International Code of Nomenclature of Prokaryotes

From Wikipedia, the free encyclopedia
Jump to navigation Jump to search

Template:Short description The International Code of Nomenclature of Prokaryotes (ICNP) or Prokaryotic Code, formerly the International Code of Nomenclature of Bacteria (ICNB) or Bacteriological Code (BC), governs the scientific names for Bacteria and Archaea.[1][2] It denotes the rules for naming taxa of bacteria, according to their relative rank. As such it is one of the nomenclature codes of biology.

Originally the International Code of Botanical Nomenclature dealt with bacteria, and this kept references to bacteria until these were eliminated at the 1975 International Botanical Congress. An early Code for the nomenclature of bacteria was approved at the 4th International Congress for Microbiology in 1947, but was later discarded.

The latest version to be printed in book form is the 1990 Revision,[3] but the book does not represent the current rules. The 2008 and 2022 Revisions have been published in the International Journal of Systematic and Evolutionary Microbiology (IJSEM).[2] Rules are maintained by the International Committee on Systematics of Prokaryotes (ICSP; formerly the International Committee on Systematic Bacteriology, ICSB).

The baseline for bacterial names is the Approved Lists[4] with a starting point of 1980. New bacterial names are reviewed by the ICSP as being in conformity with the Rules of Nomenclature and published in the IJSEM.

Cyanobacteria

Since 1975, most bacteria were covered under the bacteriological code. However, cyanobacteria were still covered by the botanical code. Starting in 1999, cyanobacteria were covered by both the botanical and bacteriological codes. This situation has caused nomenclatural problems for the cyanobacteria.[5][6] By 2020, there were three proposals for how to resolve the situation:

  1. Exclude cyanobacteria from the bacteriological code.[7]
  2. Apply the bacteriological code to all cyanobacteria.[8]
  3. Treat valid publication under the botanical code as valid publication under the bacteriological code.[9]

In 2021, the ICSP held a formal vote on the three proposals and the third option was chosen.[10]

Type strain

Script error: No such module "Labelled list hatnote". Since 2001, when a new bacterial or archaeal species is described, a type strain must be designated.[11] The type strain is a living culture to which the scientific name of that organism is formally attached. For a new species name to be validly published, the type strain must be deposited in a public culture collection in at least two different countries.[12] Before 2001, a species could also be typified using a description, a preserved specimen, or an illustration.[11] There is a single type strain for each prokaryotic species, but different culture collections may designate a unique name for the same strain. For example, the type strain of E. coli (originally strain U5/41) is called ATCC 11775 by the American Type Culture Collection, DSM 30083 by the German Collection of Microorganisms and Cell Cultures, JCM 1649 by the Japan Collection of Microorganisms, and LMG 2092 by the Belgian Coordinated Collections of Microorganisms.[13][14]

When a prokaryotic species cannot be cultivated in the laboratory (and therefore cannot be deposited in a culture collection), it may be given a provisional Candidatus name, but is not considered validly published.[15] Since 2024, these names can be "pro-validly published" and become "pro-legitimate" and "pro-correct". This requires the name to meet most existing requirements for valid publication (and analogously for legitimacy and correctness), except the culture deposition in Rule 30 can be replaced by a living culture not meeting the requirements of Rule 30, a preserved specimen, a sequenced genome deposited on the INSDC, or a single-gene sequence deposited to the INSDC. Pro-legitimate Candidatus names compete with each other for priority, but do not compete with "real" legitimate names.[16]

Before the pro-valid publication mechanism, the validation of Candidatus names fell to the Code of Nomenclature of Prokaryotes Described from Sequence Data (SeqCode) which is published by the International Society for Microbial Ecology, an organization separate from the ICSP, in 2022.[17]

Other notable differences from the Botanical Code

Notable differences in rules:

  • Hyphenation is not allowed. Previously hyphenated names and new compounds are to be simply joined.[18]Template:Rp
  • Diacritics are not allowed. There are fixed two-letter replacements for some letters with diacritics.[18]Template:Rp There is no clarifying carve-out for diaeresis (ë) like in Rule 60.7 of the Shenzhen Code.[19]

