pubmed.ncbi.nlm.nih.gov

Revisions to the Classification, Nomenclature, and Diversity of Eukaryotes - PubMed

David Bass  2   3 , Christopher E Lane  4 , Julius Lukeš  5   6 , Conrad L Schoch  7 , Alexey Smirnov  8 , Sabine Agatha  9 , Cedric Berney  10 , Matthew W Brown  11   12 , Fabien Burki  13 , Paco Cárdenas  14 , Ivan Čepička  15 , Lyudmila Chistyakova  16 , Javier Del Campo  17 , Micah Dunthorn  18   19 , Bente Edvardsen  20 , Yana Eglit  21 , Laure Guillou  22 , Vladimír Hampl  23 , Aaron A Heiss  24 , Mona Hoppenrath  25 , Timothy Y James  26 , Anna Karnkowska  27 , Sergey Karpov  8   27 , Eunsoo Kim  24 , Martin Kolisko  5 , Alexander Kudryavtsev  8   28 , Daniel J G Lahr  29 , Enrique Lara  30   31 , Line Le Gall  32 , Denis H Lynn  33   34 , David G Mann  35   36 , Ramon Massana  17 , Edward A D Mitchell  30   37 , Christine Morrow  38 , Jong Soo Park  39 , Jan W Pawlowski  40 , Martha J Powell  41 , Daniel J Richter  42 , Sonja Rueckert  43 , Lora Shadwick  44 , Satoshi Shimano  45 , Frederick W Spiegel  44 , Guifré Torruella  46 , Noha Youssef  47 , Vasily Zlatogursky  8   48 , Qianqian Zhang  49

Affiliations

Revisions to the Classification, Nomenclature, and Diversity of Eukaryotes

Sina M Adl et al. J Eukaryot Microbiol. 2019 Jan.

Abstract

This revision of the classification of eukaryotes follows that of Adl et al., 2012 [J. Euk. Microbiol. 59(5)] and retains an emphasis on protists. Changes since have improved the resolution of many nodes in phylogenetic analyses. For some clades even families are being clearly resolved. As we had predicted, environmental sampling in the intervening years has massively increased the genetic information at hand. Consequently, we have discovered novel clades, exciting new genera and uncovered a massive species level diversity beyond the morphological species descriptions. Several clades known from environmental samples only have now found their home. Sampling soils, deeper marine waters and the deep sea will continue to fill us with surprises. The main changes in this revision are the confirmation that eukaryotes form at least two domains, the loss of monophyly in the Excavata, robust support for the Haptista and Cryptista. We provide suggested primer sets for DNA sequences from environmental samples that are effective for each clade. We have provided a guide to trophic functional guilds in an appendix, to facilitate the interpretation of environmental samples, and a standardized taxonomic guide for East Asian users.

Keywords: Algae; amoebae; biodiversity; ciliate; ecology; flagellate; fungus; microbiology; parasite; plankton; protozoa; systematics; taxonomy.

© 2019 International Society of Protistologists.

PubMed Disclaimer

Figures

Figure 1
Figure 1

Overview of the diversity of protists among eukaryotes. Amoebozoa, Nucletmycea, and Holozoa together form the Amorphea; The Diaphoretickes includes Crypista, Chloroplastida and Embryophyta, Rhodophyceae, Haptista, Rhizaria, Alveolata (Apicomplexa, Dinoflagellata, Ciliata), Stramenopiles and Phaeophyta.

Similar articles

Cited by

References

    1. Adl, M. S. , Leander, B. S. , Simpson, A. G. B. , Archibald, J. M. , Anderson, O. R. , Barta, J. R. , Bass, D. , Bowser, S. S. , Brugerolle, G. , Farmer, M. A. , Karpov, S. , Kolisko, M. , Lane, C. E. , Lodge, J. , Lynn, D. H. , Mann, D. G. , Meisterfeld, R. , Mendoza, L. , Moestrup, Ø. , Mozley‐Standridge, S. E. , Smirnov, A. V. & Spiegel, F. W. 2007. Diversity, nomenclature and taxonomy of protists. Syst. Biol., 56(4):684–689. - PubMed
    1. Adl, M. S. , Simpson, A. G. B. , Farmer, M. A. , Andersen, R. A. , Anderson, O. R. , Barta, J. R. , Bowser, S. S. , Brugerolle, G. , Fensome, R. A. , Fredericq, S. , James, T. Y. , Karpov, S. , Kugrens, P. , Krug, J. , Lane, C. E. , Lewis, L. A. , Lodge, J. , Lynn, D. H. , Mann, D. G. , McCourt, R. M. , Mendoza, L. , Moestrup, Ø. , Mozley‐Standridge, S. E. , Nerad, T. A. , Shearer, C. A. , Smirnov, A. V. , Spiegel, F. W. & Taylor, F. J. R. 2005. The new classification of eukaryotes with emphasis on the taxonomy of protists. J. Eukaryot. Microbiol., 52(5):399–451. - PubMed
    1. Adl, S. M. , Simpson, A. G. , Lane, C. E. , Lukeš, J. , Bass, D. , Bowser, S. S. , Brown, M. W. , Burki, F. , Dunthorn, M. , Hampl, V. , Heiss, A. , Hoppenrath, M. , Lara, E. , Le Gall, L. , Lynn, D. H. , McManus, H. , Mitchell, E. A. D. , Mozley‐Stanridge, S. E. , Parfrey, L. W. , Pawlowski, J. , Rueckert, S. , Shadwick, L. , Schoch, C. , Smirnov, A. & Spiegel, F. W. 2012. The revised classification of eukaryotes. J. Eukaryot. Microbiol., 59:429–493. - PMC - PubMed
    1. Bass, D. , Czech, L. , Williams, B. A. P. , Berney, C. , Dunthorn, M. , Mahé, F. , Torruella, G. , Stentiford, G. D. & Williams, T. A. 2018. Clarifying the relationships between microsporidia and cryptomycota. J. Euk. Microbiol., 65(6):773–782. - PMC - PubMed
    1. Berney, C. , Ciuprina, A. , Bender, S. , Brodie, J. , Edgcomb, V. , Kim, E. , Rajan, J. , Wegener Parfrey, L. , Adl, S. , Audic, S. , Bass, D. , Caron, D. A. , Cochrane, G. , Czech, L. , Dunthorn, M. , Geisen, S. , Oliver Glöckner, F. , Mahé, F. , Quast, C. , Kaye, J. Z. , Simpson, A. G. B. , Stamatakis, A. , del Campo, J. , Yilmaz, P. & de Vargas, C. 2017. UniEuk: time to speak a common language in protistology! J. Eukaryot. Microbiol., 64:407–411. 10.1111/jeu.12414 - DOI - PMC - PubMed

Publication types

MeSH terms