Genome sequencing and analysis of the Tasmanian devil and its transmissible cancer

Elizabeth P. Murchison; Ole B. Schulz-Trieglaff; Zemin Ning; Ludmil B. Alexandrov; Markus J. Bauer; Beiyuan Fu; Matthew Hims; Zhihao Ding; Sergii Ivakhno; Caitlin Stewart; Bee Ling Ng; Wendy Wong; Bronwen Aken; Simon White; Amber Alsop; Jennifer Becq; Graham R. Bignell; R. Keira Cheetham; William Cheng; Thomas R. Connor; Anthony J. Cox; Zhi Ping Feng; Yong Gu; Russell J. Grocock; Simon R. Harris; Irina Khrebtukova; Zoya Kingsbury; Mark Kowarsky; Alexandre Kreiss; Shujun Luo; John Marshall; David J. McBride; Lisa Murray; Anne Maree Pearse; Keiran Raine; Isabelle Rasolonjatovo; Richard Shaw; Philip Tedder; Carolyn Tregidgo; Albert J. Vilella; David C. Wedge; Gregory M. Woods; Niall Gormley; Sean Humphray; Gary Schroth; Geoffrey Smith; Kevin Hall; Stephen M.J. Searle; Nigel P. Carter; Anthony T. Papenfuss; P. Andrew Futreal; Peter J. Campbell; Fengtang Yang; David R. Bentley; Dirk J. Evers; Michael R. Stratton

doi:10.1016/j.cell.2011.11.065

Genome sequencing and analysis of the Tasmanian devil and its transmissible cancer

Elizabeth P. Murchison^*, Ole B. Schulz-Trieglaff, Zemin Ning, Ludmil B. Alexandrov, Markus J. Bauer, Beiyuan Fu, Matthew Hims, Zhihao Ding, Sergii Ivakhno, Caitlin Stewart, Bee Ling Ng, Wendy Wong, Bronwen Aken, Simon White, Amber Alsop, Jennifer Becq, Graham R. Bignell, R. Keira Cheetham, William Cheng, Thomas R. ConnorAnthony J. Cox, Zhi Ping Feng, Yong Gu, Russell J. Grocock, Simon R. Harris, Irina Khrebtukova, Zoya Kingsbury, Mark Kowarsky, Alexandre Kreiss, Shujun Luo, John Marshall, David J. McBride, Lisa Murray, Anne Maree Pearse, Keiran Raine, Isabelle Rasolonjatovo, Richard Shaw, Philip Tedder, Carolyn Tregidgo, Albert J. Vilella, David C. Wedge, Gregory M. Woods, Niall Gormley, Sean Humphray, Gary Schroth, Geoffrey Smith, Kevin Hall, Stephen M.J. Searle, Nigel P. Carter, Anthony T. Papenfuss, P. Andrew Futreal, Peter J. Campbell, Fengtang Yang, David R. Bentley, Dirk J. Evers, Michael R. Stratton

^*Corresponding author for this work

Research output: Contribution to journal › Article › peer-review

259 Citations (Scopus)

Abstract

The Tasmanian devil (Sarcophilus harrisii), the largest marsupial carnivore, is endangered due to a transmissible facial cancer spread by direct transfer of living cancer cells through biting. Here we describe the sequencing, assembly, and annotation of the Tasmanian devil genome and whole-genome sequences for two geographically distant subclones of the cancer. Genomic analysis suggests that the cancer first arose from a female Tasmanian devil and that the clone has subsequently genetically diverged during its spread across Tasmania. The devil cancer genome contains more than 17,000 somatic base substitution mutations and bears the imprint of a distinct mutational process. Genotyping of somatic mutations in 104 geographically and temporally distributed Tasmanian devil tumors reveals the pattern of evolution and spread of this parasitic clonal lineage, with evidence of a selective sweep in one geographical area and persistence of parallel lineages in other populations.

