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Activity map of the tammar X chromosome shows that marsupial X inactivation is incomplete and escape is stochastic

Shafagh Al Nadaf1*, Paul D Waters12, Edda Koina123, Janine E Deakin12, Kristen S Jordan1 and Jennifer AM Graves12

Author Affiliations

1 Research School of Biology, The Australian National University, Biology Place, Canberra, 0200, Australia

2 ARC Centre of Excellence for Kangaroo Genomics, Research School of Biology, The Australian National University, Biology Place, Canberra, 0200, Australia

3 Current address: Cytogenetics Department, ACT Pathology, The Canberra Hospital, Yamba Drive, Canberra, 2605, Australia

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Genome Biology 2010, 11:R122  doi:10.1186/gb-2010-11-12-r122

Published: 23 December 2010



X chromosome inactivation is a spectacular example of epigenetic silencing. In order to deduce how this complex system evolved, we examined X inactivation in a model marsupial, the tammar wallaby (Macropus eugenii). In marsupials, X inactivation is known to be paternal, incomplete and tissue-specific, and occurs in the absence of an XIST orthologue.


We examined expression of X-borne genes using quantitative PCR, revealing a range of dosage compensation for different loci. To assess the frequency of 1X- or 2X-active fibroblasts, we investigated expression of 32 X-borne genes at the cellular level using RNA-FISH. In female fibroblasts, two-color RNA-FISH showed that genes were coordinately expressed from the same X (active X) in nuclei in which both loci were inactivated. However, loci on the other X escape inactivation independently, with each locus showing a characteristic frequency of 1X-active and 2X-active nuclei, equivalent to stochastic escape. We constructed an activity map of the tammar wallaby inactive X chromosome, which identified no relationship between gene location and extent of inactivation, nor any correlation with the presence or absence of a Y-borne paralog.


In the tammar wallaby, one X (presumed to be maternal) is expressed in all cells, but genes on the other (paternal) X escape inactivation independently and at characteristic frequencies. The paternal and incomplete X chromosome inactivation in marsupials, with stochastic escape, appears to be quite distinct from the X chromosome inactivation process in eutherians. We find no evidence for a polar spread of inactivation from an X inactivation center.