The mitochondrial genome sequence of the Tasmanian tiger (Thylacinus cynocephalus)

Webb Miller; Daniela I Drautz; Jan E Janecka; Arthur M Lesk; Aakrosh Ratan; Lynn P Tomsho; Mike Packard; Yeting Zhang; Lindsay R McClellan; Ji Qi; Fangqing Zhao; M Thomas P Gilbert; Love Dalén; Juan Luis Arsuaga; Per G P Ericson; Daniel H Huson; Kristofer M Helgen; William J Murphy; Anders Götherström; Stephan C Schuster

doi:10.1101/gr.082628.108

The mitochondrial genome sequence of the Tasmanian tiger (Thylacinus cynocephalus)

Webb Miller, Daniela I Drautz, Jan E Janecka, Arthur M Lesk, Aakrosh Ratan, Lynn P Tomsho, Mike Packard, Yeting Zhang, Lindsay R McClellan, Ji Qi, Fangqing Zhao, M Thomas P Gilbert, Love Dalén, Juan Luis Arsuaga, Per G P Ericson, Daniel H Huson, Kristofer M Helgen, William J Murphy, Anders Götherström, Stephan C Schuster

Microbiology

90 Citations (Scopus)

Abstract

We report the first two complete mitochondrial genome sequences of the thylacine (Thylacinus cynocephalus), or so-called Tasmanian tiger, extinct since 1936. The thylacine's phylogenetic position within australidelphian marsupials has long been debated, and here we provide strong support for the thylacine's basal position in Dasyuromorphia, aided by mitochondrial genome sequence that we generated from the extant numbat (Myrmecobius fasciatus). Surprisingly, both of our thylacine sequences differ by 11%-15% from putative thylacine mitochondrial genes in GenBank, with one of our samples originating from a direct offspring of the previously sequenced individual. Our data sample each mitochondrial nucleotide an average of 50 times, thereby providing the first high-fidelity reference sequence for thylacine population genetics. Our two sequences differ in only five nucleotides out of 15,452, hinting at a very low genetic diversity shortly before extinction. Despite the samples' heavy contamination with bacterial and human DNA and their temperate storage history, we estimate that as much as one-third of the total DNA in each sample is from the thylacine. The microbial content of the two thylacine samples was subjected to metagenomic analysis, and showed striking differences between a wild-captured individual and a born-in-captivity one. This study therefore adds to the growing evidence that extensive sequencing of museum collections is both feasible and desirable, and can yield complete genomes.

Original language	English
Journal	Genome Research
Volume	19
Issue number	2
Pages (from-to)	213-20
Number of pages	7
ISSN	1088-9051
DOIs	https://doi.org/10.1101/gr.082628.108
Publication status	Published - 2009

Access to Document

10.1101/gr.082628.108

Cite this

Miller, W., Drautz, D. I., Janecka, J. E., Lesk, A. M., Ratan, A., Tomsho, L. P., Packard, M., Zhang, Y., McClellan, L. R., Qi, J., Zhao, F., Gilbert, M. T. P., Dalén, L., Arsuaga, J. L., Ericson, P. G. P., Huson, D. H., Helgen, K. M., Murphy, W. J., Götherström, A., & Schuster, S. C. (2009). The mitochondrial genome sequence of the Tasmanian tiger (Thylacinus cynocephalus). Genome Research, 19(2), 213-20. https://doi.org/10.1101/gr.082628.108

Miller, W, Drautz, DI, Janecka, JE, Lesk, AM, Ratan, A, Tomsho, LP, Packard, M, Zhang, Y, McClellan, LR, Qi, J, Zhao, F, Gilbert, MTP, Dalén, L, Arsuaga, JL, Ericson, PGP, Huson, DH, Helgen, KM, Murphy, WJ, Götherström, A & Schuster, SC 2009, 'The mitochondrial genome sequence of the Tasmanian tiger (Thylacinus cynocephalus)', Genome Research, vol. 19, no. 2, pp. 213-20. https://doi.org/10.1101/gr.082628.108

@article{9b820570f84e11ddb219000ea68e967b,

title = "The mitochondrial genome sequence of the Tasmanian tiger (Thylacinus cynocephalus)",

abstract = "We report the first two complete mitochondrial genome sequences of the thylacine (Thylacinus cynocephalus), or so-called Tasmanian tiger, extinct since 1936. The thylacine's phylogenetic position within australidelphian marsupials has long been debated, and here we provide strong support for the thylacine's basal position in Dasyuromorphia, aided by mitochondrial genome sequence that we generated from the extant numbat (Myrmecobius fasciatus). Surprisingly, both of our thylacine sequences differ by 11%-15% from putative thylacine mitochondrial genes in GenBank, with one of our samples originating from a direct offspring of the previously sequenced individual. Our data sample each mitochondrial nucleotide an average of 50 times, thereby providing the first high-fidelity reference sequence for thylacine population genetics. Our two sequences differ in only five nucleotides out of 15,452, hinting at a very low genetic diversity shortly before extinction. Despite the samples' heavy contamination with bacterial and human DNA and their temperate storage history, we estimate that as much as one-third of the total DNA in each sample is from the thylacine. The microbial content of the two thylacine samples was subjected to metagenomic analysis, and showed striking differences between a wild-captured individual and a born-in-captivity one. This study therefore adds to the growing evidence that extensive sequencing of museum collections is both feasible and desirable, and can yield complete genomes.",

