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

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Abstract
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.
Funding Information
  • “Creación del servicio de agricultura de precisión en los Departamentos de Lambayeque, Huancavelica, Ucayali y San Martín 4 Departamentos” (CUI 2449640, CUI 2432072, CUI 2437731, PP0068)
  • Mejoramiento de la disponibilidad de material genético de ganado bovino con alto valor a nivel nacional 7 departamentos (CUI 2449640, CUI 2432072, CUI 2437731, PP0068)
  • “Creación del Servicio de laboratorio de Biología Molecular para la Investigación en la Universidad Nacional de Frontera – Distrito de Sullana” of the Ministry of Agrarian Development and Irrigation (MIDAGRI) of the Peruvian Government (CUI 2449640, CUI 2432072, CUI 2437731, PP0068)
  • Reducción de la vulnerabilidad y atención de emergencias por desastres (CUI 2449640, CUI 2432072, CUI 2437731, PP0068)

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