Original language	English
Pages (from-to)	780-791
Number of pages	12
Journal	Cell
Volume	148
Issue number	4
DOIs	https://doi.org/10.1016/j.cell.2011.11.065
Publication status	Published - 17 Feb 2012

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Murchison, E. P., Schulz-Trieglaff, O. B., Ning, Z., Alexandrov, L. B., Bauer, M. J., Fu, B., Hims, M., Ding, Z., Ivakhno, S., Stewart, C., Ng, B. L., Wong, W., Aken, B., White, S., Alsop, A., Becq, J., Bignell, G. R., Cheetham, R. K., Cheng, W., ... Stratton, M. R. (2012). Genome sequencing and analysis of the Tasmanian devil and its transmissible cancer. Cell, 148(4), 780-791. https://doi.org/10.1016/j.cell.2011.11.065

@article{6e0c65d8694f43ba994b228335824de4,

title = "Genome sequencing and analysis of the Tasmanian devil and its transmissible cancer",

abstract = "The Tasmanian devil (Sarcophilus harrisii), the largest marsupial carnivore, is endangered due to a transmissible facial cancer spread by direct transfer of living cancer cells through biting. Here we describe the sequencing, assembly, and annotation of the Tasmanian devil genome and whole-genome sequences for two geographically distant subclones of the cancer. Genomic analysis suggests that the cancer first arose from a female Tasmanian devil and that the clone has subsequently genetically diverged during its spread across Tasmania. The devil cancer genome contains more than 17,000 somatic base substitution mutations and bears the imprint of a distinct mutational process. Genotyping of somatic mutations in 104 geographically and temporally distributed Tasmanian devil tumors reveals the pattern of evolution and spread of this parasitic clonal lineage, with evidence of a selective sweep in one geographical area and persistence of parallel lineages in other populations.",

author = "Murchison, {Elizabeth P.} and Schulz-Trieglaff, {Ole B.} and Zemin Ning and Alexandrov, {Ludmil B.} and Bauer, {Markus J.} and Beiyuan Fu and Matthew Hims and Zhihao Ding and Sergii Ivakhno and Caitlin Stewart and Ng, {Bee Ling} and Wendy Wong and Bronwen Aken and Simon White and Amber Alsop and Jennifer Becq and Bignell, {Graham R.} and Cheetham, {R. Keira} and William Cheng and Connor, {Thomas R.} and Cox, {Anthony J.} and Feng, {Zhi Ping} and Yong Gu and Grocock, {Russell J.} and Harris, {Simon R.} and Irina Khrebtukova and Zoya Kingsbury and Mark Kowarsky and Alexandre Kreiss and Shujun Luo and John Marshall and McBride, {David J.} and Lisa Murray and Pearse, {Anne Maree} and Keiran Raine and Isabelle Rasolonjatovo and Richard Shaw and Philip Tedder and Carolyn Tregidgo and Vilella, {Albert J.} and Wedge, {David C.} and Woods, {Gregory M.} and Niall Gormley and Sean Humphray and Gary Schroth and Geoffrey Smith and Kevin Hall and Searle, {Stephen M.J.} and Carter, {Nigel P.} and Papenfuss, {Anthony T.} and Futreal, {P. Andrew} and Campbell, {Peter J.} and Fengtang Yang and Bentley, {David R.} and Evers, {Dirk J.} and Stratton, {Michael R.}",

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doi = "10.1016/j.cell.2011.11.065",

language = "English",

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pages = "780--791",

journal = "Cell",

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Murchison, EP, Schulz-Trieglaff, OB, Ning, Z, Alexandrov, LB, Bauer, MJ, Fu, B, Hims, M, Ding, Z, Ivakhno, S, Stewart, C, Ng, BL, Wong, W, Aken, B, White, S, Alsop, A, Becq, J, Bignell, GR, Cheetham, RK, Cheng, W, Connor, TR, Cox, AJ, Feng, ZP, Gu, Y, Grocock, RJ, Harris, SR, Khrebtukova, I, Kingsbury, Z, Kowarsky, M, Kreiss, A, Luo, S, Marshall, J, McBride, DJ, Murray, L, Pearse, AM, Raine, K, Rasolonjatovo, I, Shaw, R, Tedder, P, Tregidgo, C, Vilella, AJ, Wedge, DC, Woods, GM, Gormley, N, Humphray, S, Schroth, G, Smith, G, Hall, K, Searle, SMJ, Carter, NP, Papenfuss, AT, Futreal, PA, Campbell, PJ, Yang, F, Bentley, DR, Evers, DJ & Stratton, MR 2012, 'Genome sequencing and analysis of the Tasmanian devil and its transmissible cancer', Cell, vol. 148, no. 4, pp. 780-791. https://doi.org/10.1016/j.cell.2011.11.065

TY - JOUR

T1 - Genome sequencing and analysis of the Tasmanian devil and its transmissible cancer

AU - Murchison, Elizabeth P.

