ambiregnal protist

Nomenclature codes or codes of nomenclature are the various rulebooks that govern biological taxonomic nomenclature, each in their own broad field of organisms. To an end-user who only deals with names of species, with some awareness that species are assignable to families, it may not be noticeable that there is more than one code, but beyond this basic level these are rather different in the way they work.

The successful introduction of two-part names for species by Linnaeus was the start for an ever-expanding system of nomenclature. With all naturalists worldwide adopting this approach to thinking up names, there arose several schools of thought about the details. It became ever more apparent that a detailed body of rules was necessary to govern scientific names. From the mid-19th century onwards, there were several initiatives to arrive at worldwide-accepted sets of rules. Presently nomenclature codes govern the naming of:
* Algae, Fungi and Plants – ''International Code of Nomenclature for algae, fungi, and plants'' (''ICN''), which in July 2011 replaced the ''International Code of Botanical Nomenclature'' (''ICBN'') and the earlier ''International Rules of Botanical Nomenclature''.
* Animals – ''International Code of Zoological Nomenclature'' (''ICZN'')
* Bacteria and Archaea – ''International Code of Nomenclature of Prokaryotes'' (''ICNP''), which in 2008 replaced the ''International Code of Nomenclature of Bacteria'' (''ICNB'')
* Cultivated plants – ''International Code of Nomenclature for Cultivated Plants'' (''ICNCP'')
* Plant associations – ''International Code of Phytosociological Nomenclature (ICPN)''
* Viruses – ''The International Code of Virus Classification and Nomenclature'' (ICVCN); ''see also virus classification''

Differences between codes

Starting point

The starting point, that is the time from which these codes are in effect (usually retroactively), varies from group to group, and sometimes from rank to rank. In botany and mycology the starting point is often 1 May 1753 (Linnaeus, ''Species plantarum''), in zoology 1758 (Linnaeus,
''Systema Naturae'', 10th Edition). On the other hand, bacteriology started anew, making a clean sweep in 1980 (Skerman et al., "Approved Lists of Bacterial Names"), although maintaining the original authors and dates of publication.

Exceptions in botany:
* Spermatophyta and Pteridophyta, suprageneric names: 4 August 1789 ( Jussieu, ''Genera plantarum'');
* Musci (except Sphagnaceae): 1 January 1801 (Hedwig, ''Species muscorum'');
* Sphagnaceae and Hepaticae (including Anthocerotae), suprageneric names: 4 August 1789 (Jussieu, ''Genera plantarum'');
* (Fungi:) Microsporidia are governed by the ''ICZN'' (treated as animals), and see below for ''fossil'' fungi;
* (Algae:)
** Nostocaceae homocysteae: 1 January 1892 (Gomont, “''Monographie des Oscillariées''”);
** Nostocaceae heterocysteae: 1 January 1886 ( Bornet & Flahault, “''Révision des Nostocacées hétérocystées''”);
** Desmidiaceae: 1 January 1848 ( Ralfs, ''British Desmidieae'');
** Oedogoniaceae: 1 January 1900 ( Hirn, “''Monographie und Iconographie der Oedogoniaceen''”);
* ''Fossil'' plants, algae (diatoms excepted) and fungi: 31 December 1820 ( Sternberg, ''Flora der Vorwelt'').

Exceptions in zoology:
* Spiders: 1757 ( Clerck, '' Aranei Svecici'').

Workings

There are also differences in the way codes work. For example, the ''ICN'' (the code for algae, fungi and plants) forbids tautonyms, while the ''ICZN'', (the animal code) allows them.

Terminology

These codes differ in terminology, and there is a long-term project to "harmonize" this. For instance, the ''ICN'' uses "valid" in "valid publication of a name" (= the act of publishing a formal name), with "establishing a name" as the ''ICZN'' equivalent. The ''ICZN'' uses "valid" in "valid name" (= "correct name"), with "correct name" as the ''ICN'' equivalent. Harmonization is making very limited progress.

Types

There are differences in respect of what kinds of types are used. The bacteriological code prefers living type cultures, but allows other kinds. There has been ongoing debate regarding which kind of type is more useful in a case like cyanobacteria.

Other codes

BioCode

A more radical approach was made in 1997 when the IUBS/ IUMS International Committee on Bionomenclature (ICB) presented the long debated ''Draft BioCode'', proposed to replace all existing ''Codes'' with an harmonization of them. The originally planned implementation date for the BioCode draft was January 1, 2000, but agreement to replace the existing ''Codes'' was not reached.

