Large-scale evolutionary surveillance of the 2009 H1N1 influenza A virus using resequencing arrays.
Nucleic Acids Res
; 38(9): e111, 2010 May.
Article
en En
| MEDLINE
| ID: mdl-20185568
ABSTRACT
In April 2009, a new influenza A (H1N1 2009) virus emerged that rapidly spread around the world. While current variants of this virus have caused widespread disease, particularly in vulnerable groups, there remains the possibility that future variants may cause increased virulence, drug resistance or vaccine escape. Early detection of these virus variants may offer the chance for increased containment and potentially prevention of the virus spread. We have developed and field-tested a resequencing kit that is capable of interrogating all eight segments of the 2009 influenza A(H1N1) virus genome and its variants, with added focus on critical regions such as drug-binding sites, structural components and mutation hotspots. The accompanying base-calling software (EvolSTAR) introduces novel methods that utilize neighbourhood hybridization intensity profiles and substitution bias of probes on the microarray for mutation confirmation and recovery of ambiguous base queries. Our results demonstrate that EvolSTAR is highly accurate and has a much improved call rate. The high throughput and short turn-around time from sample to sequence and analysis results (30 h for 24 samples) makes this kit an efficient large-scale evolutionary biosurveillance tool.
Texto completo:
1
Colección:
01-internacional
Base de datos:
MEDLINE
Asunto principal:
Análisis de Secuencia de ADN
/
Análisis de Secuencia por Matrices de Oligonucleótidos
/
Subtipo H1N1 del Virus de la Influenza A
Tipo de estudio:
Screening_studies
Límite:
Humans
Idioma:
En
Revista:
Nucleic Acids Res
Año:
2010
Tipo del documento:
Article
País de afiliación:
Singapur