Taxonomy (biology)

Science of naming, defining and classifying organisms

See also: Taxonomic rank

Part of a series on

Evolutionary biology
File:Darwin's finches by Gould.jpg

Darwin's finches by John Gould

* Index
* Introduction
* Main
* Outline

* Glossary
* Evidence
* History

Processes and outcomes

* Population genetics
* Variation
* Diversity
* Mutation
* Natural selection
* Adaptation
* Polymorphism
* Genetic drift
* Gene flow
* Speciation
* Adaptive radiation
* Co-operation
* Coevolution
* Coextinction
* Divergence
* Convergence
* Parallel evolution
* Extinction

Natural history

* Origin of life
* Common descent
* History of life
* Timeline of evolution
* Human evolution
* Phylogeny
* Biodiversity
* Biogeography
* Classification
* Evolutionary taxonomy
* Cladistics
* Transitional fossil
* Extinction event

History of evolutionary theory

* Overview
* Renaissance
* Before Darwin
* Darwin
* Origin of Species
* Before synthesis
* Modern synthesis
* Molecular evolution
* Evo-devo
* Current research
* History of speciation
* History of paleontology (timeline)

Fields and applications

* Applications of evolution
* Biosocial criminology
* Ecological genetics
* Evolutionary aesthetics
* Evolutionary anthropology
* Evolutionary computation
* Evolutionary ecology
* Evolutionary economics
* Evolutionary epistemology
* Evolutionary ethics
* Evolutionary game theory
* Evolutionary linguistics
* Evolutionary medicine
* Evolutionary neuroscience
* Evolutionary physiology
* Evolutionary psychology
* Experimental evolution
* Phylogenetics
* Paleontology
* Selective breeding
* Speciation experiments
* Sociobiology
* Systematics
* Universal Darwinism

Social implications

* Evolution as fact and theory
* Social effects
* Creation–evolution controversy
* Theistic evolution
* Objections to evolution
* Level of support

*   * Category
* Related topics

* v
* t
* e

In biology, taxonomy (from Ancient Greek τάξις (taxis) 'arrangement', and -νομία (-nomia) 'method') is the scientific study of naming, defining (circumscribing) and classifying groups of biological organisms based on shared characteristics. Organisms are grouped into taxa (singular: taxon) and these groups are given a taxonomic rank; groups of a given rank can be aggregated to form a more inclusive group of higher rank, thus creating a taxonomic hierarchy. The principal ranks in modern use are domain, kingdom, phylum (division is sometimes used in botany in place of phylum), class, order, family, genus, and species. The Swedish botanist Carl Linnaeus is regarded as the founder of the current system of taxonomy, as he developed a ranked system known as Linnaean taxonomy for categorizing organisms and binomial nomenclature for naming organisms.

With advances in the theory, data and analytical technology of biological systematics, the Linnaean system has transformed into a system of modern biological classification intended to reflect the evolutionary relationships among organisms, both living and extinct.

## Contents

* 1 Definition
* 1.1 Monograph and taxonomic revision
* 1.2 Taxonomic characters
* 1.3 Alpha and beta taxonomy
* 1.4 Microtaxonomy and macrotaxonomy
* 2 History
* 2.1 Pre-Linnaean
* 2.1.1 Early taxonomists
* 2.1.2 Ancient times
* 2.1.3 Medieval
* 2.1.4 Renaissance and early modern
* 2.2 Linnaean era
* 3 Modern system of classification
* 3.1 Kingdoms and domains
* 3.2 Recent comprehensive classifications
* 4 Application
* 4.1 Classifying organisms
* 4.2 Taxonomic descriptions
* 4.3 Author citation
* 5 Phenetics
* 6 Databases
* 7 See also
* 8 Notes
* 9 References
* 10 Bibliography
* 11 External links

## Definition[edit | edit source]

The exact definition of taxonomy varies from source to source, but the core of the discipline remains: the conception, naming, and classification of groups of organisms.[1] As points of reference, recent definitions of taxonomy are presented below:

1. Theory and practice of grouping individuals into species, arranging species into larger groups, and giving those groups names, thus producing a classification.[2]
2. A field of science (and major component of systematics) that encompasses description, identification, nomenclature, and classification[3]
3. The science of classification, in biology the arrangement of organisms into a classification[4]
4. "The science of classification as applied to living organisms, including the study of means of formation of species, etc."[5]
5. "The analysis of an organism's characteristics for the purpose of classification"[6]
6. "Systematics studies phylogeny to provide a pattern that can be translated into the classification and names of the more inclusive field of taxonomy" (listed as a desirable but unusual definition)[7]

The varied definitions either place taxonomy as a sub-area of systematics (definition 2), invert that relationship (definition 6), or appear to consider the two terms synonymous. There is some disagreement as to whether biological nomenclature is considered a part of taxonomy (definitions 1 and 2), or a part of systematics outside taxonomy.[8] For example, definition 6 is paired with the following definition of systematics that places nomenclature outside taxonomy:[6]

* Systematics: "The study of the identification, taxonomy, and nomenclature of organisms, including the classification of living things with regard to their natural relationships and the study of variation and the evolution of taxa".

In 1970 Michener et al. defined "systematic biology" and "taxonomy" (terms that are often confused and used interchangeably) in relationship to one another as follows:[9]

> Systematic biology (hereafter called simply systematics) is the field that (a) provides scientific names for organisms, (b) describes them, (c) preserves collections of them, (d) provides classifications for the organisms, keys for their identification, and data on their distributions, (e) investigates their evolutionary histories, and (f) considers their environmental adaptations. This is a field with a long history that in recent years has experienced a notable renaissance, principally with respect to theoretical content. Part of the theoretical material has to do with evolutionary areas (topics e and f above), the rest relates especially to the problem of classification. Taxonomy is that part of Systematics concerned with topics (a) to (d) above.