In 2011 a revised ''BioCode'' was proposed that, instead of replacing the existing ''Codes'', would provide a unified context for them, referring to them when necessary. Changes in the existing codes are slowly being made in the proposed directions.DL Hawksworth (2011) BioCode 2011. Introduction. http://www.bionomenclature.net/biocode2011.htmlWerner Greuter (2011) BioCode 2011. Explanatory prologue. http://www.bionomenclature.net/biocode2011.html

PhyloCode

Some authors encountered problems in using the Linnean system in phylogenetic classification.de Queiroz, K.; Gauthier, J. (1990). Phylogeny as a Central Principle in Taxonomy: Phylogenetic Definitions of Taxon Names. ''Syst. Zool.'' (39): 307–322. doi:10.2307/2992353 http://vertebrates.si.edu/herps/herps_pdfs/deQueiroz_pdfs/1990deQ_GauSZ.pdf. Another ''Code'' in development since 1998 is the ''PhyloCode'', which would regulate what their creators called phylogenetic nomenclature instead of the traditional Linnaean nomenclature (that is, it requires phylogenetic definitions as a "type" attached to every name, and does not contain mandatory ranks). The ''Code'' and the accompanying volume (meant to serve as a list of not-suppressed names and a new starting point, like the 1980s ''Approved Lists of Bacterial Names'' functions relative to the ''Bacteriological Code'', much like ''Systema naturae'' functions relative to the ''Zoological Code''), is however still in the draft stage, and it is uncertain when, or even if, the code will see any form of implementation.

Ambiregnal protists

Some protists, sometimes called ambiregnal protists, have been considered to be both protozoa and algae, or protozoa and fungi, and names for these have been published under either or both of the ''ICZN'' and the ''ICN''. The resulting double language throughout protist classification schemes resulted in confusion.

Groups claimed by both protozoologists and phycologists include euglenids, dinoflagellates, cryptomonads, haptophytes, glaucophytes, many heterokonts (e.g., chrysophytes, raphidophytes, silicoflagellates, some xanthophytes, proteromonads), some monadoid green algae ( volvocaleans and prasinophytes), choanoflagellates, bicosoecids, ebriids and chlorarachniophytes.

Slime molds, plasmodial forms and other " fungus-like" organisms claimed by both protozoologists and mycologists include mycetozoans, plasmodiophorids, acrasids, and labyrinthulomycetess. Fungi claimed by both protozoologists and mycologists include chytrids, blastoclads, and the gut fungi.

Other problematic groups are the Cyanobacteria (ICNP/ICN) and Microsporidia (ICZN/ICN).

Unregulated taxa

The zoological code does not regulate names of taxa lower than subspecies or higher than superfamily. There are many attempts to introduce some order on the nomenclature of these taxa, including the PhyloCode, or also of circumscriptional nomenclature.

The botanical code is applied primarily to the ranks of family and below. There are some rules for names above the rank of family, but the principle of priority does not apply to them, and the principle of typification is optional. These names may be either automatically typified names or be descriptive names. In some circumstances, a taxon has two possible names (e.g., Chrysophyceae Pascher, 1914, ''nom. descrip.''; Hibberd, 1976, ''nom. typificatum''). Descriptive names are problematic, once that, if a taxon is split, it is not obvious which new group takes the existing name. Meanwhile, with typified names, the existing name is taken by the new group that still bears the type of this name. However, typified names present special problems for microorganisms.

See also

* Binomial nomenclature
* Botanical nomenclature
* Chemical nomenclature
* Common name
* Gene nomenclature
* Glossary of scientific naming
* List of taxa named by anagrams
* Zoological nomenclature
* Tree of life (biology)

References

Bibliography

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*{{cite book , author1=Turland, N.J. , author2=Wiersema, J.H. , author3=Barry, F.R. , author4=Greuter, W. , author5=Hawksworth, D.L. , author6=Herendeen, P.S. , author7=Knapp, S. , author8=Kusber, W.H. , author9=Li, D.-Z. , author10=Marhold, K. , author11=May, T.W. , author12=McNeill, J. , author13=Monro, A.M. , author14=Prado, J. , author15=Price, M.J. , author16=Smith, G.F. , year=2018 , volume=Regnum Vegetabile 159 , title=International Code of Nomenclature for algae, fungi, and plants (Shenzhen Code) adopted by the Nineteenth International Botanical Congress Shenzhen, China, July 2017 , publisher=Koeltz Botanical Books , isbn=978-3-946583-16-5 , url=https://www.iapt-taxon.org/nomen/main.php , ref=Turland

External links

Biocode in Action
at the Smithsonian Ocean Portal

''ICN''
Shenzhen Code (2018)

''ICZN''
the "green book" (1999)


with Standing in Nomenclature (1997), by J.P. Euzéby

''BioCode''
introduction (2011)





Virology