Assessing the gene space in draft genomes
Genome sequencing projects have been initiated for a wide range of eukaryotes. A few projects have reached completion, but most exist as draft assemblies. As one of the main reasons to sequence a genome is to obtain its catalog of genes, an important question is how complete or completable the catal...
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| Veröffentlicht in: | Nucleic acids research 2009-01, Vol.37 (1), p.289-297 |
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| container_title | Nucleic acids research |
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| creator | Parra, Genis Bradnam, Keith Ning, Zemin Keane, Thomas Korf, Ian |
| description | Genome sequencing projects have been initiated for a wide range of eukaryotes. A few projects have reached completion, but most exist as draft assemblies. As one of the main reasons to sequence a genome is to obtain its catalog of genes, an important question is how complete or completable the catalog is in unfinished genomes. To answer this question, we have identified a set of core eukaryotic genes (CEGs), that are extremely highly conserved and which we believe are present in low copy numbers in higher eukaryotes. From an analysis of a phylogenetically diverse set of eukaryotic genome assemblies, we found that the proportion of CEGs mapped in draft genomes provides a useful metric for describing the gene space, and complements the commonly used N50 length and x-fold coverage values. |
| doi_str_mv | 10.1093/nar/gkn916 |
| format | Article |
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| subjects | Animals BASIC BIOLOGICAL SCIENCES Biochemistry & Molecular Biology Chromosome Mapping Genes Genomics Humans Proteins - genetics |
| title | Assessing the gene space in draft genomes |
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