Reduced Representation Libraries from DNA Pools Analysed with Next Generation Semiconductor Based-Sequencing to Identify SNPs in Extreme and Divergent Pigs for Back Fat Thickness
Joint Authors
Fontanesi, Luca
Dall'Olio, Stefania
Bovo, Samuele
Bertolini, Francesca
Schiavo, Giuseppina
Mazzoni, Gianluca
Source
International Journal of Genomics
Issue
Vol. 2015, Issue 2015 (31 Dec. 2015), pp.1-8, 8 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2015-03-04
Country of Publication
Egypt
No. of Pages
8
Main Subjects
Abstract EN
The aim of this study was to identify single nucleotide polymorphisms (SNPs) that could be associated with back fat thickness (BFT) in pigs.
To achieve this goal, we evaluated the potential and limits of an experimental design that combined several methodologies.
DNA samples from two groups of Italian Large White pigs with divergent estimating breeding value (EBV) for BFT were separately pooled and sequenced, after preparation of reduced representation libraries (RRLs), on the Ion Torrent technology.
Taking advantage from SNAPE for SNPs calling in sequenced DNA pools, 39,165 SNPs were identified; 1/4 of them were novel variants not reported in dbSNP.
Combining sequencing data with Illumina PorcineSNP60 BeadChip genotyping results on the same animals, 661 genomic positions overlapped with a good approximation of minor allele frequency estimation.
A total of 54 SNPs showing enriched alleles in one or in the other RRLs might be potential markers associated with BFT.
Some of these SNPs were close to genes involved in obesity related phenotypes.
American Psychological Association (APA)
Bovo, Samuele& Bertolini, Francesca& Schiavo, Giuseppina& Mazzoni, Gianluca& Dall'Olio, Stefania& Fontanesi, Luca. 2015. Reduced Representation Libraries from DNA Pools Analysed with Next Generation Semiconductor Based-Sequencing to Identify SNPs in Extreme and Divergent Pigs for Back Fat Thickness. International Journal of Genomics،Vol. 2015, no. 2015, pp.1-8.
https://search.emarefa.net/detail/BIM-1066050
Modern Language Association (MLA)
Bovo, Samuele…[et al.]. Reduced Representation Libraries from DNA Pools Analysed with Next Generation Semiconductor Based-Sequencing to Identify SNPs in Extreme and Divergent Pigs for Back Fat Thickness. International Journal of Genomics No. 2015 (2015), pp.1-8.
https://search.emarefa.net/detail/BIM-1066050
American Medical Association (AMA)
Bovo, Samuele& Bertolini, Francesca& Schiavo, Giuseppina& Mazzoni, Gianluca& Dall'Olio, Stefania& Fontanesi, Luca. Reduced Representation Libraries from DNA Pools Analysed with Next Generation Semiconductor Based-Sequencing to Identify SNPs in Extreme and Divergent Pigs for Back Fat Thickness. International Journal of Genomics. 2015. Vol. 2015, no. 2015, pp.1-8.
https://search.emarefa.net/detail/BIM-1066050
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-1066050