Genomic restructuring in the tasmanian devil facial tumour: Chromosome painting and gene mapping provide clues to evolution of a transmissible tumour

PLoS Genetics

Volumn 8, Issue 2, 2012, Pages

  Deakin, Janine E ^a   Bender, Hannah S ^a   Pearse, Anne Maree ^b   Rens, Willem ^c   O'Brien, Patricia C M ^c   Ferguson Smith, Malcolm A ^c   Cheng, Yuanyuan ^d   Morris, Katrina ^d   Taylor, Robyn ^b   Stuart, Andrew ^e   Belov, Katherine ^d   Amemiya, Chris T ^e   Murchison, Elizabeth P ^f   Papenfuss, Anthony T ^g,h   Graves, Jennifer A Marshall ^a  

^a AUSTRALIAN NATIONAL UNIVERSITY   (Australia)

^b Parks Water and Environment Prospect ^*  (Australia)

^c UNIVERSITY OF CAMBRIDGE   (United Kingdom)

^d UNIVERSITY OF SYDNEY   (Australia)

^e BENAROYA RESEARCH INSTITUTE   (United States)

^f WELLCOME TRUST SANGER INSTITUTE   (United Kingdom)

^g WALTER AND ELIZA HALL INSTITUTE OF MEDICAL RESEARCH   (Australia)

^h UNIVERSITY OF MELBOURNE   (Australia)

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL CELL; ARTICLE; BACTERIAL ARTIFICIAL CHROMOSOME; CARCINOGENESIS; CHROMOSOME 1; CHROMOSOME PAINTING; CHROMOSOME REARRANGEMENT; DEVIL FACIAL TUMOR DISEASE; DISEASE COURSE; FACE TUMOR; FLUORESCENCE IN SITU HYBRIDIZATION; GENE MAPPING; GENE REARRANGEMENT; GENE STRUCTURE; KARYOTYPE; MARSUPIAL; MOLECULAR CLONING; NONHUMAN; SARCOPHILUS HARRISII; STRAIN DIFFERENCE; X CHROMOSOME;

ANIMAL DISEASES; ANIMALS; CHROMOSOME MAPPING; CHROMOSOME PAINTING; CLONE CELLS; FACIAL NEOPLASMS; GENE REARRANGEMENT; GENOME; KARYOTYPING; MARSUPIALIA; NEOPLASM TRANSPLANTATION; SPECIES SPECIFICITY;

METATHERIA; SARCOPHILUS HARRISII;

EID: 84859201448     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.1002483     Document Type: Article

References (45)

