Limitations of the rhesus macaque draft genome assembly and annotation

Xiongfei Zhang, Joel Goodsell, Robert B. Norgren

Research output: Contribution to journalLetterpeer-review

50 Scopus citations


Finished genome sequences and assemblies are available for only a few vertebrates. Thus, investigators studying many species must rely on draft genomes. Using the rhesus macaque as an example, we document the effects of sequencing errors, gaps in sequence and misassemblies on one automated gene model pipeline, Gnomon. The combination of draft genome with automated gene finding software can result in spurious sequences. We estimate that approximately 50% of the rhesus gene models are missing, incomplete or incorrect. The problems identified in this work likely apply to all draft vertebrate genomes annotated with any automated gene model pipeline and thus represent a pervasive challenge to the analysis of draft genomes.

Original languageEnglish (US)
Article number206
JournalBMC genomics
Issue number1
StatePublished - May 30 2012

ASJC Scopus subject areas

  • Biotechnology
  • Genetics


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