Genetic diversity and population structure of the endangered marsupial Sarcophilus harrisii (Tasmanian devil)

被引：156

作者：

Miller, Webb ^{[3
]}

Hayes, Vanessa M. ^{[1
,2
,4
]}

Ratan, Aakrosh ^{[3
]}

Petersen, Desiree C. ^{[1
,2
,4
]}

Wittekindt, Nicola E. ^{[3
]}

Miller, Jason ^{[4
]}

Walenz, Brian ^{[4
]}

Knight, James ^{[5
]}

Qi, Ji ^{[3
]}

Zhao, Fangqing ^{[3
]}

Wang, Qingyu ^{[3
]}

Bedoya-Reina, Oscar C. ^{[3
]}

Katiyar, Neerja ^{[3
]}

Tomsho, Lynn P. ^{[3
]}

Kasson, Lindsay McClellan ^{[3
]}

Hardie, Rae-Anne ^{[1
,2
]}

Woodbridge, Paula ^{[1
,2
]}

Tindall, Elizabeth A. ^{[1
,2
]}

Bertelsen, Mads Frost ^{[6
]}

Dixon, Dale ^{[7
]}

Pyecroft, Stephen ^{[8
]}

Helgen, Kristofer M. ^{[9
]}

Lesk, Arthur M. ^{[3
]}

Pringle, Thomas H. ^{[10
]}

Patterson, Nick ^{[11
]}

Zhang, Yu ^{[3
]}

Kreiss, Alexandre ^{[13
]}

Woods, Gregory M. ^{[12
,13
]}

Jones, Menna E. ^{[13
]}

Schuster, Stephan C. ^{[3
]}

机构：

[1] Childrens Canc Inst Australia, Randwick, NSW 2031, Australia

[2] Univ New S Wales, Lowy Canc Res Ctr, Randwick, NSW 2031, Australia

[3] Penn State Univ, Ctr Comparat Genom & Bioinformat, University Pk, PA 16802 USA

[4] J Craig Venter Inst, Rockville, MD 20850 USA

[5] 454 Life Sci, Branford, CT 06405 USA

[6] Copenhagen Zoo, Ctr Zoo & Wild Anim Hlth, DK-2000 Frederiksberg, Denmark

[7] Museum & Art Gallery No Terr, Darwin, NT 0801, Australia

[8] Mt Pleasant Anim Hlth Labs, Dept Primary Ind & Water, Kings Meadows, Tas 7249, Australia

[9] Smithsonian Inst, Natl Museum Nat Hist, Washington, DC 20013 USA

[10] Sperling Fdn, Eugene, OR 97405 USA

[11] Broad Inst Massachusetts Inst Technol & Harvard U, Cambridge Ctr, Cambridge, MA 02142 USA

[12] Menzies Res Inst, Hobart, Tas 7000, Australia

[13] Univ Tasmania, Hobart, Tas 7001, Australia

来源：

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA | 2011年 / 108卷 / 30期

基金：

美国国家卫生研究院;

关键词：

wildlife conservation; ancient DNA; population genetics; semiconductor sequencing; selective breeding; FACIAL-TUMOR DISEASE; GENOME SEQUENCE; CANCER; TRANSMISSION;

D O I：

10.1073/pnas.1102838108

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

The Tasmanian devil (Sarcophilus harrisii) is threatened with extinction because of a contagious cancer known as Devil Facial Tumor Disease. The inability to mount an immune response and to reject these tumors might be caused by a lack of genetic diversity within a dwindling population. Here we report a whole-genome analysis of two animals originating from extreme northwest and southeast Tasmania, the maximal geographic spread, together with the genome from a tumor taken from one of them. A 3.3-Gb de novo assembly of the sequence data from two complementary next-generation sequencing platforms was used to identify 1 million polymorphic genomic positions, roughly one-quarter of the number observed between two genetically distant human genomes. Analysis of 14 complete mitochondrial genomes from current and museum specimens, as well as mitochondrial and nuclear SNP markers in 175 animals, suggests that the observed low genetic diversity in today's population preceded the Devil Facial Tumor Disease disease outbreak by at least 100 y. Using a genetically characterized breeding stock based on the genome sequence will enable preservation of the extant genetic diversity in future Tasmanian devil populations.

引用

页码：12348 / 12353

页数：6

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