Literature DB >> 26902077

Modest proposals to expand the type material for naming of prokaryotes.

William B Whitman1.   

Abstract

Gene sequences are herein proposed to be suitable type material for the description of prokaryotic species. This proposal follows from the principles described in the International Code of Nomenclature of Prokaryotes. This simple change in the Code will allow for the stability of naming of Candidatus taxa, endosymbionts and uncultivated prokaryotes and will meet an important need within microbiology. In addition, modern molecular techniques allow the identification of genera even when the species remain obscure. The Code should be modified to allow gene sequences to serve as the type material for genera in the absence of described species. This simple change will unite the nomenclature of the cultured and uncultured prokaryotes into a single, robust system.

Mesh:

Year:  2016        PMID: 26902077     DOI: 10.1099/ijsem.0.000980

Source DB:  PubMed          Journal:  Int J Syst Evol Microbiol        ISSN: 1466-5026            Impact factor:   2.747


  18 in total

1.  A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life.

Authors:  Donovan H Parks; Maria Chuvochina; David W Waite; Christian Rinke; Adam Skarshewski; Pierre-Alain Chaumeil; Philip Hugenholtz
Journal:  Nat Biotechnol       Date:  2018-08-27       Impact factor: 54.908

2.  Reply to the commentary "Uncultivated microbes-in need of their own nomenclature?"

Authors:  Konstantinos T Konstantinidis; Ramon Rosselló-Móra; Rudolf Amann
Journal:  ISME J       Date:  2018-01-15       Impact factor: 10.302

3.  Species Identification in Plant-Associated Prokaryotes and Fungi Using DNA.

Authors:  Patrik Inderbitzin; Barbara Robbertse; Conrad L Schoch
Journal:  Phytobiomes J       Date:  2020-03-23

4.  Multiple energy sources and metabolic strategies sustain microbial diversity in Antarctic desert soils.

Authors:  Maximiliano Ortiz; Pok Man Leung; Guy Shelley; Thanavit Jirapanjawat; Philipp A Nauer; Marc W Van Goethem; Sean K Bay; Zahra F Islam; Karen Jordaan; Surendra Vikram; Steven L Chown; Ian D Hogg; Thulani P Makhalanyane; Rhys Grinter; Don A Cowan; Chris Greening
Journal:  Proc Natl Acad Sci U S A       Date:  2021-11-09       Impact factor: 11.205

Review 5.  Development of the SeqCode: A proposed nomenclatural code for uncultivated prokaryotes with DNA sequences as type.

Authors:  William B Whitman; Maria Chuvochina; Brian P Hedlund; Philip Hugenholtz; Konstantinos T Konstantinidis; Alison E Murray; Marike Palmer; Donovan H Parks; Alexander J Probst; Anna-Louise Reysenbach; Luis M Rodriguez-R; Ramon Rossello-Mora; Iain Sutcliffe; Stephanus N Venter
Journal:  Syst Appl Microbiol       Date:  2022-07-20       Impact factor: 4.064

6.  Atmospheric trace gases support primary production in Antarctic desert surface soil.

Authors:  Mukan Ji; Chris Greening; Inka Vanwonterghem; Carlo R Carere; Sean K Bay; Jason A Steen; Kate Montgomery; Thomas Lines; John Beardall; Josie van Dorst; Ian Snape; Matthew B Stott; Philip Hugenholtz; Belinda C Ferrari
Journal:  Nature       Date:  2017-12-06       Impact factor: 49.962

7.  A complete domain-to-species taxonomy for Bacteria and Archaea.

Authors:  Donovan H Parks; Maria Chuvochina; Pierre-Alain Chaumeil; Christian Rinke; Aaron J Mussig; Philip Hugenholtz
Journal:  Nat Biotechnol       Date:  2020-04-27       Impact factor: 54.908

8.  A standardized archaeal taxonomy for the Genome Taxonomy Database.

Authors:  Christian Rinke; Maria Chuvochina; Aaron J Mussig; Pierre-Alain Chaumeil; Adrián A Davín; David W Waite; William B Whitman; Donovan H Parks; Philip Hugenholtz
Journal:  Nat Microbiol       Date:  2021-06-21       Impact factor: 17.745

9.  Uncultivated microbes-in need of their own nomenclature?

Authors:  Aharon Oren; George M Garrity
Journal:  ISME J       Date:  2017-10-20       Impact factor: 11.217

Review 10.  Prokaryotic taxonomy and nomenclature in the age of big sequence data.

Authors:  Philip Hugenholtz; Maria Chuvochina; Aharon Oren; Donovan H Parks; Rochelle M Soo
Journal:  ISME J       Date:  2021-04-06       Impact factor: 10.302

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