دورية أكاديمية
أعرض في EDS

Tracking gut microbiome and bloodstream infection in critically ill adults.

التفاصيل البيبلوغرافية
العنوان: Tracking gut microbiome and bloodstream infection in critically ill adults.
المؤلفون: Gu CH; Department of Microbiology, University of Pennsylvania School of Medicine, Philadelphia, PA, United States of America., Khatib LA; Department of Medicine, Pulmonary and Critical Care Division and the Center for Translational Lung Biology / Lung Biology Institute, University of Pennsylvania School of Medicine, Philadelphia, PA, United States of America., Fitzgerald AS; Department of Medicine, Pulmonary and Critical Care Division and the Center for Translational Lung Biology / Lung Biology Institute, University of Pennsylvania School of Medicine, Philadelphia, PA, United States of America., Graham-Wooten J; Department of Medicine, Pulmonary and Critical Care Division and the Center for Translational Lung Biology / Lung Biology Institute, University of Pennsylvania School of Medicine, Philadelphia, PA, United States of America., Ittner CA; Department of Medicine, Pulmonary and Critical Care Division and the Center for Translational Lung Biology / Lung Biology Institute, University of Pennsylvania School of Medicine, Philadelphia, PA, United States of America., Sherrill-Mix S; Department of Microbiology, University of Pennsylvania School of Medicine, Philadelphia, PA, United States of America., Chuang Y; Department of Medicine, Pulmonary and Critical Care Division and the Center for Translational Lung Biology / Lung Biology Institute, University of Pennsylvania School of Medicine, Philadelphia, PA, United States of America., Glaser LJ; Department of Pathology and Laboratory Medicine, University of Pennsylvania School of Medicine, Philadelphia, PA, United States of America., Meyer NJ; Department of Medicine, Pulmonary and Critical Care Division and the Center for Translational Lung Biology / Lung Biology Institute, University of Pennsylvania School of Medicine, Philadelphia, PA, United States of America., Bushman FD; Department of Microbiology, University of Pennsylvania School of Medicine, Philadelphia, PA, United States of America., Collman RG; Department of Microbiology, University of Pennsylvania School of Medicine, Philadelphia, PA, United States of America.; Department of Medicine, Pulmonary and Critical Care Division and the Center for Translational Lung Biology / Lung Biology Institute, University of Pennsylvania School of Medicine, Philadelphia, PA, United States of America.
المصدر: PloS one [PLoS One] 2023 Oct 10; Vol. 18 (10), pp. e0289923. Date of Electronic Publication: 2023 Oct 10 (Print Publication: 2023).
نوع المنشور: Journal Article; Research Support, N.I.H., Extramural
اللغة: English
بيانات الدورية: Publisher: Public Library of Science Country of Publication: United States NLM ID: 101285081 Publication Model: eCollection Cited Medium: Internet ISSN: 1932-6203 (Electronic) Linking ISSN: 19326203 NLM ISO Abbreviation: PLoS One Subsets: MEDLINE
أسماء مطبوعة: Original Publication: San Francisco, CA : Public Library of Science
مواضيع طبية MeSH: Gastrointestinal Microbiome*/genetics , Bacteremia*/microbiology , Sepsis*, Humans ; Adult ; Critical Illness ; Bacteria/genetics
مستخلص: Background: The gut microbiome is believed to contribute to bloodstream infection (BSI) via translocation of dominant gut bacteria in vulnerable patient populations. However, conclusively linking gut and blood organisms requires stringent approaches to establish strain-level identity.
Methods: We enrolled a convenience cohort of critically ill patients and investigated 86 bloodstream infection episodes that occurred in 57 patients. Shotgun metagenomic sequencing was used to define constituents of their gut microbiomes, and whole genome sequencing and assembly was done on 23 unique bloodstream isolates that were available from 21 patients. Whole genome sequences were downloaded from public databases and used to establish sequence-identity distribution and define thresholds for unrelated genomes of BSI species. Gut microbiome reads were then aligned to whole genome sequences of the cognate bloodstream isolate and unrelated database isolates to assess identity.
Results: Gut microbiome constituents matching the bloodstream infection species were present in half of BSI episodes, and represented >30% relative abundance of gut sequences in 10% of episodes. Among the 23 unique bloodstream organisms that were available for whole genome sequencing, 14 were present in gut at the species level. Sequence alignment applying defined thresholds for identity revealed that 6 met criteria for identical strains in blood and gut, but 8 did not. Sequence identity between BSI isolates and gut microbiome reads was more likely when the species was present at higher relative abundance in gut.
Conclusion: In assessing potential gut source for BSI, stringent sequence-based approaches are essential to determine if organisms responsible for BSI are identical to those in gut: of 14 evaluable patients in which the same species was present in both sites, they were identical in 6/14, but were non-identical in 8/14 and thus inconsistent with gut source. This report demonstrates application of sequencing as a key tool to investigate infection tracking within patients.
Competing Interests: The authors have declared that no competing interests exist.
(Copyright: © 2023 Gu et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.)
