Bibliographic citations
Calderón, M., (2022). Identificación de polimorfismos de nucleótido simple (PNSs) por secuenciamiento de Bibliotecas de representación reducida en Alpacas (vicugna pacos) Huacaya [Universidad Nacional Agraria La Molina]. https://hdl.handle.net/20.500.12996/5558
Calderón, M., Identificación de polimorfismos de nucleótido simple (PNSs) por secuenciamiento de Bibliotecas de representación reducida en Alpacas (vicugna pacos) Huacaya []. PE: Universidad Nacional Agraria La Molina; 2022. https://hdl.handle.net/20.500.12996/5558
@phdthesis{sunedu/3948036,
title = "Identificación de polimorfismos de nucleótido simple (PNSs) por secuenciamiento de Bibliotecas de representación reducida en Alpacas (vicugna pacos) Huacaya",
author = "Calderón Montes, Marcos",
publisher = "Universidad Nacional Agraria La Molina",
year = "2022"
}
Small farm producers’ sustenance depends on their alpaca herds and the production of fiber. Genetic improvement of fiber characteristics would increase their economic benefits and quality of life. The incorporation of molecular marker technology could overcome current limitations for the implementation of genetic improvement programs. Hence, the aim of this project was the discovered of single nucleotide polymorphism (SNP) by sequencing reduced representation libraries (RRB) of alpaca. A sample of 150 Huacaya alpacas from four farms, two each in Puno and Cerro de Pasco were used for SNP discovery by genotyping by sequencing (GBS). The RRB, two per animal, were produced after DNA digestion with ApeK1 and double digestion with Pst1-Msp1. Ten alpaca genomes, sequenced at depths between 12X to 30X, and the VicPac3.1 reference genome were used for read alignments. 76,508 SNPs were included in the alpaca SNP microarray, where 302 SNPs were located in candidate genes for fiber quality and color. The microarray SNPs covered 90.5 percent of the genome length with a density of about 39±2.51 SNPs/Mb of DNA at an average interval of 26.45±18.57 kbp. The performance was evaluated by genotyping 30 family trios and comparing them to their pedigrees, as well as comparing microarray to GBS genotypes. Concordance values of 0.93 and 0.94 for ApeK1 and Pst1-Msp1 generated SNPs were observed. Availability of this microarray SNPs will facilitate genome-wide association studies, marker-assisted selection and, in time, genomic selection.
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