A whole set of terms including taxonomy, systematic biology, systematics, biosystematics, scientific classification, biological classification, and phylogenetics have at times had overlapping meanings – sometimes the same, sometimes slightly different, but always related and intersecting.[1][10] The broadest meaning of "taxonomy" is used here. The term itself was introduced in 1813 by de Candolle, in his Théorie élémentaire de la botanique.[11] John Lindley provided an early definition of systematics in 1830, although he wrote of "systematic botany" rather than using the term "systematics".[12] Europeans tend to use the terms "systematics" and "biosystematics" for the study of biodiversity as a whole, whereas North Americans tend to use "taxonomy" more frequently.[13] However, taxonomy, and in particular alpha taxonomy, is more specifically the identification, description, and naming (i.e. nomenclature) of organisms,[14] while "classification" focuses on placing organisms within hierarchical groups that show their relationships to other organisms.

### Monograph and taxonomic revision[edit | edit source]

A taxonomic revision or taxonomic review is a novel analysis of the variation patterns in a particular taxon. This analysis may be executed on the basis of any combination of the various available kinds of characters, such as morphological, anatomical, palynological, biochemical and genetic. A monograph or complete revision is a revision that is comprehensive for a taxon for the information given at a particular time, and for the entire world. Other (partial) revisions may be restricted in the sense that they may only use some of the available character sets or have a limited spatial scope. A revision results in a conformation of or new insights in the relationships between the subtaxa within the taxon under study, which may lead to a change in the classification of these subtaxa, the identification of new subtaxa, or the merger of previous subtaxa.[15]

### Taxonomic characters[edit | edit source]

Taxonomic characters are the taxonomic attributes that can be used to provide the evidence from which relationships (the phylogeny) between taxa are inferred.[16] Kinds of taxonomic characters include:[17]

* Morphological characters
* General external morphology
* Special structures (e.g. genitalia)
* Internal morphology (anatomy)
* Embryology
* Karyology and other cytological factors
* Physiological characters
* Metabolic factors
* Body secretions
* Genic sterility factors
* Molecular characters
* Immunological distance
* Electrophoretic differences
* Amino acid sequences of proteins
* DNA hybridization
* DNA and RNA sequences
* Restriction endonuclease analyses
* Other molecular differences
* Behavioral characters
* Courtship and other ethological isolating mechanisms
* Other behavior patterns
* Ecological characters
* Habit and habitats
* Food
* Seasonal variations
* Parasites and hosts
* Geographic characters
* General biogeographic distribution patterns
* Sympatric-allopatric relationship of populations

### Alpha and beta taxonomy[edit | edit source]

Not to be confused with Alpha diversity.

The term "alpha taxonomy" is primarily used today to refer to the discipline of finding, describing, and naming taxa, particularly species.[18] In earlier literature, the term had a different meaning, referring to morphological taxonomy, and the products of research through the end of the 19th century.[19]

William Bertram Turrill introduced the term "alpha taxonomy" in a series of papers published in 1935 and 1937 in which he discussed the philosophy and possible future directions of the discipline of taxonomy.[20]

> ... there is an increasing desire amongst taxonomists to consider their problems from wider viewpoints, to investigate the possibilities of closer co-operation with their cytological, ecological and genetics colleagues and to acknowledge that some revision or expansion, perhaps of a drastic nature, of their aims and methods, may be desirable ... Turrill (1935) has suggested that while accepting the older invaluable taxonomy, based on structure, and conveniently designated "alpha", it is possible to glimpse a far-distant taxonomy built upon as wide a basis of morphological and physiological facts as possible, and one in which "place is found for all observational and experimental data relating, even if indirectly, to the constitution, subdivision, origin, and behaviour of species and other taxonomic groups". Ideals can, it may be said, never be completely realized. They have, however, a great value of acting as permanent stimulants, and if we have some, even vague, ideal of an "omega" taxonomy we may progress a little way down the Greek alphabet. Some of us please ourselves by thinking we are now groping in a "beta" taxonomy.[20]

Turrill thus explicitly excludes from alpha taxonomy various areas of study that he includes within taxonomy as a whole, such as ecology, physiology, genetics, and cytology. He further excludes phylogenetic reconstruction from alpha taxonomy.[21]

Later authors have used the term in a different sense, to mean the delimitation of species (not subspecies or taxa of other ranks), using whatever investigative techniques are available, and including sophisticated computational or laboratory techniques.[22][18] Thus, Ernst Mayr in 1968 defined "beta taxonomy" as the classification of ranks higher than species.[23]

> An understanding of the biological meaning of variation and of the evolutionary origin of groups of related species is even more important for the second stage of taxonomic activity, the sorting of species into groups of relatives ("taxa") and their arrangement in a hierarchy of higher categories. This activity is what the term classification denotes; it is also referred to as "beta taxonomy".

### Microtaxonomy and macrotaxonomy[edit | edit source]

Main article: Species problem

How species should be defined in a particular group of organisms gives rise to practical and theoretical problems that are referred to as the species problem. The scientific work of deciding how to define species has been called microtaxonomy.[24][25][18][unreliable source?] By extension, macrotaxonomy is the study of groups at the higher taxonomic ranks subgenus and above.[18]

## History[edit | edit source]

While some descriptions of taxonomic history attempt to date taxonomy to ancient civilizations, a truly scientific attempt to classify organisms did not occur until the 18th century. Earlier works were primarily descriptive and focused on plants that were useful in agriculture or medicine. There are a number of stages in this scientific thinking. Early taxonomy was based on arbitrary criteria, the so-called "artificial systems", including Linnaeus's system of sexual classification for plants (Linnaeus's 1735 classification of animals was entitled "Systema Naturae" ("the System of Nature"), implying that he, at least, believed that it was more than an "artificial system"). Later came systems based on a more complete consideration of the characteristics of taxa, referred to as "natural systems", such as those of de Jussieu (1789), de Candolle (1813) and Bentham and Hooker (1862–1863). These classifications described empirical patterns and were pre-evolutionary in thinking. The publication of Charles Darwin's On the Origin of Species (1859) led to a new explanation for classifications, based on evolutionary relationships. This was the concept of phyletic systems, from 1883 onwards. This approach was typified by those of Eichler (1883) and Engler (1886–1892). The advent of cladistic methodology in the 1970s led to classifications based on the sole criterion of monophyly, supported by the presence of synapomorphies. Since then, the evidentiary basis has been expanded with data from molecular genetics that for the most part complements traditional morphology.[26][page needed][27][page needed][28][page needed]

