The eukaryotic system in the third update of the interface “Eukaryotic supergroups: Taxonomy/Biotechnology interface”: Formal procedures for rank changes
Ivan V. Zmitrovich , Vladimir V. Perelygin , Mikhail V. Zharikov
Pharmacy Formulas ›› 2024, Vol. 6 ›› Issue (4) : 58 -75.
The problem of coordinating the ranks of higher eukaryotic taxa was specifically considered by us in the monograph and a recent article. However, we omitted most of the formal descriptions of the proposed taxa in the new rank. The purpose of this article is a formal description of a number of taxa established by us in the monograph “Nomenclature and rank correlation of higher taxa of eukaryotes and subsequent interface updates”. Here we formally described such taxa as Eocorticata regn. nov., Tsaralia regn. nov., Apusomonadea intraregn. nov., Breviatea intraregn. nov., Eochromista superphyl. nov., Zoosporia superphyl. nov., Eurhodophyta div. nov., Proteorhodophyta div. nov., Anaeramoebea phyl. et cl. nov., Calkinsea phyl. nov., Meteora phyl. nov., Syssomonadea phyl. nov., Chlorodendrophytina subdiv. nov., Chloropicophytina subdiv. nov., Dikaryomycotina subdiv. nov., Pedinophytina subdiv. nov., Picocystophytina subdiv. nov., Sanchytriomycotina subdiv. nov., Agaricomycia supercl. nov., Calcarisporiellomycia supercl. nov., Ceratiomyxomycia supercl. nov., Chytridiomycia supercl. nov., Entomophthoromycia supercl. nov., Entorrhizomycia supercl. nov., Kickxellomycia supercl. nov., Mortierellomycia supercl. nov., Mucoromycia supercl. nov., Myxogasteromycia supercl. nov., Monoblepharomycia supercl. nov., Neocallimastigomycia supercl. nov., Saccharomycia supercl. nov., Acytosteliomycetes cl. nov., Liceomycetes cl. nov., Microheliellida cl. nov., Paratrimastigidea cl. nov., Protosporangiomycetes cl. nov., Pycnococcophyceae cl. nov. The main trends of further improvement of the rank structure of the eukaryote tree we see in 1) some multiplication of the supregroups described for the few taxa now located among the Amoebozoans and TSAR, as well as many environmental sequences; 2) further rationalization of the Fungi and Metazoa system using intercalary taxonomic categories (including additional and not prescribed in both nomenclatural codes ones), and 3) further automatization of the ranking procedure and solving the problem of rank estimating for distant “orphan” taxa.
biotechnology/taxonomy interface / eukaryote tree / kingdoms / phyla / taxonomical ranks
| [1] |
Sweetlove L. Number of species on Earth tagged at 8.7 million. Nature. 2011. doi: 10.1038/news.2011 |
| [2] |
Sweetlove L. Number of species on Earth tagged at 8.7 million // Nature. 2011. doi: 10.1038/news.2011 |
| [3] |
Starobogatov Ya.I. Natural system and artificial systems (goal and principles of taxonomist). Vestnik zoologii. 1989. No. 6. P. 3–7 (in Russ.). |
| [4] |
Старобогатов Я. И. Естественная система и искусственные системы (цель и принципы работы систематика) // Вестник зоологии. 1989. № 6. С. 3–7. |
| [5] |
Zmitrovich I. V., Psurtseva N. V., Belova N. V. Evolutionary and taxonomic aspects of the search and study of lignin-destroying fungi as active producers of oxidative enzymes. Mikologiya i fitopatologiya. 2007. V. 41 (1). P. 57–78 (in Russ.). |
| [6] |
Змитрович И. В., Псурцева Н. В., Белова Н. В. Эволюционно-таксономические аспекты поиска и изучения лигнинразрушающих грибов – активных продуцентов окислительных ферментов // Микология и фитопатология. 2007. Т. 41. Вып. 1. С. 57–78. |
| [7] |
Zmitrovich I. V., Perelygin V. V., Zharikov M. V. Supergroups of eukaryotes through a biotechnologist’s look. The system of eukaryotes and the need for a taxonomic/biotechnological interface. Pharmacy Formulas. 2022. V. 3(4). P. 52–65 (in Russ.). doi: 10.17816/phf101311 |
| [8] |
Змитрович И. В., Перелыгин В. В., Жариков М. В. Супергруппы эукариот глазами биотехнолога. Система эукариот и необходимость создания таксономического/биотехнологического интерфейса // Формулы Фармации. 2022. Т. 3. № 4. С. 52–65. doi: 10.17816/phf101311 |
| [9] |
Zmitrovich I. V., Perelygin V. V., Zharikov M. V. Eukaryotic supergroups: Taxonomy/Biotechnology interface. 2022. https://supergroups.ru |
| [10] |
Zmitrovich I. V., Perelygin V. V., Zharikov M. V. Eukaryotic supergroups: Taxonomy/Biotechnology interface. 2023. https://supergroups.ru |
| [11] |
Zmitrovich I. V., Perelygin V. V., Zharikov M. V. Eukaryotic supergroups: Taxonomy/Biotechnology interface. 2024. https://supergroups.ru |
