Synthesis of phylogeny and taxonomy into a comprehensive tree of life

被引：491

作者：

Hinchliff, Cody E. ^{[1
]}

Smith, Stephen A. ^{[1
]}

Allman, James F. ^{[2
]}

Burleigh, J. Gordon ^{[3
]}

Chaudhary, Ruchi ^{[3
]}

Coghill, Lyndon M. ^{[4
]}

Crandall, Keith A. ^{[5
]}

Deng, Jiabin ^{[3
]}

Drew, Bryan T. ^{[6
]}

Gazis, Romina ^{[7
]}

Gude, Karl ^{[8
]}

Hibbett, David S. ^{[7
]}

Katz, Laura A. ^{[9
]}

Laughinghouse, H. Dail ^{[9
]}

McTavish, Emily Jane ^{[10
]}

Midford, Peter E. ^{[4
]}

Owen, Christopher L. ^{[3
]}

Ree, Richard H. ^{[4
]}

Rees, Jonathan A. ^{[11
]}

Soltis, Douglas E. ^{[3
,12
]}

Williams, Tiffani ^{[13
]}

Cranston, Karen A. ^{[11
]}

机构：

[1] Univ Michigan, Ecol & Evolutionary Biol, Ann Arbor, MI 48109 USA

[2] Interrobang Corp, Wake Forest, NC 27587 USA

[3] Univ Florida, Dept Biol, Gainesville, FL 32611 USA

[4] Field Museum Nat Hist, Chicago, IL 60605 USA

[5] George Washington Univ, Computat Biol Inst, Ashburn, VA 20147 USA

[6] Univ Nebraska, Dept Biol, Kearney, NE 68849 USA

[7] Clark Univ, Dept Biol, Worcester, MA 01610 USA

[8] Michigan State Univ, Sch Journalism, E Lansing, MI 48824 USA

[9] Smith Coll, Clark Sci Ctr, Biol Sci, Northampton, MA 01063 USA

[10] Univ Kansas, Dept Ecol & Evolut Biol, Lawrence, KS 66045 USA

[11] Duke Univ, Natl Evolutionary Synth Ctr, Durham, NC 27705 USA

[12] Univ Florida, Florida Museum Nat Hist, Gainesville, FL 32611 USA

[13] Texas A&M Univ, Comp Sci & Engn, College Stn, TX 77843 USA

来源：

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA | 2015年 / 112卷 / 41期

基金：

美国国家科学基金会;

关键词：

phylogeny; taxonomy; tree of life; biodiversity; synthesis; EUKARYOTIC TREE; RETICULATE EVOLUTION; DIVERSIFICATION; CLASSIFICATION; REPRESENTATION; ACCURACY; SIGNAL; SILVA;

D O I：

10.1073/pnas.1423041112

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：

Reconstructing the phylogenetic relationships that unite all lineages (the tree of life) is a grand challenge. The paucity of homologous character data across disparately related lineages currently renders direct phylogenetic inference untenable. To reconstruct a comprehensive tree of life, we therefore synthesized published phylogenies, together with taxonomic classifications for taxa never incorporated into a phylogeny. We present a draft tree containing 2.3 million tips-the Open Tree of Life. Realization of this tree required the assembly of two additional community resources: (i) a comprehensive global reference taxonomy and (ii) a database of published phylogenetic trees mapped to this taxonomy. Our open source framework facilitates community comment and contribution, enabling the tree to be continuously updated when new phylogenetic and taxonomic data become digitally available. Although data coverage and phylogenetic conflict across the Open Tree of Life illuminate gaps in both the underlying data available for phylogenetic reconstruction and the publication of trees as digital objects, the tree provides a compelling starting point for community contribution. This comprehensive tree will fuel fundamental research on the nature of biological diversity, ultimately providing up-to-date phylogenies for downstream applications in comparative biology, ecology, conservation biology, climate change, agriculture, and genomics.

引用

页码：12764 / 12769

页数：6

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