Annotated features of domestic cat - Felis catus genome

作者：Tamazian Gaik; Simonov Serguei; Dobrynin Pavel; Makunin Alexey; Logachev Anton; Komissarov Aleksey; Shevchenko Andrey; Brukhin Vladimir; Cherkasov Nikolay; Svitin Anton; Koepfli Klaus Peter; Pontius Joan; Driscoll Carlos A; Blackistone Kevin; Barr Cristina; Goldman David; Antunes Agostinho; Quilez Javier; Lorente Galdos Belen; Alkan Can; Marques Bonet Tomas; Menotti Raymond Marylin; David Victor A; Narfstroem Kristina; O' Brien Stephen J

来源：GigaScience, 2014, 3(1): 13.

DOI：10.1186/2047-217X-3-13

• Felis catus
• Domestic cat
• Felis silvestris silvestris
• European wildcat
• Genome sequence
• Annotation
• Assembly

Background: Domestic cats enjoy an extensive veterinary medical surveillance which has described nearly 250 genetic diseases analogous to human disorders. Feline infectious agents offer powerful natural models of deadly human diseases, which include feline immunodeficiency virus, feline sarcoma virus and feline leukemia virus. A rich veterinary literature of feline disease pathogenesis and the demonstration of a highly conserved ancestral mammal genome organization make the cat genome annotation a highly informative resource that facilitates multifaceted research endeavors. %26lt;br%26gt;Findings: Here we report a preliminary annotation of the whole genome sequence of Cinnamon, a domestic cat living in Columbia (MO, USA), bisulfite sequencing of Boris, a male cat from St. Petersburg (Russia), and light 30x sequencing of Sylvester, a European wildcat progenitor of cat domestication. The annotation includes 21,865 protein-coding genes identified by a comparative approach, 217 loci of endogenous retrovirus-like elements, repetitive elements which comprise about 55.7% of the whole genome, 99,494 new SNVs, 8,355 new indels, 743,326 evolutionary constrained elements, and 3,182 microRNA homologues. The methylation sites study shows that 10.5% of cat genome cytosines are methylated. An assisted assembly of a European wildcat, Felis silvestris silvestris, was performed; variants between F. silvestris and F. catus genomes were derived and compared to F. catus. %26lt;br%26gt;Conclusions: The presented genome annotation extends beyond earlier ones by closing gaps of sequence that were unavoidable with previous low-coverage shotgun genome sequencing. The assembly and its annotation offer an important resource for connecting the rich veterinary and natural history of cats to genome discovery.

• 出版日期2014-8-5
• 单位东南大学