author = "Webb Miller and Drautz, {Daniela I} and Janecka, {Jan E} and Lesk, {Arthur M} and Aakrosh Ratan and Tomsho, {Lynn P} and Mike Packard and Yeting Zhang and McClellan, {Lindsay R} and Ji Qi and Fangqing Zhao and Gilbert, {M Thomas P} and Love Dal{\'e}n and Arsuaga, {Juan Luis} and Ericson, {Per G P} and Huson, {Daniel H} and Helgen, {Kristofer M} and Murphy, {William J} and Anders G{\"o}therstr{\"o}m and Schuster, {Stephan C}",

year = "2009",

doi = "10.1101/gr.082628.108",

language = "English",

volume = "19",

pages = "213--20",

journal = "Genome Research",

issn = "1088-9051",

publisher = "Cold Spring Harbor Laboratory Press",

number = "2",

}

TY - JOUR

T1 - The mitochondrial genome sequence of the Tasmanian tiger (Thylacinus cynocephalus)

AU - Miller, Webb

AU - Drautz, Daniela I

AU - Janecka, Jan E

AU - Lesk, Arthur M

AU - Ratan, Aakrosh

AU - Tomsho, Lynn P

AU - Packard, Mike

AU - Zhang, Yeting

AU - McClellan, Lindsay R

AU - Qi, Ji

AU - Zhao, Fangqing

AU - Gilbert, M Thomas P

AU - Dalén, Love

AU - Arsuaga, Juan Luis

AU - Ericson, Per G P

AU - Huson, Daniel H

AU - Helgen, Kristofer M

AU - Murphy, William J

AU - Götherström, Anders

AU - Schuster, Stephan C

PY - 2009

Y1 - 2009

N2 - We report the first two complete mitochondrial genome sequences of the thylacine (Thylacinus cynocephalus), or so-called Tasmanian tiger, extinct since 1936. The thylacine's phylogenetic position within australidelphian marsupials has long been debated, and here we provide strong support for the thylacine's basal position in Dasyuromorphia, aided by mitochondrial genome sequence that we generated from the extant numbat (Myrmecobius fasciatus). Surprisingly, both of our thylacine sequences differ by 11%-15% from putative thylacine mitochondrial genes in GenBank, with one of our samples originating from a direct offspring of the previously sequenced individual. Our data sample each mitochondrial nucleotide an average of 50 times, thereby providing the first high-fidelity reference sequence for thylacine population genetics. Our two sequences differ in only five nucleotides out of 15,452, hinting at a very low genetic diversity shortly before extinction. Despite the samples' heavy contamination with bacterial and human DNA and their temperate storage history, we estimate that as much as one-third of the total DNA in each sample is from the thylacine. The microbial content of the two thylacine samples was subjected to metagenomic analysis, and showed striking differences between a wild-captured individual and a born-in-captivity one. This study therefore adds to the growing evidence that extensive sequencing of museum collections is both feasible and desirable, and can yield complete genomes.

AB - We report the first two complete mitochondrial genome sequences of the thylacine (Thylacinus cynocephalus), or so-called Tasmanian tiger, extinct since 1936. The thylacine's phylogenetic position within australidelphian marsupials has long been debated, and here we provide strong support for the thylacine's basal position in Dasyuromorphia, aided by mitochondrial genome sequence that we generated from the extant numbat (Myrmecobius fasciatus). Surprisingly, both of our thylacine sequences differ by 11%-15% from putative thylacine mitochondrial genes in GenBank, with one of our samples originating from a direct offspring of the previously sequenced individual. Our data sample each mitochondrial nucleotide an average of 50 times, thereby providing the first high-fidelity reference sequence for thylacine population genetics. Our two sequences differ in only five nucleotides out of 15,452, hinting at a very low genetic diversity shortly before extinction. Despite the samples' heavy contamination with bacterial and human DNA and their temperate storage history, we estimate that as much as one-third of the total DNA in each sample is from the thylacine. The microbial content of the two thylacine samples was subjected to metagenomic analysis, and showed striking differences between a wild-captured individual and a born-in-captivity one. This study therefore adds to the growing evidence that extensive sequencing of museum collections is both feasible and desirable, and can yield complete genomes.

U2 - 10.1101/gr.082628.108

DO - 10.1101/gr.082628.108

M3 - Journal article

C2 - 19139089

SN - 1088-9051

VL - 19

SP - 213

EP - 220

JO - Genome Research

JF - Genome Research

IS - 2

ER -

The mitochondrial genome sequence of the Tasmanian tiger (Thylacinus cynocephalus)

Abstract

Access to Document

Fingerprint

Cite this