Complete genome analysis and characterization of neurotropic dengue virus 2 cosmopolitan genotype isolated from the cerebrospinal fluid of encephalitis patients.
Journal
PloS one
ISSN: 1932-6203
Titre abrégé: PLoS One
Pays: United States
ID NLM: 101285081
Informations de publication
Date de publication:
2020
2020
Historique:
received:
16
01
2020
accepted:
26
05
2020
entrez:
20
6
2020
pubmed:
20
6
2020
medline:
28
8
2020
Statut:
epublish
Résumé
Dengue virus (DENV) infection remains a major public health concern in many parts of the world, including Southeast Asia and the Americas. Sri Lanka experienced its largest dengue outbreak in 2017. Neurological symptoms associated with DENV infection have increasingly been reported in both children and adults. Here, we characterize DENV type 2 (DENV-2) strains, which were isolated from cerebrospinal fluid (CSF) and/or serum of patients with dengue encephalitis. Acute serum and CSF samples from each patient were subjected to dengue-specific non-structural protein 1 (NS1) antigen test, IgM and IgG enzyme-linked immunosorbent assay (ELISA), virus isolation, conventional and real-time polymerase chain reaction (PCR), and next-generation sequencing (NGS). Among the 5 dengue encephalitis patients examined, 4 recovered and 1 died. DENV-2 strains were isolated from serum and/or CSF samples of 3 patients. The highest viral genome levels were detected in the CSF and serum of the patient who succumbed to the illness. A phylogenetic tree revealed that the DENV-2 isolates belonged to a new clade of cosmopolitan genotype and were genetically close to strains identified in China, South Korea, Singapore, Malaysia, Thailand, and the Philippines. According to the NGS analysis, greater frequencies of nonsynonymous and synonymous mutations per gene were identified in the nonstructural genes. The full genomes of serum- and CSF-derived DENV-2 from the same patient shared 99.7% similarity, indicating that the virus spread across the blood-brain barrier. This is the first report to describe neurotropic DENV-2 using whole-genome analysis and to provide the clinical, immunological, and virological characteristics of dengue encephalitis patients during a severe dengue outbreak in Sri Lanka in 2017.
Identifiants
pubmed: 32555732
doi: 10.1371/journal.pone.0234508
pii: PONE-D-20-01443
pmc: PMC7302667
doi:
Substances chimiques
Immunoglobulin G
0
Immunoglobulin M
0
NS1 protein, Dengue virus type 2
0
Viral Nonstructural Proteins
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
e0234508Déclaration de conflit d'intérêts
The authors have declared that no competing interests exist.
Références
J Neurol Sci. 2008 Jun 15;269(1-2):41-8
pubmed: 18222482
Bioinformatics. 2010 Mar 1;26(5):589-95
pubmed: 20080505
J Clin Microbiol. 2004 Dec;42(12):5935-7
pubmed: 15583346
Nucleic Acids Res. 2012 Dec;40(22):11189-201
pubmed: 23066108
J Neurol Sci. 2006 Nov 1;249(1):19-24
pubmed: 16870213
PLoS Negl Trop Dis. 2018 Jan 12;12(1):e0006198
pubmed: 29329287
Emerg Infect Dis. 2012 Apr;18(4):677-9
pubmed: 22469335
J Clin Microbiol. 1992 Mar;30(3):545-51
pubmed: 1372617
Int J Infect Dis. 2010 Feb;14(2):e150-2
pubmed: 19501535
Emerg Infect Dis. 2014 Aug;20(8):1378-81
pubmed: 25062511
J Clin Microbiol. 1991 Oct;29(10):2107-10
pubmed: 1682341
Nat Methods. 2012 Jul 30;9(8):772
pubmed: 22847109
Lancet. 2011 May 14;377(9778):1630-1
pubmed: 21546075
Mol Biol Evol. 2013 Apr;30(4):772-80
pubmed: 23329690
Nat Rev Microbiol. 2010 Dec;8(12 Suppl):S7-16
pubmed: 21079655
Nat Biotechnol. 2011 May 15;29(7):644-52
pubmed: 21572440
J Virol Methods. 2011 Oct;177(1):128-31
pubmed: 21798288
PLoS One. 2016 May 23;11(5):e0154760
pubmed: 27213782
J Clin Virol. 2013 May;57(1):91-4
pubmed: 23415634
PLoS Negl Trop Dis. 2010 Oct 26;4(10):e854
pubmed: 21049060
Am J Trop Med Hyg. 1996 Mar;54(3):256-9
pubmed: 8600761
Neurol India. 2017 May-Jun;65(3):636-638
pubmed: 28488637
Nature. 2013 Apr 25;496(7446):504-7
pubmed: 23563266
Am J Trop Med Hyg. 2002 Feb;66(2):200-7
pubmed: 12135294
Trop Med Health. 2011 Dec;39(4 Suppl):3-11
pubmed: 22500131
Am J Trop Med Hyg. 2010 Sep;83(3):690-5
pubmed: 20810840
Infect Genet Evol. 2016 Sep;43:31-7
pubmed: 27154331
P R Health Sci J. 2009 Jun;28(2):114-20
pubmed: 19530552
Southeast Asian J Trop Med Public Health. 1999 Sep;30(3):504-6
pubmed: 10774659
Vector Borne Zoonotic Dis. 2010 Mar;10(2):143-50
pubmed: 19874185
Pediatr Infect Dis J. 2001 Feb;20(2):216-8
pubmed: 11224846
Front Cell Infect Microbiol. 2017 Oct 25;7:449
pubmed: 29119088
Rev Soc Bras Med Trop. 2016 Feb;49(1):125-9
pubmed: 27163577
J Virol Methods. 1985 May;11(1):15-22
pubmed: 2989309
Clin Microbiol Rev. 2009 Oct;22(4):564-81
pubmed: 19822889
Lancet. 2000 Mar 25;355(9209):1053-9
pubmed: 10744091
J Neurol Sci. 2008 Apr 15;267(1-2):36-40
pubmed: 17959198
Genome Res. 2012 Mar;22(3):568-76
pubmed: 22300766
J Neurol Sci. 2011 Apr 15;303(1-2):75-9
pubmed: 21292281
Lancet Neurol. 2013 Sep;12(9):906-919
pubmed: 23948177
J Med Virol. 2013 Jul;85(7):1258-66
pubmed: 23595687
J Clin Virol. 2015 Nov;72:146-51
pubmed: 26513765
BMC Bioinformatics. 2009 Dec 15;10:421
pubmed: 20003500
Syst Biol. 2010 May;59(3):307-21
pubmed: 20525638
Epidemiol Infect. 2017 Jul;145(9):1886-1897
pubmed: 28414004
J Clin Virol. 2015 Sep;70:93-96
pubmed: 26305828