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The tammar wallaby genome and transcriptome

The tammar wallaby (Macropus eugenii) is a kangaroo species native to islands lying near the coasts of Western and South Australia, as well as to small pockets of the mainland. The tammar is considered to be a model marsupial organism, and its value lies chiefly in the study of mammalian evolution, development and immunity. In a collection of articles published by BioMed Central, including a lead article in Genome Biology, the Australian-led, international Tammar Wallaby Genome Sequencing Consortium present the tammar wallaby genome and transcriptome sequences. These landmark datasets constitute the first kangaroo genome sequence and are enriched by a number of exciting biological findings that have only been made possible by the novel availability of sequencing data. Left: a tammar wallaby. Right: newborn tammar in its mother’s pouch.

  1. Research article

    Reconstruction of the ancestral marsupial karyotype from comparative gene maps

    The increasing number of assembled mammalian genomes makes it possible to compare genome organisation across mammalian lineages and reconstruct chromosomes of the ancestral marsupial and therian (marsupial and...

    Janine E Deakin, Margaret L Delbridge, Edda Koina, Nerida Harley, Amber E Alsop, Chenwei Wang, Vidushi S Patel and Jennifer A Marshall Graves

    BMC Evolutionary Biology 2013 13:258

    Published on: 21 November 2013

  2. Research article

    Unique small RNA signatures uncovered in the tammar wallaby genome

    Small RNAs have proven to be essential regulatory molecules encoded within eukaryotic genomes. These short RNAs participate in a diverse array of cellular processes including gene regulation, chromatin dynamic...

    James Lindsay, Dawn M Carone, Judy Brown, Laura Hall, Sohaib Qureshi, Sarah E Mitchell, Nicholas Jannetty, Greg Hannon, Marilyn Renfree, Andrew Pask, Michael O’Neill and Rachel O’Neill

    BMC Genomics 2012 13:559

    Published on: 17 October 2012

  3. Research

    Selected imprinting of INS in the marsupial

    In marsupials, growth and development of the young occur postnatally, regulated by milk that changes in composition throughout the long lactation. To initiate lactation in mammals, there is an absolute require...

    Jessica M Stringer, Shunsuke Suzuki, Andrew J Pask, Geoff Shaw and Marilyn B Renfree

    Epigenetics & Chromatin 2012 5:14

    Published on: 28 August 2012

  4. Research article

    Evolution of coding and non-coding genes in HOX clusters of a marsupial

    The HOX gene clusters are thought to be highly conserved amongst mammals and other vertebrates, but the long non-coding RNAs have only been studied in detail in human and mouse. The sequencing of the kangaroo ...

    Hongshi Yu, James Lindsay, Zhi-Ping Feng, Stephen Frankenberg, Yanqiu Hu, Dawn Carone, Geoff Shaw, Andrew J Pask, Rachel O’Neill, Anthony T Papenfuss and Marilyn B Renfree

    BMC Genomics 2012 13:251

    Published on: 18 June 2012

  5. Research article

    The mammary gland-specific marsupial ELP and eutherian CTI share a common ancestral gene

    The marsupial early lactation protein (ELP) gene is expressed in the mammary gland and the protein is secreted into milk during early lactation (Phase 2A). Mature ELP shares approximately 55.4% similarity with th...

    Elizabeth A Pharo, Alison A De Leo, Marilyn B Renfree, Peter C Thomson, Christophe M Lefèvre and Kevin R Nicholas

    BMC Evolutionary Biology 2012 12:80

    Published on: 8 June 2012

  6. Research article

    A novel MSMB-related microprotein in the postovulatory egg coats of marsupials

    Early marsupial conceptuses differ markedly from those of eutherian mammals, especially during cleavage and early blastocyst stages of development. Additionally, in marsupials the zona pellucida is surrounded ...

    Stephen Frankenberg, Jane Fenelon, Bonnie Dopheide, Geoff Shaw and Marilyn B Renfree

    BMC Evolutionary Biology 2011 11:373

    Published on: 30 December 2011

  7. Research article

    Desert hedgehogis a mammal-specific gene expressed during testicular and ovarian development in a marsupial

    Desert hedgehog (DHH) belongs to the hedgehog gene family that act as secreted intercellular signal transducers. DHH is an essential morphogen for normal testicular development and function in both mice and human...

    William A O'Hara, Walid J Azar, Richard R Behringer, Marilyn B Renfree and Andrew J Pask

    BMC Developmental Biology 2011 11:72

    Published on: 1 December 2011

  8. Research article

    Differential roles of TGIF family genes in mammalian reproduction

    TG-interacting factors (TGIFs) belong to a family of TALE-homeodomain proteins including TGIF1, TGIF2 and TGIFLX/Y in human. Both TGIF1 and TGIF2 act as transcription factors repressing TGF-β signalling. Human TG...

