Whole blood genome-wide transcriptome profiling and metagenomics next-generation sequencing in young infants with suspected sepsis in a low-and middle-income country: A study protocol

Gates Open Research

article

Constantin R. Popescu¹  Bentry Tembo³  Rhoda Chifisi³  Miranda M.M. Cavanagh⁴  Amy Huei-Yi Lee⁵  Blessings Chiluzi³  Emily J. Ciccone⁶  Gerald Tegha⁷  Esther Alonso-Prieto⁴  Jennifer Claydon¹  Dustin Dunsmuir¹  Mike Irvine¹  Guy Dumont¹  J. Mark Ansermino¹  Matthew O. Wiens¹  Jonathan J. Juliano^1,13  Niranjan Kissoon¹  Tisungane Mvalo⁷  Norman Lufesi^1,17  Msandeni Chiume-Kayuni³  Pascal M. Lavoie¹ 

[1] BC Children’s Hospital Research Institute;Department of Pediatrics, Université Laval;Kamuzu Central Hospital;BC Children’s & Women’s Health Centre;Department of Molecular Biology and Biochemistry, Simon Fraser University;Department of Medicine, University of North Carolina;University of North Carolina Project Malawi;Department of Pediatrics, University of British Columbia;Department of Anesthesiology, Pharmacology & Therapeutics, University of British Columbia;Department of Electrical and Computer Engineering, University of British Columbia;Walimu;Mbarara University of Science and Technology;Division of Infectious Diseases, School of Medicine, University of North Carolina;Department of Epidemiology, Gillings School of Global Public Health, University of North Carolina;Curriculum in Genetics and Molecular Biology, School of Medicine, University of North Carolina;Department of Pediatrics, University of North Carolina;Clinical Services Directorate, Ministry of Health

关键词: Newborns;    young infants;    sepsis;    prospective study;    low- and middle-income country;    epidemiology;    diagnosis;    RNA sequencing;    metagenomics;    blood culture.;   

DOI  :  10.12688/gatesopenres.13172.2

学科分类：电子与电气工程

来源: American Journal Of Pharmtech Research

【 摘 要 】

Conducting collaborative and comprehensive epidemiological research on neonatal sepsis in low- and middle-income countries (LMICs) is challenging due to a lack of diagnostic tests. This prospective study protocol aims to obtain epidemiological data on bacterial sepsis in newborns and young infants at Kamuzu Central Hospital in Lilongwe, Malawi. The main goal is to determine if the use of whole blood transcriptome host immune response signatures can help in the identification of infants who have sepsis of bacterial causes. The protocol includes a detailed clinical assessment with vital sign measurements, strict aseptic blood culture protocol with state-of-the-art microbial analyses and RNA-sequencing and metagenomics evaluations of host responses and pathogens, respectively. We also discuss the directions of a brief analysis plan for RNA sequencing data. This study will provide robust epidemiological data for sepsis in neonates and young infants in a setting where sepsis confers an inordinate burden of disease.

【 授权许可】

CC BY