1. Hawkins CE, Baars C, Hesterman H, Hocking GJ, Jones ME, et al. (2006) Emerging disease and population decline of an island endemic, the Tasmanian devil Sarcophilus harrisii. Biological Conservation 131: 307-324.
2. Lachish S, Jones M, McCallum H, (2007) The impact of disease on the survival and population growth rate of the Tasmanian devil. Journal of Animal Ecology 76: 926-936.
3. Jones ME, Cockburn A, Hamede R, Hawkins C, Hesterman H, et al. (2008) Life-history change in disease-ravaged Tasmanian devil populations. Proceedings of the National Academy of Sciences of the United States of America 105: 10023-10027.
4. McCallum H, Tompkins DM, Jones M, Lachish S, Marvanek S, et al. (2007) Distribution and impacts of Tasmanian devil facial tumor disease. Ecohealth 4: 318-325.
5. Pyecroft SB, Pearse AM, Loh R, Swift K, Belov K, et al. (2007) Towards a case definition for devil facial tumour disease: What is it? Ecohealth 4: 346-351.
6. Jones M, McCallum H, (2007) Managing an emerging disease in a threatened species: Tasmanian devil facial tumour disease. Australian & New Zealand Journal of Obstetrics & Gynaecology 47: A16-A16.
7. Murchison EP, Tovar C, Hsu A, Bender HS, Kheradpour P, et al. (2010) The Tasmanian Devil Transcriptome Reveals Schwann Cell Origins of a Clonally Transmissible Cancer. Science 327: 84-87.
8. Pearse AM, Swift K, (2006) Allograft theory: Transmission of devil facial-tumour disease. Nature 439: 549-549.
9. Siddle HV, Kreiss A, Eldridge MD, Noonan E, Clarke CJ, et al. (2007) Transmission of a fatal clonal tumor by biting occurs due to depleted MHC diversity in a threatened carnivorous marsupial. Proc Natl Acad Sci U S A 104: 16221-16226.
10. Das U, Das AK, (2000) Review of canine transmissible venereal sarcoma. Vet Res Commun 24: 545-556.
11. Hayman DL, Martin PG, (1974) Mammalia I: Monotremata and Marsupialia. In: John B, editors. Animal Cytogenetics Berlin and Stuttgart Gebriider Borntraeger.
12. Rofe R, Hayman D, (1985) G-banding evidence for a conserved complement in the Marsupialia. Cytogenet Cell Genet 39: 40-50.
13. Young GJ, Graves JAM, Barbieri I, Woolley PA, Cooper DW, et al. (1982) The chromosomes of dasyurids (Marsupialia). In: Archer M, editors. Carnivorous Marsupials Sydney Royal Zoological Society of New South Wales pp. 783-795.
14. De Leo AA, Guedelha N, Toder R, Voullaire L, Ferguson-Smith MA, et al. (1999) Comparative chromosome painting between marsupial orders: relationships with a 2n = 14 ancestral marsupial karyotype. Chromosome Res 7: 509-517.
15. Rens W, O'Brien PC, Fairclough H, Harman L, Graves JA, et al. (2003) Reversal and convergence in marsupial chromosome evolution. Cytogenetic and Genome Research 102: 282-290.
16. Mikkelsen TS, Wakefield MJ, Aken B, Amemiya CT, Chang JL, et al. (2007) Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences. Nature 447: 167-177.
17. Renfree MB, Papenfuss AT, Deakin JE, Lindsay J, Heider T, et al. (2011) Genome sequence of an Australian kangaroo, Macropus eugenii, provides insight into the evolution of mammalian reproduction and development. Genome Biol 12: R81.
18. Rens W, O'Brien PC, Yang F, Graves JA, Ferguson-Smith MA, (1999) Karyotype relationships between four distantly related marsupials revealed by reciprocal chromosome painting. Chromosome Res 7: 461-474.
19. CRES (2006) Sarcophilus harrisii (Tasmanian Devil). Brien S J, Menninger JC, Nash WG, eds. Atlas of Mammalian Chromosomes New York Wiley.
20. Martin PG, Hayman DL, (1967) Quantitative comparisons between karyotypes of Australian marsupials from 3 different superfamilies. Chromosoma 20: 290-&.
21. Morozova O, Marra MA, (2008) From cytogenetics to next-generation sequencing technologies: advances in the detection of genome rearrangements in tumors. Biochem Cell Biol 86: 81-91.
22. Campbell PJ, Stephens PJ, Pleasance ED, O'Meara S, Li H, et al. (2008) Identification of somatically acquired rearrangements in cancer using genome-wide massively parallel paired-end sequencing. Nat Genet 40: 722-729.
