Genomic sequencing of Pleistocene cave bears

被引：157

作者：

Noonan, JP

Hofreiter, M

Smith, D

Priest, JR

Rohland, N

Rabeder, G

Krause, J

Detter, JC

Pääbo, S

Rubin, EM ^{[1
]}

机构：

[1] US Dept Energy Joint Genome Inst, Walnut Creek, CA 94598 USA

[2] Univ Calif Berkeley, Lawrence Berkeley Lab, Genom Div, Berkeley, CA 94720 USA

[3] Max Planck Inst Evolutionary Anthropol, D-04103 Leipzig, Germany

[4] Univ Vienna, Inst Paleontol, A-1010 Vienna, Austria

[5] Lawrence Livermore Natl Lab, Biosci Directorate, Livermore, CA 94550 USA

来源：

SCIENCE | 2005年 / 309卷 / 5734期

关键词：

D O I：

10.1126/science.1113485

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：

Despite the greater information content of genomic DNA, ancient DNA studies have largely been limited to the amplification of mitochondrial sequences. Here we describe metagenomic libraries constructed with unamplified DNA extracted from skeletal remains of two 40,000-year-old extinct cave bears. Analysis of similar to 1 megabase of sequence from each library showed that despite significant microbial contamination, 5.8 and 1.1% of clones contained cave bear inserts, yielding 26,861 base pairs of cave bear genome sequence. Comparison of cave bear and modern bear sequences revealed the evolutionary relationship of these lineages. The metagenomic approach used here establishes the feasibility of ancient DNA genome sequencing programs.

引用

收藏

页码：597 / 600

页数：4

相关论文

共 18 条

[1] Gapped BLAST and PSI-BLAST: a new generation of protein database search programs [J].

Altschul, SF ;

Madden, TL ;

Schaffer, AA ;

Zhang, JH ;

Zhang, Z ;

Miller, W ;

Lipman, DJ .

NUCLEIC ACIDS RESEARCH, 1997, 25 (17) :3389-3402

[2] Characterization of evolutionary rates and constraints in three mammalian genomes [J].

Cooper, GM ;

Brudno, M ;

Stone, EA ;

Dubchak, I ;

Batzoglou, S ;

Sidow, A .

GENOME RESEARCH, 2004, 14 (04) :539-548

[3] EVOLUTION OF MAIZE INFERRED FROM SEQUENCE DIVERSITY OF AN ADH2 GENE SEGMENT FROM ARCHAEOLOGICAL SPECIMENS [J].

GOLOUBINOFF, P ;

PAABO, S ;

WILSON, AC .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1993, 90 (05) :1997-2001

[4] Nuclear DNA sequences from late Pleistocene megafauna [J].

Greenwood, AD ;

Capelli, C ;

Possnert, G ;

Pääbo, S .

MOLECULAR BIOLOGY AND EVOLUTION, 1999, 16 (11) :1466-1473

[5] TRACKING THE ORIGINS OF THE CAVE BEAR (URSUS-SPELAEUS) BY MITOCHONDRIAL-DNA SEQUENCING [J].

HANNI, C ;

LAUDET, V ;

STEHELIN, D ;

TABERLET, P .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1994, 91 (25) :12336-12340

[6] Lack of phylogeography in European mammals before the last glaciation [J].

Hofreiter, M ;

Serre, D ;

Rohland, N ;

Rabeder, G ;

Nagel, D ;

Conard, N ;

Münzel, S ;

Pääbo, S .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2004, 101 (35) :12963-12968

[7] Ancient DNA analyses reveal high mitochondrial DNA sequence diversity and parallel morphological evolution of late pleistocene cave bears [J].

Hofreiter, M ;

Capelli, C ;

Krings, M ;

Waits, L ;

Conard, N ;

Münzel, S ;

Rabeder, G ;

Nagel, D ;

Paunovic, M ;

Jambresic, G ;

Meyer, S ;

Weiss, G ;

Päabo, S .

MOLECULAR BIOLOGY AND EVOLUTION, 2002, 19 (08) :1244-1250

[8] Ancient DNA [J].

Hofreiter, M ;

Serre, D ;

Poinar, HN ;

Kuch, M ;

Pääbo, S .

NATURE REVIEWS GENETICS, 2001, 2 (05) :353-359

[9] DNA sequences from multiple amplifications reveal artifacts induced by cytosine deamination in ancient DNA [J].

Hofreiter, M ;

Jaenicke, V ;

Serre, D ;

von Haeseler, A ;

Pääbo, S .

NUCLEIC ACIDS RESEARCH, 2001, 29 (23) :4793-4799

[10] Early allelic selection in maize as revealed by ancient DNA [J].

Jaenicke-Després, V ;

Buckler, ES ;

Smith, BD ;

Gilbert, MTP ;

Cooper, A ;

Doebley, J ;

Pääbo, S .

SCIENCE, 2003, 302 (5648) :1206-1208