RT Journal Article
T1 Genome-Wide Association Study of Fiber Diameter in Alpacas
A1 More, Manuel
A1 Veli, Eudosio
A1 Cruz, Alan
A1 Gutiérrez García, Juan Pablo
A1 Gutiérrez, Gustavo
A1 Ponce de León, F. Abel
AB The aim of this study was the identification of candidate genomic regions associated with fiber diameter in alpacas. DNA samples were collected from 1011 female Huacaya alpacas from two geographical Andean regions in Peru (Pasco and Puno), and three alpaca farms within each region. The samples were genotyped using an Affymetrix Custom Alpaca genotyping array containing 76,508 SNPs. After the quality controls, 960 samples and 51,742 SNPs were retained. Three association study methodologies were performed. The GWAS based on a linear model allowed us to identify 11 and 35 SNPs (-log10(p-values) > 4) using information on all alpacas and alpacas with extreme values of fiber diameter, respectively. The haplotype and marker analysis method allowed us to identify nine haplotypes with standardized haplotype heritability higher than six standard deviations. The selection signatures based on cross-population extended haplotype homozygosity (XP-EHH) allowed us to identify 180 SNPs with XP-EHH values greater than |3|. Four candidate regions with adjacent SNPs identified via two association methods of analysis are located on VPA6, VPA9, VPA29 and one chromosomally unassigned scaffold. This study represents the first analysis of alpaca whole genome association with fiber diameter, using a recently assembled alpaca SNP microarray.
PB MDPI
YR 2023
FD 2023-10-25
LK https://hdl.handle.net/20.500.14352/103757
UL https://hdl.handle.net/20.500.14352/103757
LA eng
NO More, M., Veli, E., Cruz, A., Gutiérrez, J. P., Gutiérrez, G., & Ponce de León, F. A. (2023). Genome-Wide Association Study of Fiber Diameter in Alpacas. Animals : an open access journal from MDPI, 13(21), 3316. https://doi.org/10.3390/ani13213316
NO Ministerio de Desarrollo Agrario y Riego (Perú)
NO Universidad Nacional Agraria La Molina (Perú)
DS Docta Complutense
RD 2 oct 2024