### Pre-Linnaean[edit | edit source]

#### Early taxonomists[edit | edit source]

Naming and classifying human surroundings likely begun with the onset of language. Distinguishing poisonous plants from edible plants is integral to the survival of human communities. Medicinal plant illustrations show up in Egyptian wall paintings from c. 1500 BC, indicating that the uses of different species were understood and that a basic taxonomy was in place.[29]

#### Ancient times[edit | edit source]

Further information: Aristotle's biology § Classification

File:Huang-Quan-Xie-sheng-zhen-qin-tu.jpg

Description of rare animals (写生珍禽图), by Song dynasty painter Huang Quan (903–965)

Organisms were first classified by Aristotle (Greece, 384–322 BC) during his stay on the Island of Lesbos.[30][31][32] He classified beings by their parts, or in modern terms attributes, such as having live birth, having four legs, laying eggs, having blood, or being warm-bodied.[33] He divided all living things into two groups: plants and animals.[31] Some of his groups of animals, such as Anhaima (animals without blood, translated as invertebrates) and Enhaima (animals with blood, roughly the vertebrates), as well as groups like the sharks and cetaceans, are still commonly used today.[34] His student Theophrastus (Greece, 370–285 BC) carried on this tradition, mentioning some 500 plants and their uses in his Historia Plantarum. Again, several plant groups currently still recognized can be traced back to Theophrastus, such as Cornus, Crocus, and Narcissus.[31]

#### Medieval[edit | edit source]

Taxonomy in the Middle Ages was largely based on the Aristotelian system,[33] with additions concerning the philosophical and existential order of creatures. This included concepts such as the great chain of being in the Western scholastic tradition,[33] again deriving ultimately from Aristotle. The Aristotelian system did not classify plants or fungi, due to the lack of microscopes at the time,[32] as his ideas were based on arranging the complete world in a single continuum, as per the scala naturae (the Natural Ladder).[31] This, as well, was taken into consideration in the great chain of being.[31] Advances were made by scholars such as Procopius, Timotheos of Gaza, Demetrios Pepagomenos, and Thomas Aquinas. Medieval thinkers used abstract philosophical and logical categorizations more suited to abstract philosophy than to pragmatic taxonomy.[31]

#### Renaissance and early modern[edit | edit source]

During the Renaissance and the Age of Enlightenment, categorizing organisms became more prevalent,[31] and taxonomic works became ambitious enough to replace the ancient texts. This is sometimes credited to the development of sophisticated optical lenses, which allowed the morphology of organisms to be studied in much greater detail. One of the earliest authors to take advantage of this leap in technology was the Italian physician Andrea Cesalpino (1519–1603), who has been called "the first taxonomist".[35] His magnum opus De Plantis came out in 1583, and described more than 1500 plant species.[36][37] Two large plant families that he first recognized are still in use today: the Asteraceae and Brassicaceae.[38] Then in the 17th century John Ray (England, 1627–1705) wrote many important taxonomic works.[32] Arguably his greatest accomplishment was Methodus Plantarum Nova (1682),[39] in which he published details of over 18,000 plant species. At the time, his classifications were perhaps the most complex yet produced by any taxonomist, as he based his taxa on many combined characters. The next major taxonomic works were produced by Joseph Pitton de Tournefort (France, 1656–1708).[40] His work from 1700, Institutiones Rei Herbariae, included more than 9000 species in 698 genera, which directly influenced Linnaeus, as it was the text he used as a young student.[29]

### Linnaean era[edit | edit source]

Main article: Linnaean taxonomy

File:Linné-Systema Naturae 1735.jpg

Title page of Systema Naturae, Leiden, 1735

The Swedish botanist Carl Linnaeus (1707–1778)[33] ushered in a new era of taxonomy. With his major works Systema Naturae 1st Edition in 1735,[41] Species Plantarum in 1753,[42] and Systema Naturae 10th Edition,[43] he revolutionized modern taxonomy. His works implemented a standardized binomial naming system for animal and plant species,[44] which proved to be an elegant solution to a chaotic and disorganized taxonomic literature. He not only introduced the standard of class, order, genus, and species, but also made it possible to identify plants and animals from his book, by using the smaller parts of the flower.[44] Thus the Linnaean system was born, and is still used in essentially the same way today as it was in the 18th century.[44] Currently, plant and animal taxonomists regard Linnaeus' work as the "starting point" for valid names (at 1753 and 1758 respectively).[45] Names published before these dates are referred to as "pre-Linnaean", and not considered valid (with the exception of spiders published in Svenska Spindlar[46]). Even taxonomic names published by Linnaeus himself before these dates are considered pre-Linnaean.[29]

## Modern system of classification[edit | edit source]

Main articles: Evolutionary taxonomy and Phylogenetic nomenclature

File:Spindle diagram.jpg

Evolution of the vertebrates at class level, width of spindles indicating number of families. Spindle diagrams are typical for evolutionary taxonomy

File:Cladogram vertebrata.jpg

The same relationship, expressed as a cladogram typical for cladistics

A pattern of groups nested within groups was specified by Linnaeus' classifications of plants and animals, and these patterns began to be represented as dendrograms of the animal and plant kingdoms toward the end of the 18th century, well before Charles Darwin's On the Origin of Species was published.[32] The pattern of the "Natural System" did not entail a generating process, such as evolution, but may have implied it, inspiring early transmutationist thinkers. Among early works exploring the idea of a transmutation of species were Erasmus Darwin's (Charles Darwin's grandfather's) 1796 Zoönomia and Jean-Baptiste Lamarck's Philosophie Zoologique of 1809.[18] The idea was popularized in the Anglophone world by the speculative but widely read Vestiges of the Natural History of Creation, published anonymously by Robert Chambers in 1844.[47]

