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Protein Cell. 2013 Sep;4(9):664-76. doi: 10.1007/s13238-013-3050-9. Epub 2013 Jul 19.

Romance of the three domains: how cladistics transformed the classification of cellular organisms.

Ho CC1, Lau SK2,3,4,5, Woo PC6,7,8,9.

Author information

1
Department of Microbiology, The University of Hong Kong, Hong Kong, China.
2
Department of Microbiology, The University of Hong Kong, Hong Kong, China. skplau@hkucc.hku.hk.
3
State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, Hong Kong, China. skplau@hkucc.hku.hk.
4
Research Centre of Infection and Immunology, The University of Hong Kong, Hong Kong, China. skplau@hkucc.hku.hk.
5
Carol Yu Centre of Infection, The University of Hong Kong, Hong Kong, China. skplau@hkucc.hku.hk.
6
Department of Microbiology, The University of Hong Kong, Hong Kong, China. pcywoo@hkucc.hku.hk.
7
State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, Hong Kong, China. pcywoo@hkucc.hku.hk.
8
Research Centre of Infection and Immunology, The University of Hong Kong, Hong Kong, China. pcywoo@hkucc.hku.hk.
9
Carol Yu Centre of Infection, The University of Hong Kong, Hong Kong, China. pcywoo@hkucc.hku.hk.

Abstract

Cladistics is a biological philosophy that uses genealogical relationship among species and an inferred sequence of divergence as the basis of classification. This review critically surveys the chronological development of biological classification from Aristotle through our postgenomic era with a central focus on cladistics. In 1957, Julian Huxley coined cladogenesis to denote splitting from subspeciation. In 1960, the English translation of Willi Hennig's 1950 work, Systematic Phylogenetics, was published, which received strong opposition from pheneticists, such as numerical taxonomists Peter Sneath and Robert Sokal, and evolutionary taxonomist, Ernst Mayr, and sparked acrimonious debates in 1960-1980. In 1977-1990, Carl Woese pioneered in using small subunit rRNA gene sequences to delimitate the three domains of cellular life and established major prokaryotic phyla. Cladistics has since dominated taxonomy. Despite being compatible with modern microbiological observations, i.e. organisms with unusual phenotypes, restricted expression of characteristics and occasionally being uncultivable, increasing recognition of pervasiveness and abundance of horizontal gene transfer has challenged relevance and validity of cladistics. The mosaic nature of eukaryotic and prokaryotic genomes was also gradually discovered. In the mid-2000s, high-throughput and whole-genome sequencing became routine and complex geneologies of organisms have led to the proposal of a reticulated web of life. While genomics only indirectly leads to understanding of functional adaptations to ecological niches, computational modeling of entire organisms is underway and the gap between genomics and phenetics may soon be bridged. Controversies are not expected to settle as taxonomic classifications shall remain subjective to serve the human scientist, not the classified.

KEYWORDS:

cladistics; classification; evolution; phenetics; phylogeny

PMID:
23873078
PMCID:
PMC4875529
DOI:
10.1007/s13238-013-3050-9
[Indexed for MEDLINE]
Free PMC Article
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