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Web End = Arch Microbiol (2016) 198:129135 DOI 10.1007/s00203-015-1168-2
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Web End = Fatal Psychrobacter sp. infection in a pediatric patient with meningitis identied by metagenomic nextgeneration sequencing in cerebrospinal uid
Abstract The genus Psychrobacter contains environmental, psychrophilic and halotolerant gram-negative bacteria considered rare opportunistic pathogens in humans. Metagenomics was performed on the cerebrospinal uid (CSF) of a pediatric patient with meningitis. Nucleic acids were extracted, randomly amplied, and sequenced with the 454 GS FLX Titanium next-generation sequencing (NGS) system. Sequencing reads were assembled, and potential virulence genes were predicted. Phylogenomic and phylogenetic studies were performed. Psychrobacter sp. 310 was identied, and several virulence genes characteristic of pathogenic bacteria were found. The phylogenomic study and 16S rRNA gene phylogenetic analysis showed that the closest relative of Psychrobacter sp. 310 was Psychrobacter sanguinis. To our knowledge, this is the rst report of a meningitis case associated with Psychrobacter sp. identied by NGS metagenomics in CSF from a pediatric patient. The metagenomic strategy based on NGS was a powerful tool to identify a rare unknown pathogen in a clinical case.
Communicated by Jorge Membrillo-Hernndez.
* Ramrez-Gonzlez Jos Ernesto [email protected]
1 Departamento de Biologa Molecular y Validacinde Tcnicas, Instituto de Diagnstico y Referencia Epidemiolgicos (InDRE), Secretara de Salud, Francisco de P. Miranda 117Bis, Col. Lomas de Plateros, Delegacin lvaro Obregn, C.P. 01480 Mexico, D.F., Mexico
2 Laboratorio de Gentica, Departamento de Zoologa, Escuela Nacional de Ciencias Biolgicas (ENCB), Instituto Politcnico Nacional, Prolongacin de Carpio y Plan de Ayala, S/N, Col. Casco de Santo Toms, Delegacin Miguel Hidalgo, C.P. 11340 Mexico, D.F., Mexico
3 Unidad de Investigacin Mdica en Enfermedades Infecciosas, Hospital de Pediatra, Instituto Mexicano
del Seguro Social, Centro Mdico Nacional SXXI, Av. Cuauhtmoc 330, Col. Doctores, Hospital de Pediatra, UIMEIP, CMN SXXI, IMSS, C.P. 06720 Mexico, D.F., Mexico
4 Facultad de Medicina, Universidad Nacional Autnoma de
Mxico, Paseo de las Facultades S/N, Ciudad Universitaria, C.P. 04510 Mexico, D.F., Mexico
5 Laboratorio de Bioinformtica y Biotecnologa Genmica,
Departamento de Bioqumica, Escuela Nacional de Ciencias Biolgicas (ENCB), Instituto Politcnico Nacional, Prolongacin de Carpio y Plan de Ayala, S/N,...