With Darwin's theory, a general acceptance quickly appeared that a classification should reflect the Darwinian principle of common descent.[48] Tree of life representations became popular in scientific works, with known fossil groups incorporated. One of the first modern groups tied to fossil ancestors was birds.[49][better source needed] Using the then newly discovered fossils of Archaeopteryx and Hesperornis, Thomas Henry Huxley pronounced that they had evolved from dinosaurs, a group formally named by Richard Owen in 1842.[50][51] The resulting description, that of dinosaurs "giving rise to" or being "the ancestors of" birds, is the essential hallmark of evolutionary taxonomic thinking. As more and more fossil groups were found and recognized in the late 19th and early 20th centuries, palaeontologists worked to understand the history of animals through the ages by linking together known groups.[52] With the modern evolutionary synthesis of the early 1940s, an essentially modern understanding of the evolution of the major groups was in place. As evolutionary taxonomy is based on Linnaean taxonomic ranks, the two terms are largely interchangeable in modern use.[53]

The cladistic method has emerged since the 1960s.[48] In 1958, Julian Huxley used the term clade.[18] Later, in 1960, Cain and Harrison introduced the term cladistic.[18] The salient feature is arranging taxa in a hierarchical evolutionary tree, with the desideratum that all named taxa are monophyletic.[48] A taxon is called monophyletic if it includes all the descendants of an ancestral form.[54][55] Groups that have descendant groups removed from them are termed paraphyletic,[54] while groups representing more than one branch from the tree of life are called polyphyletic.[54][55] Monophyletic groups are recognized and diagnosed on the basis of synapomorphies, shared derived character states.[56]

Cladistic classifications are compatible with traditional Linnean taxonomy and the Codes of Zoological and Botanical nomenclature.[57] An alternative system of nomenclature, the International Code of Phylogenetic Nomenclature or PhyloCode has been proposed, whose intent is to regulate the formal naming of clades.[58][59][unreliable source?] Linnaean ranks will be optional under the PhyloCode, which is intended to coexist with the current, rank-based codes.[59] It remains to be seen whether the systematic community will adopt the PhyloCode or reject it in favor of the current systems of nomenclature that have been employed (and modified as needed) for over 250 years.

### Kingdoms and domains[edit | edit source]

File:Biological classification L Pengo vflip.svg

The basic scheme of modern classification. Many other levels can be used; domain, the highest level within life, is both new and disputed.

Main article: Kingdom (biology)

Well before discovery of Carl Linnaeus (Botanist) plants and animals were considered separate Kingdoms.[60][unreliable source?] Linnaeus used this as the top rank, dividing the physical world into the vegetable, animal and mineral kingdoms. As advances in microscopy made the classification of microorganisms possible, the number of kingdoms increased, five- and six-kingdom systems being the most common.

Domains are a relatively new grouping. First proposed in 1977, Carl Woese's three-domain system was not generally accepted until later.[61] One main characteristic of the three-domain method is the separation of Archaea and Bacteria, previously grouped into the single kingdom Bacteria (a kingdom also sometimes called Monera),[60] with the Eukaryota for all organisms whose cells contain a nucleus.[62] A small number of scientists include a sixth kingdom, Archaea, but do not accept the domain method.[60]

Thomas Cavalier-Smith, who published extensively on the classification of protists, recently[when?] proposed that the Neomura, the clade that groups together the Archaea and Eucarya, would have evolved from Bacteria, more precisely from Actinomycetota. His 2004 classification treated the archaeobacteria as part of a subkingdom of the kingdom Bacteria, i.e., he rejected the three-domain system entirely.[63] Stefan Luketa in 2012 proposed a five "dominion" system, adding Prionobiota (acellular and without nucleic acid) and Virusobiota (acellular but with nucleic acid) to the traditional three domains.[64]

Linnaeus
1735[65] | Haeckel
1866[66] | Chatton
1925[67] | Copeland
1938[68] | Whittaker
1969[69] | Woese et al.
1990[70] | Cavalier-Smith
1998[63] | Cavalier-Smith
2015[71]

|
|
|
|
|
|
|

2 kingdoms  | 3 kingdoms  | 2 empires | 4 kingdoms | 5 kingdoms | 3 domains | 2 empires, 6 kingdoms | 2 empires, 7 kingdoms
(not treated) | Protista | Prokaryota | Monera | Monera | Bacteria | Bacteria | Bacteria
Archaea | Archaea
Eukaryota | Protoctista | Protista | Eucarya | Protozoa | Protozoa
Chromista | Chromista
Vegetabilia | Plantae | Plantae | Plantae | Plantae | Plantae
Fungi | Fungi | Fungi
Animalia | Animalia | Animalia | Animalia | Animalia | Animalia

Main article: Kingdom (biology) § Summary

### Recent comprehensive classifications[edit | edit source]

Partial classifications exist for many individual groups of organisms and are revised and replaced as new information becomes available; however, comprehensive, published treatments of most or all life are rarer; recent examples are that of Adl et al., 2012 and 2019,[72][73] which covers eukaryotes only with an emphasis on protists, and Ruggiero et al., 2015,[74] covering both eukaryotes and prokaryotes to the rank of Order, although both exclude fossil representatives.[74] A separate compilation (Ruggiero, 2014)[75] covers extant taxa to the rank of Family. Other, database-driven treatments include the Encyclopedia of Life, the Global Biodiversity Information Facility, the NCBI taxonomy database, the Interim Register of Marine and Nonmarine Genera, the Open Tree of Life, and the Catalogue of Life. The Paleobiology Database is a resource for fossils.

