ArticleInternational journal of genomics2015
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.
Article in International journal of genomics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed.
- Whole-genome resequencing reveals the uniqueness of Subei yak.Journal of animal science · 2024Article
- Function Identification of BovineFrontiers in veterinary science · 2021Article
- Whole-genome sequencing of European autochthonous and commercial pig breeds allows the detection of signatures of selection for adaptation of genetic resources to different breeding and production systems.Genetics, selection, evolution : GSE · 2020Article
- Shotgun sequencing of honey DNA can describe honey bee derived environmental signatures and the honey bee hologenome complexity.Scientific reports · 2020Article
- Signatures of positive selection underlying beef production traits in Korean cattle breeds.Journal of animal science and technology · 2020Article
- Genome-wide genetic structure and differentially selected regions among Landrace, Erhualian, and Meishan pigs using specific-locus amplified fragment sequencing.Scientific reports · 2017Article
- Article
- Genome Wide Sampling Sequencing for SNP Genotyping: Methods, Challenges and Future Development.International journal of biological sciences · 2016Review
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Authors and funding
6 authors.
Funding
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Abstract
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.
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