23. Asthagiri AR, Parry DM, Butman JA, Kim HJ, Tsilou ET, et al. (2009) Neurofibromatosis type 2. Lancet 373: 1974-1986.
24. McClatchey AI, Saotome I, Mercer K, Crowley D, Gusella JF, et al. (1998) Mice heterozygous for a mutation at the Nf2 tumor suppressor locus develop a range of highly metastatic tumors. Genes Dev 12: 1121-1133.
25. Nowell PC, (1976) The clonal evolution of tumor cell populations. Science 194: 23-28.
26. Lengauer C, Kinzler KW, Vogelstein B, (1997) DNA methylation and genetic instability in colorectal cancer cells. Proc Natl Acad Sci U S A 94: 2545-2550.
27. Jones S, Chen WD, Parmigiani G, Diehl F, Beerenwinkel N, et al. (2008) Comparative lesion sequencing provides insights into tumor evolution. Proc Natl Acad Sci U S A 105: 4283-4288.
28. Shackleton M, Quintana E, Fearon ER, Morrison SJ, (2009) Heterogeneity in cancer: cancer stem cells versus clonal evolution. Cell 138: 822-829.
29. McCallum H, (2008) Tasmanian devil facial tumour disease: lessons for conservation biology. Trends Ecol Evol 23: 631-637.
30. Loh R, Bergfeld J, Hayes D, O'Hara A, Pyecroft S, et al. (2006) The pathology of devil facial tumor disease (DFTD) in Tasmanian Devils (Sarcophilus harrisii). Vet Pathol 43: 890-895.
31. Stephens PJ, Greenman CD, Fu B, Yang F, Bignell GR, et al. (2011) Massive genomic rearrangement acquired in a single catastrophic event during cancer development. Cell 144: 27-40.
32. der-Sarkissian H, Bacchetti S, Cazes L, Londono-Vallejo JA, (2004) The shortest telomeres drive karyotype evolution in transformed cells. Oncogene 23: 1221-1228.
33. McGlashan ND, Obendorf DL, (2008) Research priorities in the Tasmanian devil facial tumour debate. European Journal of Oncology 13: 229-238.
34. Murphy WJ, Larkin DM, Everts-van der Wind A, Bourque G, Tesler G, et al. (2005) Dynamics of mammalian chromosome evolution inferred from multispecies comparative maps. Science 309: 613-617.
35. Kemkemer C, Kohn M, Cooper DN, Froenicke L, Hogel J, et al. (2009) Gene synteny comparisons between different vertebrates provide new insights into breakage and fusion events during mammalian karyotype evolution. BMC Evol Biol 9: 84.
36. Lachish S, McCallum H, Mann D, Pukk CE, Jones ME, (2010) Evaluation of selective culling of infected individuals to control Tasmanian Devil Facial Tumor Disease. Conservation Biology 24: 841-851.
37. Ferguson-Smith MA, (1997) Genetic analysis by chromosome sorting and painting: phylogenetic and diagnostic applications. Eur J Hum Genet 5: 253-265.
38. Sankovic N, Delbridge ML, Grützner F, Ferguson-Smith MA, O'Brien PC, et al. (2006) Construction of a highly enriched marsupial Y chromosome-specific BAC sub-library using isolated Y chromosomes. Chromosome Res 14: 657-664.
39. Telenius H, Carter NP, Bebb CE, Nordenskjold M, Ponder BA, et al. (1992) Degenerate oligonucleotide-primed PCR: general amplification of target DNA by a single degenerate primer. Genomics 13: 718-725.
40. Alsop AE, Miethke P, Rofe R, Koina E, Sankovic N, et al. (2005) Characterizing the chromosomes of the Australian model marsupial Macropus eugenii (tammar wallaby). Chromosome Res 13: 627-636.
41. Osoegawa K, Woon PY, Zhao B, Frengen E, Tateno M, et al. (1998) An improved approach for construction of bacterial artificial chromosome libraries. Genomics 52: 1-8.
42. Amemiya CT, Ota T, Litman GW, (1996) Construction of P1 artificial chromosome (PAC) libraries from lower vertebrates. In: Birren B, Lai E, editors. Nonmammalian Genomic Analyses: A Practical Guide San Diego: Academic Press pp. 223-256.
43. Deakin JE, Koina E, Waters PD, Doherty R, Patel VS, et al. (2008) Physical map of two tammar wallaby chromosomes: a strategy for mapping in non-model mammals. Chromosome Res 16: 1159-1175.
44. Mohammadi A, Delbridge ML, Waters PD, Graves JA, (2009) Conservation of a chromosome arm in two distantly related marsupial species. Cytogenetic and Genome Research 124: 147-150.
45. Ross MT, LaBrie S, McPherson J, Stanton VPJ, (1999) Screening large-insert libraries by hybridization. In: Boyl A, editors. Current protocols in human genetics New York Wiley pp. 5.6.1-5.6.52.