## Application[edit | edit source]

Biological taxonomy is a sub-discipline of biology, and is generally practiced by biologists known as "taxonomists", though enthusiastic naturalists are also frequently involved in the publication of new taxa.[76] Because taxonomy aims to describe and organize life, the work conducted by taxonomists is essential for the study of biodiversity and the resulting field of conservation biology.[77][78]

### Classifying organisms[edit | edit source]

Main article: Taxonomic rank

Biological classification is a critical component of the taxonomic process. As a result, it informs the user as to what the relatives of the taxon are hypothesized to be. Biological classification uses taxonomic ranks, including among others (in order from most inclusive to least inclusive): Domain, Kingdom, Phylum, Class, Order, Family, Genus, Species, and Strain.[79][note 1]

### Taxonomic descriptions[edit | edit source]

See also: Species description

File:Nepenthes smilesii type specimen.jpg

Type specimen for Nepenthes smilesii, a tropical pitcher plant

The "definition" of a taxon is encapsulated by its description or its diagnosis or by both combined. There are no set rules governing the definition of taxa, but the naming and publication of new taxa is governed by sets of rules.[8] In zoology, the nomenclature for the more commonly used ranks (superfamily to subspecies), is regulated by the International Code of Zoological Nomenclature (ICZN Code).[80] In the fields of phycology, mycology, and botany, the naming of taxa is governed by the International Code of Nomenclature for algae, fungi, and plants (ICN).[81]

The initial description of a taxon involves five main requirements:[82]

1. The taxon must be given a name based on the 26 letters of the Latin alphabet (a binomial for new species, or uninomial for other ranks).
2. The name must be unique (i.e. not a homonym).
3. The description must be based on at least one name-bearing type specimen.
4. It should include statements about appropriate attributes either to describe (define) the taxon or to differentiate it from other taxa (the diagnosis, ICZN Code, Article 13.1.1, ICN, Article 38, which may or may not be based on morphology[83]). Both codes deliberately separate defining the content of a taxon (its circumscription) from defining its name.
5. These first four requirements must be published in a work that is obtainable in numerous identical copies, as a permanent scientific record.

However, often much more information is included, like the geographic range of the taxon, ecological notes, chemistry, behavior, etc. How researchers arrive at their taxa varies: depending on the available data, and resources, methods vary from simple quantitative or qualitative comparisons of striking features, to elaborate computer analyses of large amounts of DNA sequence data.[84]

### Author citation[edit | edit source]

Main articles: Author citation (botany) and Author citation (zoology)

An "authority" may be placed after a scientific name.[85] The authority is the name of the scientist or scientists who first validly published the name.[85] For example, in 1758 Linnaeus gave the Asian elephant the scientific name Elephas maximus, so the name is sometimes written as "Elephas maximus Linnaeus, 1758".[86] The names of authors are frequently abbreviated: the abbreviation L., for Linnaeus, is commonly used. In botany, there is, in fact, a regulated list of standard abbreviations (see list of botanists by author abbreviation).[87] The system for assigning authorities differs slightly between botany and zoology.[8] However, it is standard that if the genus of a species has been changed since the original description, the original authority's name is placed in parentheses.[88]

## Phenetics[edit | edit source]

File:Phylogenetics.svg

A comparison of phylogenetic and phenetic (character-based) concepts

Main article: Phenetics

In phenetics, also known as taximetrics, or numerical taxonomy, organisms are classified based on overall similarity, regardless of their phylogeny or evolutionary relationships.[18] It results in a measure of hypergeometric "distance" between taxa. Phenetic methods have become relatively rare in modern times, largely superseded by cladistic analyses, as phenetic methods do not distinguish shared ancestral (or plesiomorphic) traits from shared derived (or apomorphic) traits.[89] However, certain phenetic methods, such as neighbor joining, have persisted, as rapid estimators of relationship when more advanced methods (such as Bayesian inference) are too computationally expensive.[90]

## Databases[edit | edit source]

Main article: Taxonomic database

Modern taxonomy uses database technologies to search and catalogue classifications and their documentation.[91] While there is no commonly used database, there are comprehensive databases such as the Catalogue of Life, which attempts to list every documented species.[92] The catalogue listed 1.64 million species for all kingdoms as of April 2016, claiming coverage of more than three quarters of the estimated species known to modern science.[93]

## See also[edit | edit source]

* Automated species identification
* Bacterial taxonomy
* Cluster analysis
* Consortium for the Barcode of Life
* Consortium of European Taxonomic Facilities
* Genetypes
* Glossary of scientific naming
* Identification (biology)
* Incertae sedis
* Open Tree of Life
* Parataxonomy
* Phenogram
* Set theory
* Taxonomy (general)
* Virus classification

## Notes[edit | edit source]

1. ^ This ranking system, except for "Strain," can be remembered by the mnemonic "Do Kings Play Chess On Fine Glass Sets?"