    Yanqiu Hu, Hongshi Yu, Geoff Shaw, Marilyn B Renfree and Andrew J Pask

    BMC Developmental Biology 2011 11:58

    Published on: 29 September 2011

  9. Research article

    Identification of two distinct genes at the vertebrate TRPC2 locus and their characterisation in a marsupial and a monotreme

    The vomeronasal organ (VNO) detects pheromones via two large families of vomeronasal receptors: vomeronasal receptor 1 (V1R) and vomeronasal receptor 2 (V2R). Both VRs have a common receptor activation cascade...

    Stephen Frankenberg, Nanette Y Schneider, Terrence P Fletcher, Geoffrey Shaw and Marilyn B Renfree

    BMC Molecular Biology 2011 12:39

    Published on: 19 August 2011

  10. Research

    Genome sequence of an Australian kangaroo, Macropus eugenii, provides insight into the evolution of mammalian reproduction and development

    We present the genome sequence of the tammar wallaby, Macropus eugenii, which is a member of the kangaroo family and the first representative of the iconic hopping mammals that symbolize Australia to be sequenced...

    Marilyn B Renfree, Anthony T Papenfuss, Janine E Deakin, James Lindsay, Thomas Heider, Katherine Belov, Willem Rens, Paul D Waters, Elizabeth A Pharo, Geoff Shaw, Emily SW Wong, Christophe M Lefèvre, Kevin R Nicholas, Yoko Kuroki, Matthew J Wakefield, Kyall R Zenger…

    Genome Biology 2011 12:R81

    Published on: 19 August 2011

    The Erratum to this article has been published in Genome Biology 2011 12:414

  11. Research article

    The tammar wallaby major histocompatibility complex shows evidence of past genomic instability

    The major histocompatibility complex (MHC) is a group of genes with a variety of roles in the innate and adaptive immune responses. MHC genes form a genetically linked cluster in eutherian mammals, an organiza...

    Hannah V Siddle, Janine E Deakin, Penny Coggill, Laurens G Wilming, Jennifer Harrow, Jim Kaufman, Stephan Beck and Katherine Belov

    BMC Genomics 2011 12:421

    Published on: 19 August 2011

  12. Research article

    A first-generation integrated tammar wallaby map and its use in creating a tammar wallaby first-generation virtual genome map

    The limited (2X) coverage of the tammar wallaby (Macropus eugenii) genome sequence dataset currently presents a challenge for assembly and anchoring onto chromosomes. To provide a framework for this assembly, it ...

    Chenwei Wang, Janine E Deakin, Willem Rens, Kyall R Zenger, Katherine Belov, Jennifer A Marshall Graves and Frank W Nicholas

    BMC Genomics 2011 12:422

    Published on: 19 August 2011

  13. Research article

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

    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 producti...

    Chenwei Wang, Lee Webley, Ke-jun Wei, Matthew J Wakefield, Hardip R Patel, Janine E Deakin, Amber Alsop, Jennifer A Marshall Graves, Desmond W Cooper, Frank W Nicholas and Kyall R Zenger

    BMC Genetics 2011 12:72

    Published on: 19 August 2011

  14. Research article

    Transcriptomic analysis supports similar functional roles for the two thymuses of the tammar wallaby

    The thymus plays a critical role in the development and maturation of T-cells. Humans have a single thoracic thymus and presence of a second thymus is considered an anomaly. However, many vertebrates have mult...

    Emily SW Wong, Anthony T Papenfuss, Andreas Heger, Arthur L Hsu, Chris P Ponting, Robert D Miller, Jane C Fenelon, Marilyn B Renfree, Richard A Gibbs and Katherine Belov

    BMC Genomics 2011 12:420

    Published on: 19 August 2011

  15. Database

    Immunome database for marsupials and monotremes

    To understand the evolutionary origins of our own immune system, we need to characterise the immune system of our distant relatives, the marsupials and monotremes. The recent sequencing of the genomes of two m...

    Emily SW Wong, Anthony T Papenfuss and Katherine Belov

    BMC Immunology 2011 12:48

    Published on: 19 August 2011

  16. Research article

    ATRX has a critical and conserved role in mammalian sexual differentiation

    X-linked alpha thalassemia, mental retardation syndrome in humans is a rare recessive disorder caused by mutations in the ATRX gene. The disease is characterised by severe mental retardation, mild alpha-thalassem...

    Kim Huyhn, Marilyn B Renfree, Jennifer A Graves and Andrew J Pask

    BMC Developmental Biology 2011 11:39

    Published on: 14 June 2011

  17. Research

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

    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 eugeni...

    Shafagh Al Nadaf, Paul D Waters, Edda Koina, Janine E Deakin, Kristen S Jordan and Jennifer AM Graves

    Genome Biology 2010 11:R122

    Published on: 23 December 2010