Endogenous murine leukemia retroviral variation across wild European and inbred strains of house mouse.
BMC Genomics
; 16: 613, 2015 Aug 18.
Article
en En
| MEDLINE
| ID: mdl-26282858
ABSTRACT
BACKGROUND:
Endogenous murine leukemia retroviruses (MLVs) are high copy number proviral elements difficult to comprehensively characterize using standard low throughput sequencing approaches. However, high throughput approaches generate data that is challenging to process, interpret and present.RESULTS:
Next generation sequencing (NGS) data was generated for MLVs from two wild caught Mus musculus domesticus (from mainland France and Corsica) and for inbred laboratory mouse strains C3H, LP/J and SJL. Sequence reads were grouped using a novel sequence clustering approach as applied to retroviral sequences. A Markov cluster algorithm was employed, and the sequence reads were queried for matches to specific xenotropic (Xmv), polytropic (Pmv) and modified polytropic (Mpmv) viral reference sequences.CONCLUSIONS:
Various MLV subtypes were more widespread than expected among the mice, which may be due to the higher coverage of NGS, or to the presence of similar sequence across many different proviral loci. The results did not correlate with variation in the major MLV receptor Xpr1, which can restrict exogenous MLVs, suggesting that endogenous MLV distribution may reflect gene flow more than past resistance to infection.
Texto completo:
1
Colección:
01-internacional
Base de datos:
MEDLINE
Asunto principal:
ARN Viral
/
Análisis de Secuencia de ARN
/
Virus de la Leucemia Murina
Tipo de estudio:
Health_economic_evaluation
Límite:
Animals
País/Región como asunto:
Europa
Idioma:
En
Revista:
BMC Genomics
Asunto de la revista:
GENETICA
Año:
2015
Tipo del documento:
Article
País de afiliación:
Alemania