## References[edit | edit source]

1. ^ a b Wilkins, J.S. (5 February 2011). "What is systematics and what is taxonomy?". Archived from the original on 27 August 2016. Retrieved 21 August 2016.
2. ^ Judd, W.S.; Campbell, C.S.; Kellogg, E.A.; Stevens, P.F.; Donoghue, M.J. (2007). "Taxonomy". Plant Systematics: A Phylogenetic Approach (3rd ed.). Sunderland: Sinauer Associates.
3. ^ Simpson, Michael G. (2010). "Chapter 1 Plant Systematics: an Overview". Plant Systematics (2nd ed.). Academic Press. ISBN 978-0-12-374380-0.
4. ^ Kirk, P.M., Cannon, P.F., Minter, D.W., Stalpers, J.A. eds. (2008) "Taxonomy". In Dictionary of the Fungi, 10th edition. CABI, Netherlands.
5. ^ Walker, P.M.B., ed. (1988). The Wordsworth Dictionary of Science and Technology. W.R. Chambers Ltd. and Cambridge University Press.
6. ^ a b Lawrence, E. (2005). Henderson's Dictionary Of Biology. Pearson/Prentice Hall. ISBN 978-0-13-127384-9.
7. ^ Wheeler, Quentin D. (2004). "Taxonomic triage and the poverty of phylogeny". In H.C.J. Godfray & S. Knapp (ed.). Taxonomy for the twenty-first century. Philosophical Transactions of the Royal Society. Vol. 359\. pp. 571–583. doi:10.1098/rstb.2003.1452. PMC 1693342. PMID 15253345.
8. ^ a b c "Nomenclature, Names, and Taxonomy". Intermountain Herbarium – USU. 2005. Archived from the original on 23 November 2016.
9. ^ Michener, Charles D., John O. Corliss, Richard S. Cowan, Peter H. Raven, Curtis W. Sabrosky, Donald S. Squires, and G. W. Wharton (1970). Systematics In Support of Biological Research. Division of Biology and Agriculture, National Research Council. Washington, D.C. 25 pp.
10. ^ Small, Ernest (1989). "Systematics of Biological Systematics (Or, Taxonomy of Taxonomy)". Taxon. 38 (3): 335–356. doi:10.2307/1222265. JSTOR 1222265.
11. ^ Singh, Gurcharan (2004). Plant systematics: An integrated approach. Science Publishers. p. 20\. ISBN 978-1-57808-351-0 - via Google Books.
12. ^ Wilkins, J. S. What is systematics and what is taxonomy? Archived 27 August 2016 at the Wayback Machine. Available on http://evolvingthoughts.net
13. ^ Brusca, R. C., & Brusca, G. J. (2003). Invertebrates (2nd ed.). Sunderland, Mass. : Sinauer Associates, p. 27
14. ^ Fortey, Richard (2008), Dry Store Room No. 1: The Secret Life of the Natural History Museum, London: Harper Perennial, ISBN 978-0-00-720989-7
15. ^ Maxted, Nigel (1992). "Towards Defining a Taxonomic Revision Methodology". Taxon. 41 (4): 653–660. doi:10.2307/1222391. JSTOR 1222391.
16. ^ Mayr, Ernst (1991). Principles of Systematic Zoology. New York: McGraw-Hill, p. 159.
17. ^ Mayr, Ernst (1991), p. 162.
18. ^ a b c d e f g h "Taxonomy: Meaning, Levels, Periods and Role". Biology Discussion. 27 May 2016. Archived from the original on 5 April 2017.
19. ^ Rosselló-Mora, Ramon; Amann, Rudolf (1 January 2001). "The species concept for prokaryotes". FEMS Microbiology Reviews. 25 (1): 39–67. doi:10.1111/j.1574-6976.2001.tb00571.x. ISSN 1574-6976. PMID 11152940.
20. ^ a b Turrill 1938.
21. ^ Turrill 1938, pp. 365–366.
22. ^ Steyskal, G.C. (1965). "Trend curves of the rate of species description in zoology". Science. 149 (3686): 880–882. Bibcode:1965Sci...149..880S. doi:10.1126/science.149.3686.880. PMID 17737388. S2CID 36277653.
23. ^ Mayr, Ernst (9 February 1968), "The Role of Systematics in Biology: The study of all aspects of the diversity of life is one of the most important concerns in biology", Science, 159 (3815): 595–599, Bibcode:1968Sci...159..595M, doi:10.1126/science.159.3815.595, PMID 4886900
24. ^ Mayr, Ernst (1982). "Chapter 6: Microtaxonomy, the science of species". The Growth of Biological Thought: Diversity, Evolution, and Inheritance. Belknap Press of Harvard University Press. ISBN 978-0-674-36446-2.
25. ^ "Result of Your Query". biological-concepts.com. Archived from the original on 5 April 2017.
26. ^ Datta 1988.
27. ^ Stace 1989.
28. ^ Stuessy 2009.
29. ^ a b c Manktelow, M. (2010) History of Taxonomy Archived 29 May 2015 at the Wayback Machine. Lecture from Dept. of Systematic Biology, Uppsala University.
30. ^ Mayr, E. (1982) The Growth of Biological Thought. Belknap P. of Harvard U.P., Cambridge (Mass.)
31. ^ a b c d e f g "Palaeos : Taxonomy". palaeos.com. Archived from the original on 31 March 2017.
32. ^ a b c d "taxonomy | biology". Encyclopedia Britannica. Archived from the original on 5 April 2017.
33. ^ a b c d "Biology 101, Ch 20". cbs.dtu.dk. 23 March 1998. Archived from the original on 28 June 2017.
34. ^ Leroi, Armand Marie (2014). The Lagoon: How Aristotle Invented Science. Bloomsbury. pp. 384–395. ISBN 978-1-4088-3622-4.
35. ^ "Andrea Cesalpino | Italian physician, philosopher, and botanist". Encyclopedia Britannica. Archived from the original on 5 April 2017.
36. ^ Cesalpino, Andrea; Marescotti, Giorgio (1583). De plantis libri XVI. Florence: Apud Georgium Marescottum - via Internet Archive.
37. ^ "Andrea Cesalpino | Italian physician, philosopher, and botanist". Encyclopedia Britannica. Archived from the original on 5 April 2017.
38. ^ Jaime, Prohens (2010). International Edition Vegetables I: Asteraceae, Brassicaceae, Chenopodicaceae, and Cucurbitaceae (Handbook of Plant Breeding). ISBN 978-1-4419-2474-2.
39. ^ John, Ray (1682). Methodus plantarum nova [New Method of Plants] (in Latin). impensis Henrici Faithorne & Joannis Kersey, ad insigne Rofæ Coemeterio D. Pauli. Archived from the original on 29 September 2017.
40. ^ "Joseph Pitton de Tournefort | French botanist and physician". Encyclopedia Britannica. Archived from the original on 5 April 2017.
41. ^ Linnaeus, C. (1735) Systema naturae, sive regna tria naturae systematice proposita per classes, ordines, genera, & species. Haak, Leiden
42. ^ Linnaeus, C. (1753) Species Plantarum. Stockholm, Sweden.
43. ^ Linnaeus, C. (1758) Systema naturae, sive regna tria naturae systematice proposita per classes, ordines, genera, & species, 10th Edition. Haak, Leiden
44. ^ a b c "taxonomy – The Linnaean system | biology". Encyclopedia Britannica. Archived from the original on 5 April 2017.
45. ^ Donk, M.A. (December 1957). "Typification and later starting-points" (PDF). Taxon. 6 (9): 245–256. doi:10.2307/1217493. JSTOR 1217493. Archived (PDF) from the original on 18 May 2015.
46. ^ Carl, Clerck; Carl, Bergquist; Eric, Borg; L., Gottman; Lars, Salvius (1757). Svenska spindlar [Swedish Spiders] (in Swedish). Literis Laur. Salvii. Archived from the original on 1 December 2017.
47. ^ Secord, James A. (2000). Victorian Sensation: The Extraordinary Publication, Reception, and Secret Authorship of Vestiges of the Natural History of Creation. University of Chicago Press. ISBN 978-0-226-74410-0. Archived from the original on 16 May 2008.
48. ^ a b c "taxonomy – Classification since Linnaeus | biology". Encyclopedia Britannica. Archived from the original on 5 April 2017.
49. ^ "Fossil of world's earliest modern bird could help us understand the extinction of dinosaurs". Archived from the original on 5 April 2017.
50. ^ Huxley, T.H. (1876): Lectures on Evolution. New York Tribune. Extra. no. 36. In Collected Essays IV: pp. 46–138 original text w/ figures Archived 28 June 2011 at the Wayback Machine
51. ^ "Thomas Henry Huxley | British biologist". Encyclopedia Britannica. Archived from the original on 6 February 2018.
52. ^ Rudwick, M.J.S. (1985). The Meaning of Fossils: Episodes in the History of Palaeontology. University of Chicago Press. p. 24\. ISBN 978-0-226-73103-2.
