Reference-Guided Draft Genome Assembly, Annotation and SSR Mining Data of the Peruvian Creole Cattle (Bos taurus)

• Autores: Estrada Cañari, Richard, Corredor Arizapana, Flor Anita, Figueroa, Deyanira, Salazar Coronel, Wilian, Quilcate Pairazamán, Carlos Enrique, Vásquez Pérez, Héctor Vladimir, Maicelo Quintana, Jorge Luis, Gonzales, Jhony, Arbizu Berrocal, Carlos Irvin
• Formato: artículo
• Fecha de Publicación: 2022
• Institución: Instituto Nacional de Innovación Agraria
• Repositorio: INIA-Institucional
• Lenguaje: inglés
• OAI Identifier: oai:null:20.500.12955/2054
• Enlace del recurso: https://hdl.handle.net/20.500.12955/2054; https://doi.org/10.3390/data7110155
• Nivel de acceso: acceso abierto
• Materia: NGS; Neglected breed; Genome; Reference scaffolding; Microsatellites; https://purl.org/pe-repo/ocde/ford#4.03.01; High-throughput sequencing; Breeds (animals); Genomes

The Peruvian creole cattle (PCC) is a neglected breed and an essential livestock resource in the Andean region of Peru. To develop a modern breeding program and conservation strategies for the PCC, a better understanding of the genetics of this breed is needed. We sequenced the whole genome of the PCC using a de novo assembly approach with a paired-end 150 strategy on the Illumina HiSeq 2500 platform, obtaining 320 GB of sequencing data. A reference scaffolding was used to improve the draft genome. The obtained genome size of the PCC was 2.81 Gb with a contig N50 of 108 Mb and 92.59% complete BUSCOs. This genome size is similar to the genome references of Bos taurus and B. indicus. In addition, we identified 40.22% of repetitive DNA of the genome assembly, of which retroelements occupy 32.39% of the total genome. A total of 19,803 protein-coding genes were annotated in the PCC genome. For SSR data mining, we detected similar statistics in comparison with other breeds. The PCC genome will contribute to a better understanding of the genetics of this species and its adaptation to tough conditions in the Andean ecosystem.