Inferring the Tree of Life: Chopping a phylogenomic problem down to size?

BMC Biology

Volumn 9, Issue , 2011, Pages

  Bininda Emonds, Olaf R P ^a  

^a UNIVERSITY OF OLDENBURG   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL; BIOLOGY; CLASSIFICATION; GENETIC DATABASE; HYMENOPTERA; METHODOLOGY; NOTE; PHYLOGENY;

ANIMALS; COMPUTATIONAL BIOLOGY; DATABASES, GENETIC; HYMENOPTERA; PHYLOGENY;

EID: 80053107842     PISSN: None     EISSN: 17417007     Source Type: Journal    
DOI: 10.1186/1741-7007-9-49     Document Type: Note

References (12)

1. May R. Unanswered questions in ecology. Philos Trans R Soc Lond B 1999, 354:1951-1959.
2. Sanderson MJ, Driskell AC. The challenge of constructing large phylogenetic trees. Trends Plant Sci 2003, 8:374-379. 10.1016/S1360-1385(03)00165-1, 12927970.
3. Peters RS, Meyer B, Krogmann L, Borner J, Meusemann K, Schütte K, Niehuis O, Misof B. The taming of an impossible child: a standardized all-in approach to the phylogeny of Hymenoptera using public database sequences. BMC Biol 2011, 9:55. 10.1186/1741-7007-9-55, 3173391, 21851592.
4. Hibbett DS, Nilsson RH, Snyder M, Fonseca M, Costanzo J, Shonfeld M. Automated phylogenetic taxonomy: an example in the homobasidiomycetes (mushroom-forming fungi). Syst Biol 2005, 54:660-668. 10.1080/10635150590947104, 16126660.
5. Wu D, Hartman A, Ward N, Eisen JA. An automated phylogenetic tree-based small subunit rRNA taxonomy and alignment pipeline (STAP). PloS one 2008, 3:e2566. 10.1371/journal.pone.0002566, 2432038, 18596968.
6. Ciccarelli FD, Doerks T, von Mering C, Creevey CJ, Snel B, Bork P. Toward automatic reconstruction of a highly resolved tree of life. Science 2006, 311:1283-1287. 10.1126/science.1123061, 16513982.
7. Robbertse B, Reeves JB, Schoch CL, Spatafora JW. A phylogenomic analysis of the Ascomycota. Fungal Genet Biol 2006, 43:715-725. 10.1016/j.fgb.2006.05.001, 16781175.
8. Bidartondo MI. Preserving accuracy in GenBank. Science 2008, 319:1616.
9. Hassanin A, Bonillo C, Bui XN, Cruaud C. Comparisons between mitochondrial genomes of domestic goat (Capra hircus) reveal the presence of numts and multiple sequencing errors. Mitochondrial DNA 2010, 21(3-4):68-76.
10. Sanderson MJ. Construction and annotation of large phylogenetic trees. Aust Syst Bot 2007, 20:287-301.
11. Smith SA, Beaulieu JM, Stamatakis A, Donoghue MJ. Understanding angiosperm diversification using small and large phylogenetic trees. Am J Bot 2011, 98:404-414. 10.3732/ajb.1000481, 21613134.
12. Bininda-Emonds ORP, Stamatakis A. Taxon sampling versus computational complexity and their impact on obtaining the Tree of Life. Reconstructing the Tree of Life: Taxonomy and Systematics of Species Rich Taxa 2006, 72:77-95. CRC Press, Hodkinson TR, Parnell JAN.