53. ^ Paterlini, Marta (September 2007). "There shall be order. The legacy of Linnaeus in the age of molecular biology". EMBO Reports. 8 (9): 814–816. doi:10.1038/sj.embor.7401061. PMC 1973966. PMID 17767191.
54. ^ a b c Taylor, Mike. "What do terms like monophyletic, paraphyletic and polyphyletic mean?". miketaylor.org.uk. Archived from the original on 1 August 2010.
55. ^ a b "Polyphyletic vs. Monophyletic". ncse.com. Archived from the original on 5 April 2017.
56. ^ Brower, Andrew V. Z. and Randall T. Schuh. 2021. Biological Systematics: Principles and Applications (3rd edn.) Cornell University Press, Ithaca, New York., p. 13
57. ^ Schuh, Randall T. "The Linnaean system and its 250-year persistence." The Botanical Review 69, no. 1 (2003): 59.
58. ^ Queiroz, Philip D. Cantino, Kevin de. "The PhyloCode". ohio.edu. Archived from the original on 10 May 2016.
59. ^ a b "PhyloCode: Concept, History and Advantages | Taxonomy". Biology Discussion. 12 July 2016. Archived from the original on 5 April 2017.
60. ^ a b c "Kingdom Classification of Living Organism". Biology Discussion. 2 December 2014. Archived from the original on 5 April 2017.
61. ^ "Carl Woese | Carl R. Woese Institute for Genomic Biology". www.igb.Illinois.edu. Archived from the original on 28 April 2017.
62. ^ Cracraft, Joel and Donaghue, Michael J. (eds.) (2004). Assembling the Tree of Life. Oxford, England: Oxford University Press. ISBN 0-19-517234-5. pp. 45, 78, 555
63. ^ a b Cavalier-Smith, T. (1998). "A revised six-kingdom system of life". Biological Reviews. 73 (3): 203–66. doi:10.1111/j.1469-185X.1998.tb00030.x. PMID 9809012. S2CID 6557779.
64. ^ Luketa, S. (2012). "New views on the megaclassification of life" (PDF). Protistology. 7 (4): 218–237. Archived (PDF) from the original on 2 April 2015.
65. ^ Linnaeus, C. (1735). Systemae Naturae, sive regna tria naturae, systematics proposita per classes, ordines, genera & species.
66. ^ Haeckel, E. (1866). Generelle Morphologie der Organismen. Reimer, Berlin.
67. ^ Chatton, É. (1925). "Pansporella perplexa. Réflexions sur la biologie et la phylogénie des protozoaires". Annales des Sciences Naturelles - Zoologie et Biologie Animale. 10-VII: 1–84.
68. ^ Copeland, H. (1938). "The kingdoms of organisms". Quarterly Review of Biology. 13 (4): 383–420. doi:10.1086/394568. S2CID 84634277.
69. ^ Whittaker, R. H. (January 1969). "New concepts of kingdoms of organisms". Science. 163 (3863): 150–60. Bibcode:1969Sci...163..150W. doi:10.1126/science.163.3863.150. PMID 5762760.
70. ^ Woese, C.; Kandler, O.; Wheelis, M. (1990). "Towards a natural system of organisms:proposal for the domains Archaea, Bacteria, and Eucarya". Proceedings of the National Academy of Sciences of the United States of America. 87 (12): 4576–9. Bibcode:1990PNAS...87.4576W. doi:10.1073/pnas.87.12.4576. PMC 54159. PMID 2112744.
71. ^ Ruggiero, Michael A.; Gordon, Dennis P.; Orrell, Thomas M.; Bailly, Nicolas; Bourgoin, Thierry; Brusca, Richard C.; Cavalier-Smith, Thomas; Guiry, Michael D.; Kirk, Paul M.; Thuesen, Erik V. (2015). "A higher level classification of all living organisms". PLOS ONE. 10 (4): e0119248. Bibcode:2015PLoSO..1019248R. doi:10.1371/journal.pone.0119248. PMC 4418965. PMID 25923521.
72. ^ Adl, S.M.; Simpson, A.G.B.; Lane, C.E.; Lukeš, J.; Bass, D.; Bowser, S.S.; et al. (December 2015). "The revised classification of eukaryotes". Journal of Eukaryotic Microbiology. 59 (5): 429–493. doi:10.1111/j.1550-7408.2012.00644.x. PMC 3483872. PMID 23020233.
73. ^ Adl, S.M.; Bass, D.; Lane, C.E.; Lukeš, J.; Schoch, C.L.; Smirnov, A.; et al. (2019). "Revisions to the classification, nomenclature, and diversity of eukaryotes". Journal of Eukaryotic Microbiology. 66 (1): 4–119. doi:10.1111/jeu.12691. PMC 6492006. PMID 30257078.
74. ^ a b Ruggiero, M.A.; Gordon, D.P.; Orrell, T.M.; Bailly, N.; Bourgoin, T.; Brusca, R.C.; et al. (2015). "A higher level classification of all living organisms". PLOS ONE. 10 (4): e0119248. Bibcode:2015PLoSO..1019248R. doi:10.1371/journal.pone.0119248. PMC 4418965. PMID 25923521.
75. ^ Ruggiero, Michael A. (2014). Families of All Living Organisms, Version 2.0.a.15, (4/26/14). Expert Solutions International, LLC, Reston, VA. 420 pp. Included data available for download via https://www.gbif.org/dataset/8067e0a2-a26d-4831-8a1e-21b9118a299c (doi: 10.15468/tfp6yv)
76. ^ "A Few Bad Scientists Are Threatening to Topple Taxonomy". Smithsonian. Retrieved 24 February 2019.
77. ^ "What is taxonomy?". London: Natural History Museum. Archived from the original on 1 October 2013. Retrieved 23 December 2017.
78. ^ McNeely, Jeffrey A. (2002). "The role of taxonomy in conserving biodiversity" (PDF). J. Nat. Conserv. 10 (3): 145–153. doi:10.1078/1617-1381-00015. S2CID 16953722. Archived from the original (PDF) on 24 December 2017 - via Semantic Scholar.
79. ^ "Mnemonic taxonomy / biology: Kingdom Phylum Class Order..." Archived from the original on 6 June 2017.
80. ^ "ICZN Code". animalbase.uni-goettingen.de.
81. ^ "International Code of Nomenclature for algae, fungi, and plants". International Association for Plant Taxonomy. Archived from the original on 11 January 2013.
82. ^ "How can I describe new species?". International Commission on Zoological Nomenclature. Archived from the original on 6 March 2012. Retrieved 21 May 2020.
83. ^ Lawley, Jonathan W.; Gamero-Mora, Edgar; Maronna, Maximiliano M.; Chiaverano, Luciano M.; Stampar, Sérgio N.; Hopcroft, Russell R.; Collins, Allen G.; Morandini, André C. (2022-09-29). "Morphology is not always useful for diagnosis, and that's ok: Species hypotheses should not be bound to a class of data. Reply to Brown and Gibbons (S Afr J Sci. 2022;118(9/10), Art. #12590)". South African Journal of Science. 118 (9/10). doi:10.17159/sajs.2022/14495. ISSN 1996-7489. S2CID 252562185.
84. ^ "Taxonomy – Evaluating taxonomic characters". Encyclopædia Britannica. Archived from the original on 22 April 2019.
85. ^ a b "Editing Tip: Scientific Names of Species | AJE | American Journal Experts". www.aje.com. Archived from the original on 9 April 2017.
86. ^ "Carolus Linnaeus: Classification, Taxonomy & Contributions to Biology – Video & Lesson Transcript | Study.com". Study.com. Archived from the original on 9 April 2017.
87. ^ Biocyclopedia.com. "Biological Classification". biocyclopedia.com. Archived from the original on 14 May 2017.
88. ^ "Zoological nomenclature: a basic guide for non-taxonomist authors". Annelida.net. Archived from the original on 16 March 2017.
89. ^ "Classification". North Carolina State University. Archived from the original on 14 April 2017. Retrieved 27 April 2017.
90. ^ McDonald, David (Fall 2008). "Molecular Marker Glossary". University of Wyoming. Archived from the original on 10 June 2007.
91. ^ Wood, Dylan; King, Margaret; Landis, Drew; Courtney, William; Wang, Runtang; Kelly, Ross; Turner, Jessica A.; Calhoun, Vince D. (26 August 2014). "Harnessing modern web application technology to create intuitive and efficient data visualization and sharing tools". Frontiers in Neuroinformatics. 8: 71. doi:10.3389/fninf.2014.00071. ISSN 1662-5196. PMC 4144441. PMID 25206330.
92. ^ "About – The Plant List". theplantlist.org.
93. ^ "About the Catalogue of Life: 2016 Annual Checklist". Catalogue of Life. Integrated Taxonomic Information System (ITIS). Archived from the original on 15 May 2016. Retrieved 22 May 2016.