References: Nat Med. 2020 Jan;26(1):59-64. (PMID: 31907459)
J Clin Invest. 2010 Dec;120(12):4332-41. (PMID: 21099116)
mSphere. 2016 Aug 31;1(4):. (PMID: 27602409)
Intensive Care Med Exp. 2023 Feb 3;11(1):6. (PMID: 36732439)
Am J Respir Crit Care Med. 1998 Aug;158(2):444-51. (PMID: 9700119)
Am J Infect Control. 2016 Apr 1;44(4):432-7. (PMID: 26775931)
Nat Med. 2018 Dec;24(12):1809-1814. (PMID: 30323331)
Intensive Care Med. 2017 Jan;43(1):59-68. (PMID: 27837233)
Antimicrob Agents Chemother. 2020 Oct 20;64(11):. (PMID: 32816734)
Genome Med. 2016 Apr 28;8(1):49. (PMID: 27121964)
Sci Transl Med. 2018 Sep 26;10(460):. (PMID: 30257956)
Microbiome. 2019 Mar 22;7(1):46. (PMID: 30902113)
Nat Microbiol. 2016 Jul 18;1(10):16113. (PMID: 27670109)
Infect Control Hosp Epidemiol. 2016 Jan;37(1):2-7. (PMID: 26456954)
Curr Opin Crit Care. 2018 Apr;24(2):105-111. (PMID: 29432297)
Virulence. 2016 Apr 2;7(3):267-79. (PMID: 26760527)
Nat Rev Immunol. 2017 Apr;17(4):219-232. (PMID: 28260787)
Semin Respir Crit Care Med. 2011 Oct;32(5):626-38. (PMID: 21989698)
Nature. 2012 Jun 13;486(7402):215-21. (PMID: 22699610)
Nat Microbiol. 2021 Dec;6(12):1505-1515. (PMID: 34764444)
Curr Opin Crit Care. 2016 Aug;22(4):347-53. (PMID: 27327243)
Curr Opin Gastroenterol. 2021 Nov 1;37(6):578-585. (PMID: 34419965)
PLoS One. 2020 Nov 9;15(11):e0236533. (PMID: 33166284)
Shock. 2016 Dec;46(6):649-654. (PMID: 27454385)
Crit Care. 2022 Apr 13;26(1):105. (PMID: 35418098)
PLoS Comput Biol. 2017 Jun 8;13(6):e1005595. (PMID: 28594827)
Microbiome. 2016 Dec 29;4(1):66. (PMID: 28034303)
Intensive Care Med. 1992;18(1):38-41. (PMID: 1578045)
Biol Blood Marrow Transplant. 2017 Feb;23(2):340-346. (PMID: 27890428)
JAMA Netw Open. 2020 Jan 3;3(1):e1918668. (PMID: 31913492)
Clin Infect Dis. 2012 Oct;55(7):905-14. (PMID: 22718773)
Clin Infect Dis. 2021 Dec 6;73(11):e4627-e4635. (PMID: 31976518)
Front Microbiol. 2022 Feb 03;13:825338. (PMID: 35185849)
Crit Care. 2019 May 31;23(1):195. (PMID: 31151471)
Biol Blood Marrow Transplant. 2019 Nov;25(11):2274-2280. (PMID: 31326608)
Biol Blood Marrow Transplant. 2010 Nov;16(11):1576-81. (PMID: 20685257)
Intensive Care Med. 2020 Feb;46(2):266-284. (PMID: 32047941)
Virulence. 2014 Jan 1;5(1):4-11. (PMID: 24335434)
JCO Oncol Pract. 2020 Mar;16(3):e306-e312. (PMID: 32048944)
PLoS One. 2014 Dec 04;9(12):e114356. (PMID: 25474264)
Crit Care Med. 2006 Jun;34(6):1589-96. (PMID: 16625125)
Chest. 2003 May;123(5):1615-24. (PMID: 12740282)
Am J Transl Res. 2021 Mar 15;13(3):1548-1557. (PMID: 33841678)
Crit Care. 2020 Jun 1;24(1):278. (PMID: 32487252)
Emerg Infect Dis. 2014 Jul;20(7):1149-55. (PMID: 24960557)
Infection. 2018 Dec;46(6):751-760. (PMID: 30003491)
Cell Host Microbe. 2019 May 8;25(5):719-729.e4. (PMID: 31071295)
Genome Biol. 2019 Nov 28;20(1):257. (PMID: 31779668)
Chest. 2009 Nov;136(5):1237-1248. (PMID: 19696123)
Ann Clin Microbiol Antimicrob. 2017 May 19;16(1):40. (PMID: 28526094)
PLoS Pathog. 2021 Jul 22;17(7):e1009710. (PMID: 34293071)
معلومات مُعتمدة: R01 HL137006 United States HL NHLBI NIH HHS; R01 HL137915 United States HL NHLBI NIH HHS; P30 AI045008 United States AI NIAID NIH HHS; R33 HL137063 United States HL NHLBI NIH HHS; R35 HL161196 United States HL NHLBI NIH HHS
تواريخ الأحداث: Date Created: 20231010 Date Completed: 20231012 Latest Revision: 20240503
رمز التحديث: 20240503
مُعرف محوري في PubMed: PMC10564172
DOI: 10.1371/journal.pone.0289923
PMID: 37816004
قاعدة البيانات: MEDLINE
الوصف
تدمد:1932-6203
DOI:10.1371/journal.pone.0289923