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Initial sequence and comparative analysis of the cat genome
- Source :
- Genome Research
- Publication Year :
- 2007
- Publisher :
- Cold Spring Harbor Laboratory Press, 2007.
-
Abstract
- The genome sequence (1.9-fold coverage) of an inbred Abyssinian domestic cat was assembled, mapped, and annotated with a comparative approach that involved cross-reference to annotated genome assemblies of six mammals (human, chimpanzee, mouse, rat, dog, and cow). The results resolved chromosomal positions for 663,480 contigs, 20,285 putative feline gene orthologs, and 133,499 conserved sequence blocks (CSBs). Additional annotated features include repetitive elements, endogenous retroviral sequences, nuclear mitochondrial (numt) sequences, micro-RNAs, and evolutionary breakpoints that suggest historic balancing of translocation and inversion incidences in distinct mammalian lineages. Large numbers of single nucleotide polymorphisms (SNPs), deletion insertion polymorphisms (DIPs), and short tandem repeats (STRs), suitable for linkage or association studies were characterized in the context of long stretches of chromosome homozygosity. In spite of the light coverage capturing ∼65% of euchromatin sequence from the cat genome, these comparative insights shed new light on the tempo and mode of gene/genome evolution in mammals, promise several research applications for the cat, and also illustrate that a comparative approach using more deeply covered mammals provides an informative, preliminary annotation of a light (1.9-fold) coverage mammal genome sequence.
- Subjects :
- Resource
Genome evolution
Genomics
Computational biology
Biology
Polymorphism, Single Nucleotide
Genome
Conserved sequence
Mice
Dogs
Genetics
Animals
Humans
Gene
Genetics (clinical)
Repetitive Sequences, Nucleic Acid
Whole genome sequencing
Models, Genetic
Genome project
Rats
MicroRNAs
Cats
Numt
Microsatellite Repeats
Subjects
Details
- Language :
- English
- Database :
- OpenAIRE
- Journal :
- Genome Research
- Accession number :
- edsair.doi.dedup.....5a517d70d1b66834cae58e03e9af6916