Efficiency of genotype imputation in buffalo's metacentric chromosomes rearranged from bovine reference

Efficiency of genotype imputation in buffalo's metacentric chromosomes rearranged from bovine reference

The assembly of a reference genome is essential for genome-wide studies, which requires the exact position of SNPs in any species. Buffalo specie has only scaffolds and annotated genes available, but the ordination of they are still not assembled. Previous studies carried out by our group observed t...

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Veröffentlicht in:CES medicina veterinaria y zootecnia 2016-09, Vol.11 (3), p.187
Hauptverfasser: Abreu dos Santos, Daniel Jordan, Francisco Cardoso, Diercles, Ferreira de Camargo, Gregório Miguel, Aspilcueta- Borquis, Rusbel Raul, Buzanskas, Marcos Eli, Hurtado-Lugo, Naudin Alejandro, Tonhati, Humberto
Format: Artikel
Sprache:spa
Schlagworte:
Analysis
Chromosomes
Genes
Genetic aspects
Genomes
Genomics
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Zusammenfassung:The assembly of a reference genome is essential for genome-wide studies, which requires the exact position of SNPs in any species. Buffalo specie has only scaffolds and annotated genes available, but the ordination of they are still not assembled. Previous studies carried out by our group observed the possibility of rearranging the buffalo's chromosomes using bovine reference map, by linkage disequilibrium between chromosomal structures. Thus, the aim of this study was to evaluate the imputation efficiency on five buffalo's chromosomes with (R_BBU) and without (NR_BBU) rearrangement. A total of 352 buffaloes were genotyped with 90K Axiom Buffalo Genotyping (Affymetrix). A total of 46,378 SNPs passed in the genotype quality control (call rate [greater than or equal to]0.95, MAF [greater than or equal to]0.05, P-HWE
ISSN:1900-9607
1900-9607