Genomic analysis of Enterococcus faecium strain RAOG174 associated with acute chorioamnionitis carried antibiotic resistance gene: is it time for precise microbiological identification for appropriate antibiotic use?
Pisut Pongchaikul,
Roberto Romero,
Paninee Mongkolsuk,
Pornpun Vivithanaporn,
Thidathip Wongsurawat,
Piroon Jenjaroenpun,
Perapon Nitayanon,
Iyarit Thaipisuttikul,
Threebhorn Kamlungkuea,
Arunee Singsaneh,
Pitak Santanirand,
Piya Chaemsaithong
Affiliations
Pisut Pongchaikul
Chakri Naruebodindra Medical Institute, Faculty of Medicine Ramathibodi Hospital Mahidol University
Roberto Romero
Pregnancy Research Branch (formerly The Perinatology Research Branch, NICHD/NIH/DHHS, in Detroit, Michigan, USA, has been renamed as the Pregnancy Research Branch, NICHD/NIH/DHHS), Division of Obstetrics and Maternal-Fetal Medicine, Division of Intramural Research, Eunice Kennedy Shriver National Institute of Child Health and Human Development, National Institutes of Health, United States Department of Health and Human Services
Paninee Mongkolsuk
Chakri Naruebodindra Medical Institute, Faculty of Medicine Ramathibodi Hospital Mahidol University
Pornpun Vivithanaporn
Chakri Naruebodindra Medical Institute, Faculty of Medicine Ramathibodi Hospital Mahidol University
Thidathip Wongsurawat
Division of Medical Bioinformatics, Research Department, Faculty of Medicine Siriraj Hospital, Mahidol University
Piroon Jenjaroenpun
Division of Medical Bioinformatics, Research Department, Faculty of Medicine Siriraj Hospital, Mahidol University
Perapon Nitayanon
Department of Microbiology, Faculty of Medicine Siriraj Hospital, Mahidol University
Iyarit Thaipisuttikul
Department of Microbiology, Faculty of Medicine Siriraj Hospital, Mahidol University
Threebhorn Kamlungkuea
Department of Obstetrics and Gynecology, Faculty of Medicine, Ramathibodi Hospital, Mahidol University
Arunee Singsaneh
Department of Pathology, Faculty of Medicine, Ramathibodi Hospital, Mahidol University
Pitak Santanirand
Department of Pathology, Faculty of Medicine, Ramathibodi Hospital, Mahidol University
Piya Chaemsaithong
Department of Obstetrics and Gynecology, Faculty of Medicine, Ramathibodi Hospital, Mahidol University
Abstract Background Preterm labor syndrome is associated with high perinatal morbidity and mortality, and intra-amniotic infection is a cause of preterm labor. The standard identification of causative microorganisms is based on the use of biochemical phenotypes, together with broth dilution-based antibiotic susceptibility from organisms grown in culture. However, such methods could not provide an accurate epidemiological aspect and a genetic basis of antimicrobial resistance leading to an inappropriate antibiotic administration. Hybrid genome assembly is a combination of short- and long-read sequencing, which provides better genomic resolution and completeness for genotypic identification and characterization. Herein, we performed a hybrid whole genome assembly sequencing of a pathogen associated with acute histologic chorioamnionitis in women presenting with PPROM. Results We identified Enterococcus faecium, namely E. faecium strain RAOG174, with several antibiotic resistance genes, including vancomycin and aminoglycoside. Virulence-associated genes and potential bacteriophage were also identified in this genome. Conclusion We report herein the first study demonstrating the use of hybrid genome assembly and genomic analysis to identify E. faecium ST17 as a pathogen associated with acute histologic chorioamnionitis. The analysis provided several antibiotic resistance-associated genes/mutations and mobile genetic elements. The occurrence of E. faecium ST17 raised the awareness of the colonization of clinically relevant E. faecium and the carrying of antibiotic resistance. This finding has brought the advantages of genomic approach in the identification of the bacterial species and antibiotic resistance gene for E. faecium for appropriate antibiotic use to improve maternal and neonatal care.
