A second-generation anchored genetic linkage map of the tammar wallaby (Macropus eugenii)

Wang, Chenwei, Webley, Lee, Wei, Ke-jun, Wakefield, Matthew J., Patel, Hardip R., Deakin, Janine E., Alsop, Amber, Graves, Jennifer A Marshall, Cooper, Desmond W., Nicholas, Frank W. and Zenger, Kyall R. (2011) A second-generation anchored genetic linkage map of the tammar wallaby (Macropus eugenii). BMC Genetics, 12 72.1-72.16. doi:10.1186/1471-2156-12-72

Author Wang, Chenwei
Webley, Lee
Wei, Ke-jun
Wakefield, Matthew J.
Patel, Hardip R.
Deakin, Janine E.
Alsop, Amber
Graves, Jennifer A Marshall
Cooper, Desmond W.
Nicholas, Frank W.
Zenger, Kyall R.
Title A second-generation anchored genetic linkage map of the tammar wallaby (Macropus eugenii)
Journal name BMC Genetics   Check publisher's open access policy
ISSN 1471-2156
Publication date 2011-08
Sub-type Article (original research)
DOI 10.1186/1471-2156-12-72
Open Access Status DOI
Volume 12
Start page 72.1
End page 72.16
Total pages 16
Place of publication London, England, U.K.
Publisher BioMed Central
Collection year 2012
Language eng
Formatted abstract
Background: The tammar wallaby, Macropus eugenii, a small kangaroo used for decades for studies of reproduction and metabolism, is the model Australian marsupial for genome sequencing and genetic investigations. The production of a more comprehensive cytogenetically-anchored genetic linkage map will
significantly contribute to the deciphering of the tammar wallaby genome. It has great value as a resource to identify novel genes and for comparative studies, and is vital for the ongoing genome sequence assembly and gene ordering in this species.
Results: A second-generation anchored tammar wallaby genetic linkage map has been constructed based on a total of 148 loci. The linkage map contains the original 64 loci included in the first-generation map, plus an additional 84 microsatellite loci that were chosen specifically to increase coverage and assist with the anchoring
and orientation of linkage groups to chromosomes. These additional loci were derived from (a) sequenced BAC clones that had been previously mapped to tammar wallaby chromosomes by fluorescence in situ hybridization (FISH), (b) End sequence from BACs subsequently FISH-mapped to tammar wallaby chromosomes, and (c) tammar wallaby genes orthologous to opossum genes predicted to fill gaps in the tammar wallaby linkage map as well as three X-linked markers from a published study. Based on these 148 loci, eight linkage groups were formed. These linkage groups were assigned (via FISH-mapped markers) to all seven autosomes and the X chromosome. The sexpooled map size is 1402.4 cM, which is estimated to provide 82.6% total coverage of the genome, with an average interval distance of 10.9 cM between adjacent markers. The overall ratio of female/male map length is 0.84, which
is comparable to the ratio of 0.78 obtained for the first-generation map.
Conclusions: Construction of this second-generation genetic linkage map is a significant step towards complete coverage of the tammar wallaby genome and considerably extends that of the first-generation map. It will be a valuable resource for ongoing tammar wallaby genetic research and assembling the genome sequence. The sexpooled map is available online at http://compldb.angis.org.au/.
Keyword Marsupial Monodelphis-Domestica
Short-Tailed Opossum
Recombination Rates
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status Non-UQ
Additional Notes Published: 19 August 2011

Document type: Journal Article
Sub-type: Article (original research)
Collections: Non HERDC
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