Bacterial nomenclature in the era of genomics

被引:4
|
作者
Pallen, M. J. [1 ,2 ,3 ]
机构
[1] Quadram Inst Biosci, Norwich, Norfolk, England
[2] Univ East Anglia, Norwich Med Sch, Norwich Res Pk, Norwich, Norfolk, England
[3] Univ Surrey, Sch Vet Med, Guildford, Surrey, England
基金
英国医学研究理事会;
关键词
Bacterial nomenclature; bacterial taxonomy; bioinformatics; metagenomics; microbial genomics; GENDER AGREEMENT; INTERNATIONAL CODE; ARTICLE; 31.2.2; NAMES; CONSERVATION; EPITHETS; COMBINATIONS; PROKARYOTES; PROPOSALS; REQUEST;
D O I
10.1016/j.nmni.2021.100942
中图分类号
R51 [传染病];
学科分类号
100401 ;
摘要
The remarkable success of taxonomic discovery, powered by culturomics, genomics and metagenomics, creates a pressing need for new bacterial names while holding a mirror up to the slow pace of change in bacterial nomenclature. Here, I take a fresh look at bacterial nomenclature, exploring how we might create a system fit for the age of genomics, playing to the strengths of current practice while minimizing difficulties. Adoption of linguistic pragmatism-obeying the rules while treating recommendations as merely optional-will make it easier to create names derived from descriptions, from people or places or even arbitrarily. Simpler protologues and a relaxed approach to recommendations will also remove much of the need for expert linguistic quality control. Automated computer-based approaches will allow names to be created en masse before they are needed while also relieving microbiologists of the need for competence in Latin. The result will be a system that is accessible, inclusive and digital, while also fully capable of naming the unnamed millions of bacteria. (C) 2021 The Author(s). Published by Elsevier Ltd.
引用
收藏
页数:11
相关论文
共 50 条
  • [1] Clinical detection and characterization of bacterial pathogens in the genomics era
    Fournier, Pierre-Edouard
    Dubourg, Gregory
    Raoult, Didier
    [J]. GENOME MEDICINE, 2014, 6 : 1 - 15
  • [2] Clinical detection and characterization of bacterial pathogens in the genomics era
    Pierre-Edouard Fournier
    Gregory Dubourg
    Didier Raoult
    [J]. Genome Medicine, 6
  • [3] High-throughput bacterial functional genomics in the sequencing era
    Gray, Andrew N.
    Koo, Byoung-Mo
    Shiver, Anthony L.
    Peters, Jason M.
    Osadnik, Hendrik
    Gross, Carol A.
    [J]. CURRENT OPINION IN MICROBIOLOGY, 2015, 27 : 86 - 95
  • [4] Structural cuticular proteins from arthropods: Annotation, nomenclature, and sequence characteristics in the genomics era
    Willis, Judith H.
    [J]. INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY, 2010, 40 (03) : 189 - 204
  • [5] Genomics - A crisis in postgenomic nomenclature
    Fields, S
    Johnston, M
    [J]. SCIENCE, 2002, 296 (5568) : 671 - 672
  • [6] Precision nomenclature for the new genomics
    Lewin, Harris A.
    Graves, Jennifer A. Marshall
    Ryder, Oliver A.
    Graphodatsky, Alexander S.
    O'Brien, Stephen J.
    [J]. GIGASCIENCE, 2019, 8 (08):
  • [7] Nomenclature: The language of Genomics.
    Wain, HM
    Bruford, EA
    Lovering, RC
    Lush, M
    Wright, MW
    Povey, MS
    [J]. AMERICAN JOURNAL OF HUMAN GENETICS, 2001, 69 (04) : 451 - 451
  • [8] Genomics - Defining genes in the genomics era
    Snyder, M
    Gerstein, M
    [J]. SCIENCE, 2003, 300 (5617) : 258 - 260
  • [9] BACTERIAL GENOMICS
    COLE, ST
    SAINTGIRONS, I
    [J]. FEMS MICROBIOLOGY REVIEWS, 1994, 14 (02) : 139 - 160
  • [10] CHANGING BACTERIAL NOMENCLATURE
    不详
    [J]. AUSTRALIAN VETERINARY JOURNAL, 1989, 66 (06) : A180 - A180