Notable differences in recommended practice:

  • Scientific names are recommended to be differentiated "by a different type face, e.g., italic, or by some other device". Italicization is not mandatory.[18]Template:Rp
    • There are no rank-specific rules for italicization in the ICNP. While many publishers choose to italicize genera and species only, the affiliated IJSEM and the ICNP text itself italicize all scientific names (with the exception of Candidatus-specific formatting).
    • Latin words or abbreviations that follow an italicized scientific name should not be italicized. They may be laid out in roman (regular) font, or in bold if differentiation is desired.[18]Template:Rp
  • The author citation term ex is to be used in parentheses, in the form "Taxon Template:Au". Subsequent revisions should be cited in the form "Taxon Template:Au". non should also be parenthesized, like in "Achromobacter Template:Au (non Achromobacter Template:Au)".[18]Template:Rp

Versions

  • Buchanan, R. E., and Ralph St. John-Brooks. (1947, June) (Editors). Proposed Bacteriological Code of Nomenclature. Developed from proposals approved by International Committee on Bacteriological Nomenclature at the Meeting of the Third International Congress for Microbiology. Publication authorized in Plenary Session, pp. 61. Iowa State College Press, Ames, Iowa. U.S.A. Hathi Trust.
  • Script error: No such module "Citation/CS1". Reprinted 1949, Journal of General Microbiology 3, 444–462.
  • International Committee on Bacteriological Nomenclature. (1958, June). International code of nomenclature of bacteria and viruses. Ames, Iowa State College Press. BHL.
  • Lapage, S.P., Sneath, P.H.A., Lessel, E.F., Skerman, V.B.D., Seeliger, H.P.R. & Clark, W.A. (1975). International Code of Nomenclature of Bacteria. 1975 Revision. American Society of Microbiology, Washington, D.C.
  • Lapage, S.P., Sneath, P.H.A., Lessel, E.F., Skerman, V.B.D., Seeliger, H.P.R. & Clark, W.A. (1992). International Code of Nomenclature of Bacteria. Bacteriological Code. 1990 Revision. American Society for Microbiology, Washington, D.C. link.
  • Parker, C.T., Tindall, B.J. & Garrity, G.M., eds. (2019). International Code of Nomenclature of Prokaryotes. Prokaryotic Code (2008 Revision). International Journal of Systematic and Evolutionary Microbiology 69(1A): S1–S111. doi: 10.1099/ijsem.0.000778
  • Script error: No such module "Citation/CS1".

See also

References

Template:Reflist

External links

  1. ↑ Script error: No such module "citation/CS1".
  2. ↑ a b P. H. A. Sneath, 2003. A short history of the Bacteriological Code URL Template:Webarchive
  3. ↑ Script error: No such module "citation/CS1".
  4. ↑ VBD Skerman, Vicki McGowan, and PHA Sneath, 1989. Approved Lists of Bacterial Names, Amended edition Washington (DC): ASM Press
  5. ↑ Script error: No such module "Citation/CS1".
  6. ↑ Script error: No such module "Citation/CS1".
  7. ↑ Script error: No such module "Citation/CS1".
  8. ↑ Script error: No such module "Citation/CS1".
  9. ↑ Script error: No such module "Citation/CS1".
  10. ↑ Script error: No such module "Citation/CS1".
  11. ↑ a b Prokaryotic Code (2008 Revision), Rule 18a.
  12. ↑ Prokaryotic Code (2008 Revision), Rule 30.
  13. ↑ Script error: No such module "citation/CS1".
  14. ↑ Script error: No such module "citation/CS1".
  15. ↑ Prokaryotic Code (2008 Revision), Appendix 11.
  16. ↑ Script error: No such module "Citation/CS1".
  17. ↑ Script error: No such module "Citation/CS1".
  18. ↑ a b c d e Script error: No such module "Citation/CS1".
  19. ↑ Script error: No such module "citation/CS1".
Retrieved from "http://debianws.lexgopc.com/wiki143/index.php?title=International_Code_of_Nomenclature_of_Prokaryotes&oldid=1971920"