AU - Schulz-Trieglaff, Ole B.

AU - Ning, Zemin

AU - Alexandrov, Ludmil B.

AU - Bauer, Markus J.

AU - Fu, Beiyuan

AU - Hims, Matthew

AU - Ding, Zhihao

AU - Ivakhno, Sergii

AU - Stewart, Caitlin

AU - Ng, Bee Ling

AU - Wong, Wendy

AU - Aken, Bronwen

AU - White, Simon

AU - Alsop, Amber

AU - Becq, Jennifer

AU - Bignell, Graham R.

AU - Cheetham, R. Keira

AU - Cheng, William

AU - Connor, Thomas R.

AU - Cox, Anthony J.

AU - Feng, Zhi Ping

AU - Gu, Yong

AU - Grocock, Russell J.

AU - Harris, Simon R.

AU - Khrebtukova, Irina

AU - Kingsbury, Zoya

AU - Kowarsky, Mark

AU - Kreiss, Alexandre

AU - Luo, Shujun

AU - Marshall, John

AU - McBride, David J.

AU - Murray, Lisa

AU - Pearse, Anne Maree

AU - Raine, Keiran

AU - Rasolonjatovo, Isabelle

AU - Shaw, Richard

AU - Tedder, Philip

AU - Tregidgo, Carolyn

AU - Vilella, Albert J.

AU - Wedge, David C.

AU - Woods, Gregory M.

AU - Gormley, Niall

AU - Humphray, Sean

AU - Schroth, Gary

AU - Smith, Geoffrey

AU - Hall, Kevin

AU - Searle, Stephen M.J.

AU - Carter, Nigel P.

AU - Papenfuss, Anthony T.

AU - Futreal, P. Andrew

AU - Campbell, Peter J.

AU - Yang, Fengtang

AU - Bentley, David R.

AU - Evers, Dirk J.

AU - Stratton, Michael R.

PY - 2012/2/17

Y1 - 2012/2/17

N2 - The Tasmanian devil (Sarcophilus harrisii), the largest marsupial carnivore, is endangered due to a transmissible facial cancer spread by direct transfer of living cancer cells through biting. Here we describe the sequencing, assembly, and annotation of the Tasmanian devil genome and whole-genome sequences for two geographically distant subclones of the cancer. Genomic analysis suggests that the cancer first arose from a female Tasmanian devil and that the clone has subsequently genetically diverged during its spread across Tasmania. The devil cancer genome contains more than 17,000 somatic base substitution mutations and bears the imprint of a distinct mutational process. Genotyping of somatic mutations in 104 geographically and temporally distributed Tasmanian devil tumors reveals the pattern of evolution and spread of this parasitic clonal lineage, with evidence of a selective sweep in one geographical area and persistence of parallel lineages in other populations.

AB - The Tasmanian devil (Sarcophilus harrisii), the largest marsupial carnivore, is endangered due to a transmissible facial cancer spread by direct transfer of living cancer cells through biting. Here we describe the sequencing, assembly, and annotation of the Tasmanian devil genome and whole-genome sequences for two geographically distant subclones of the cancer. Genomic analysis suggests that the cancer first arose from a female Tasmanian devil and that the clone has subsequently genetically diverged during its spread across Tasmania. The devil cancer genome contains more than 17,000 somatic base substitution mutations and bears the imprint of a distinct mutational process. Genotyping of somatic mutations in 104 geographically and temporally distributed Tasmanian devil tumors reveals the pattern of evolution and spread of this parasitic clonal lineage, with evidence of a selective sweep in one geographical area and persistence of parallel lineages in other populations.

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U2 - 10.1016/j.cell.2011.11.065

DO - 10.1016/j.cell.2011.11.065

M3 - Article

SN - 0092-8674

VL - 148

SP - 780

EP - 791

JO - Cell

JF - Cell

IS - 4

ER -

Genome sequencing and analysis of the Tasmanian devil and its transmissible cancer

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