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

Author

Listed:
  • Richard Estrada

    (Dirección de Desarrollo Tecnológico Agrario, Instituto Nacional de Innovación Agraria (INIA), Av. La Molina 1981, Lima 15024, Peru)

  • Flor-Anita Corredor

    (Dirección de Desarrollo Tecnológico Agrario, Instituto Nacional de Innovación Agraria (INIA), Av. La Molina 1981, Lima 15024, Peru)

  • Deyanira Figueroa

    (Dirección de Desarrollo Tecnológico Agrario, Instituto Nacional de Innovación Agraria (INIA), Av. La Molina 1981, Lima 15024, Peru)

  • Wilian Salazar

    (Dirección de Desarrollo Tecnológico Agrario, Instituto Nacional de Innovación Agraria (INIA), Av. La Molina 1981, Lima 15024, Peru)

  • Carlos Quilcate

    (Dirección de Desarrollo Tecnológico Agrario, Instituto Nacional de Innovación Agraria (INIA), Av. La Molina 1981, Lima 15024, Peru)

  • Héctor V. Vásquez

    (Dirección de Desarrollo Tecnológico Agrario, Instituto Nacional de Innovación Agraria (INIA), Av. La Molina 1981, Lima 15024, Peru)

  • Jorge L. Maicelo

    (Dirección de Desarrollo Tecnológico Agrario, Instituto Nacional de Innovación Agraria (INIA), Av. La Molina 1981, Lima 15024, Peru
    Facultad de Zootecnia, Agronegocios y Biotecnología, Universidad Nacional Toribio Rodríguez de Mendoza de Amazonas (UNTRM), Chachapoyas 01001, Peru)

  • Jhony Gonzales

    (Laboratorio de Biología Molecular, Universidad Nacional de Frontera, Av. San Hilarión 101, Sullana 20103, Peru)

  • Carlos I. Arbizu

    (Dirección de Desarrollo Tecnológico Agrario, Instituto Nacional de Innovación Agraria (INIA), Av. La Molina 1981, Lima 15024, Peru)

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.

Suggested Citation

  • Richard Estrada & Flor-Anita Corredor & Deyanira Figueroa & Wilian Salazar & Carlos Quilcate & Héctor V. Vásquez & Jorge L. Maicelo & Jhony Gonzales & Carlos I. Arbizu, 2022. "Reference-Guided Draft Genome Assembly, Annotation and SSR Mining Data of the Peruvian Creole Cattle ( Bos taurus )," Data, MDPI, vol. 7(11), pages 1-12, November.
    • Handle: RePEc:gam:jdataj:v:7:y:2022:i:11:p:155-:d:967621
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    References listed on IDEAS

    as
    1. Carlos I. Arbizu & Rubén D. Ferro-Mauricio & Julio C. Chávez-Galarza & Héctor V. Vásquez & Jorge L. Maicelo & Carlos Poemape & Jhony Gonzales & Carlos Quilcate & Flor-Anita Corredor, 2022. "The Complete Mitochondrial Genome of a Neglected Breed, the Peruvian Creole Cattle ( Bos taurus ), and Its Phylogenetic Analysis," Data, MDPI, vol. 7(6), pages 1-14, June.
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