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First genome-wide CNV mapping in FELIS CATUS using next generation sequencing data.

F Genova1, M Longeri1, L A Lyons2

  • 1Department of Veterinary Medicine, University of Milan, 20122, Milan, Italy.

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|December 12, 2018
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Summary
This summary is machine-generated.

This study presents the first genome-wide mapping of Copy Number Variations (CNVs) in domestic cats. These identified genomic variations provide a foundation for future feline trait and disease research.

Keywords:
CNVCNVRCNVnatorCat breedsCn.MOPSFelis catusNGS

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Area of Science:

  • Genomics
  • Comparative genomics
  • Animal genetics

Background:

  • Copy Number Variations (CNVs) are significant genomic variants influencing phenotypes and diseases in humans and animals.
  • Genome-wide investigation of CNVs in domestic cats (Felis catus) was previously lacking.
  • This research is the first CNV mapping in domestic cats using Next Generation Sequencing (NGS) data from the 99 Lives Consortium.

Purpose of the Study:

  • To perform the first genome-wide mapping of Copy Number Variations (CNVs) in the domestic cat.
  • To characterize CNVs across 14 different cat breeds.
  • To provide a foundational dataset for future studies on feline traits and diseases.

Main Methods:

  • Mapping Next Generation Sequencing (NGS) reads to the Felis catus reference genome assembly_6.2.
  • Utilizing cn.MOPS and CNVnator for CNV detection.
  • Employing BedTools for CNV Region (CNVR) identification and annotation of genes within CNVRs.

Main Results:

  • Detected 592 CNVs, forming 154 CNV Regions (CNVRs) that cover 0.26% of the cat genome.
  • CNVRs comprised 129 losses, 19 gains, and 6 complex variations.
  • Cluster and Principal Component Analysis revealed breed and geographical clustering of CNVRs, with 46 genes identified within these regions.

Conclusions:

  • The study significantly enhances the genomic characterization of 14 domestic cat breeds.
  • Provides valuable CNV information crucial for future feline trait and disease research.
  • Establishes a robust starting point for genomic CNV identification in Felis catus.