Ontology type: schema:ScholarlyArticle Open Access: True
2012-05-14
AUTHORSNancy Chen, Daniel W Bellott, David C Page, Andrew G Clark
ABSTRACTBackgroundThe female-specific W chromosomes and male-specific Y chromosomes have proven difficult to assemble with whole-genome shotgun methods, creating a demand for new approaches to identify sequence contigs specific to these sex chromosomes. Here, we develop and apply a novel method for identifying sequences that are W-specific.ResultsUsing the Illumina Genome Analyzer, we generated sequence reads from a male domestic chicken (ZZ) and mapped them to the existing female (ZW) genome sequence. This method allowed us to identify segments of the female genome that are underrepresented in the male genome and are therefore likely to be female specific. We developed a Bayesian classifier to automate the calling of W-linked contigs and successfully identified more than 60 novel W-specific sequences.ConclusionsOur classifier can be applied to improve heterogametic whole-genome shotgun assemblies of the W or Y chromosome of any organism. This study greatly improves our knowledge of the W chromosome and will enhance future studies of avian sex determination and sex chromosome evolution. More... »
PAGES183
http://scigraph.springernature.com/pub.10.1186/1471-2164-13-183
DOIhttp://dx.doi.org/10.1186/1471-2164-13-183
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PUBMEDhttps://www.ncbi.nlm.nih.gov/pubmed/22583744
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