| [12] |
Bremer K., Humphries C. J., Mishler B. D., Churchill S. P. On cladistic relationships in green plants. Taxon. 1987. V. 36 (2). P. 339–349. |
| [13] |
Bremer K., Humphries C. J., Mishler B. D., Churchill S. P. On cladistic relationships in green plants // Taxon. 1987. V. 36 (2). P. 339–349. |
| [14] |
Chase M. W., Reveal J. L. A phylogenetic classification of the land plants to accompany APG III. Bot. J. Linn. Soc. 2009. V. 161 (2). P. 122–127. |
| [15] |
Chase M. W., Reveal J. L. A phylogenetic classification of the land plants to accompany APG III // Bot. J. Linn. Soc. 2009. V. 161 (2). P. 122–127. |
| [16] |
Zmitrovich I. V., Perelygin V. V., Zharikov M. V. Nomenclature and rank correlation of higher taxa of eukaryotes: monograph. Moscow: INFRA-M, 2022. |
| [17] |
Zmitrovich I. V., Perelygin V. V., Zharikov M. V. Nomenclature and rank correlation of higher taxa of eukaryotes: monograph. Moscow: INFRA-M, 2022. 183 p. |
| [18] |
Zmitrovich I. V., Perelygin V. V., Zharikov M. V. System of eukaryotes in the third update of the interface “Eukaryotic supergroups: Taxonomy/Biotechnology interface” (2024) // Pharmacy Formulas. 2024. V. 6 (3). P. 48–54 (in Russ.). doi: 10.17816/phf639995 |
| [19] |
Queiroz de K., Cantino P., Gauthier J. (eds). Phylonyms. A companion to the PhyloCode. 1st edn. CRC Press, Boca Raton, 2020. |
| [20] |
Queiroz de K., Cantino P., Gauthier J. (eds). Phylonyms. A companion to the PhyloCode. 1st edn. CRC Press, Boca Raton, 2020. 281 p. |
| [21] |
Ride W. D. L., Cogger H. G., Dupuis C. et al. International Code of Zoological Nomenclature. Fourth edition. Tipografia La Ga-rangola, Padova, 2000. |
| [22] |
Ride W. D.L., Cogger H. G., Dupuis C. et al. International Code of Zoological Nomenclature. Fourth edition. Tipografia La Ga-rangola, Padova, 2000. |
| [23] |
Turland N. J., Wiersema J. H., Barrie F. R. et al. International Code of Nomenclature for algae, fungi, and plants (Shenzhen Code). Regnum Vegetabile 159. Koeltz Botanical Books, Glashütten, 2018. |
| [24] |
Linnaeus C. Species Plantarum. T. 2. L. Salm, Holm, 1753. |
| [25] |
Fries E. M. Systema mycologicum, sistens fungorum ordines, genera et species, hucusque cognitas, quas ad normam methodi naturalis determinavit, disposuii atque descripsit. V. 1. Gryphiswald, 1821. |
| [26] |
Persoon C. Synopsis methodica fungorum. Gottingae, 1801. |
| [27] |
May T. W., Redhead S. A., Bensch K. et al. Chapter F of the International Code of Nomenclature for algae, fungi, and plants as approved by the 11th International Mycological Congress, San Juan, Puerto Rico, July 2018. IMA Fungus. 2019. V. 10. P. 21. doi: 10.1186/s43008-019-0019-1 |
| [28] |
May T. W., Redhead S. A., Bensch K. et al. Chapter F of the International Code of Nomenclature for algae, fungi, and plants as approved by the 11th International Mycological Congress, San Juan, Puerto Rico, July 2018 // IMA Fungus. 2019. V. 10. P. 21. doi: 10.1186/s43008-019-0019-1 |
| [29] |
Moore R. T. Proposal for the recognition of super ranks. Taxon. 1974. V. 23 (4). P. 650–652. |
| [30] |
Moore R. T. Proposal for the recognition of super ranks // Taxon. 1974. V. 23 (4). P. 650–652. |
| [31] |
Yubuki N., Edgcomb V. P., Bernhard J. M. et al. Ultrastructure and molecular phylogeny of Calkinsia aureus: cellular identity of a novel clade of deep-sea euglenozoans with epibiotic bacteria. BMC Microbiol. 2009. V. 9. Art. 16. doi: 10.1186/1471-2180-9-16 |
| [32] |
Brown M. W., Sharpe S. C., Silberman J. D. et al. Phylogenomics demonstrates that breviate flagellates are related to opisthokonts and apusomonads. Proc. Roy. Soc. London B. Biol. Sci. 2013. V. 280 (1769). P. 17–55. doi: 10.1098 /rspb.2013.1755 |
| [33] |
Brown M. W., Sharpe S. C., Silberman J. D. et al. Phylogenomics demonstrates that breviate flagellates are related to opisthokonts and apusomonads // Proc. Roy. Soc. London B. Biol. Sci. 2013. V. 280 (1769). P. 17–55. doi: 10.1098 /rspb.2013.1755 |
| [34] |
Sheikh S., Thulin M., Cavender J. C. et al. A new classification of the Dictyostelids. Protist. 2018. V. 169 (1). P. 1–28. doi: 10.1016/j.protis.2017.11.001. |
| [35] |
Sheikh S., Thulin M., Cavender J. C. et al. A new classification of the Dictyostelids // Protist. 2018. V. 169 (1). P. 1–28. doi: 10.1016/j.protis.2017.11.001. |
| [36] |
Kendrick B. The fifth kingdom. Waterloo, 1985. |
| [37] |
Kendrick B. The fifth kingdom. Waterloo, 1985. 364 p. |
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