joan S. Lenz Michael Heyang Iliyan D. Iliev Joshua A. Hayden Lars F. Westblade Iwijn De Vlaminck John R. Lee Peritoneal Effluent Cell-Free DNA Sequencing in Peritoneal Dialysis Patients With and Without PeritonitisPlain Language Summary Kidney Medicine Cell-free DNA peritoneal dialysis peritonitis |
| title | Peritoneal Effluent Cell-Free DNA Sequencing in Peritoneal Dialysis Patients With and Without PeritonitisPlain Language Summary |
| title_full | Peritoneal Effluent Cell-Free DNA Sequencing in Peritoneal Dialysis Patients With and Without PeritonitisPlain Language Summary |
| title_fullStr | Peritoneal Effluent Cell-Free DNA Sequencing in Peritoneal Dialysis Patients With and Without PeritonitisPlain Language Summary |
| title_full_unstemmed | Peritoneal Effluent Cell-Free DNA Sequencing in Peritoneal Dialysis Patients With and Without PeritonitisPlain Language Summary |
| title_short | Peritoneal Effluent Cell-Free DNA Sequencing in Peritoneal Dialysis Patients With and Without PeritonitisPlain Language Summary |
| title_sort | peritoneal effluent cell free dna sequencing in peritoneal dialysis patients with and without peritonitisplain language summary |
| topic | Cell-free DNA peritoneal dialysis peritonitis |
| url | http://www.sciencedirect.com/science/article/pii/S2590059521002260 |
| work_keys_str_mv | AT philipburnham peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary AT fannychen peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary AT alexandrepcheng peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary AT veshsrivatana peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary AT lisatzhang peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary AT emmanueledusei peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary AT shadyalbakry peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary AT brittanybotticelli peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary AT xunxiguo peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary AT amandarenaghan peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary AT jeffreysilberzweig peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary AT darshanamdadhania peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary AT joanslenz peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary AT michaelheyang peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary AT iliyandiliev peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary AT joshuaahayden peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary AT larsfwestblade peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary AT iwijndevlaminck peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary AT johnrlee peritonealeffluentcellfreednasequencinginperitonealdialysispatientswithandwithoutperitonitisplainlanguagesummary |