## Bibliography[edit | edit source]

* Datta, Subhash Chandra (1988). Systematic Botany (4 ed.). New Delhi: New Age International. ISBN 978-81-224-0013-7. Retrieved 25 January 2015.
* Stace, Clive A. (1989) [1980]. Plant taxonomy and biosystematics (2nd. ed.). Cambridge: Cambridge University Press. ISBN 978-0-521-42785-2. Retrieved 19 April 2015.
* Stuessy, Tod F. (2009). Plant Taxonomy: The Systematic Evaluation of Comparative Data. Columbia University Press. ISBN 978-0-231-14712-5. Retrieved 6 February 2014.
* Turrill, W.B. (1938). "The Expansion Of Taxonomy With Special Reference To Spermatophyta". Biological Reviews. 13 (4): 342–373. doi:10.1111/j.1469-185X.1938.tb00522.x. S2CID 84905335.
* Wiley, Edward O. and Bruce S. Lieberman. 2011. "Phylogenetics: Theory and Practice of Phylogenetic Systematics", 2nd edn. ISBN 978-0-470-90596-8

## External links[edit | edit source]

* What is taxonomy? at the Natural History Museum London
* Taxonomy at NCBI the National Center for Biotechnology Information
* Taxonomy at UniProt the Universal Protein Resource
* ITIS the Integrated Taxonomic Information System
* CETaF the Consortium of European Taxonomic Facilities
* Wikispecies free species directory
* Biological classification. Archived 13 August 2020 at the Wayback Machine

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