Literature DB >> 25533848

Microbial taxonomy in the post-genomic era: rebuilding from scratch?

Cristiane C Thompson1, Gilda R Amaral, Mariana Campeão, Robert A Edwards, Martin F Polz, Bas E Dutilh, David W Ussery, Tomoo Sawabe, Jean Swings, Fabiano L Thompson.   

Abstract

Microbial taxonomy should provide adequate descriptions of bacterial, archaeal, and eukaryotic microbial diversity in ecological, clinical, and industrial environments. Its cornerstone, the prokaryote species has been re-evaluated twice. It is time to revisit polyphasic taxonomy, its principles, and its practice, including its underlying pragmatic species concept. Ultimately, we will be able to realize an old dream of our predecessor taxonomists and build a genomic-based microbial taxonomy, using standardized and automated curation of high-quality complete genome sequences as the new gold standard.

Mesh：

Year:  2014        PMID： 25533848     DOI： 10.1007/s00203-014-1071-2

Source DB:  PubMed          Journal:  Arch Microbiol        ISSN： 0302-8933            Impact factor:   2.552


  34 in total

1.  Epidemic Spread of Symbiotic and Non-Symbiotic Bradyrhizobium Genotypes Across California.

Authors:  A C Hollowell; J U Regus; K A Gano; R Bantay; D Centeno; J Pham; J Y Lyu; D Moore; A Bernardo; G Lopez; A Patil; S Patel; Y Lii; J L Sachs
Journal:  Microb Ecol       Date:  2015-10-14       Impact factor: 4.552

2.  A null model for microbial diversification.

Authors:  Timothy J Straub; Olga Zhaxybayeva
Journal:  Proc Natl Acad Sci U S A       Date:  2017-06-19       Impact factor: 11.205

Review 3.  Bacteriophages and its applications: an overview.

Authors:  Sonika Sharma; Soumya Chatterjee; Sibnarayan Datta; Rishika Prasad; Dharmendra Dubey; Rajesh Kumar Prasad; Mohan G Vairale
Journal:  Folia Microbiol (Praha)       Date:  2016-10-08       Impact factor: 2.099

4.  Genome-Based Taxonomic Classification of the Phylum Actinobacteria.

Authors:  Imen Nouioui; Lorena Carro; Marina García-López; Jan P Meier-Kolthoff; Tanja Woyke; Nikos C Kyrpides; Rüdiger Pukall; Hans-Peter Klenk; Michael Goodfellow; Markus Göker
Journal:  Front Microbiol       Date:  2018-08-22       Impact factor: 5.640

5.  High Bacterial Diversity and Phylogenetic Novelty in Dark Euxinic Freshwaters Analyzed by 16S Tag Community Profiling.

Authors:  Tomàs Llorens-Marès; Xavier Triadó-Margarit; Carles M Borrego; Chris L Dupont; Emilio O Casamayor
Journal:  Microb Ecol       Date:  2015-11-09       Impact factor: 4.552

6.  Identification and Characterization of Mycobacterial Species Using Whole-Genome Sequences.

Authors:  Marco A Riojas; Andrew M Frank; Samuel R Greenfield; Stephen P King; Conor J Meehan; Michael Strong; Alice R Wattam; Manzour Hernando Hazbón
Journal:  Methods Mol Biol       Date:  2021

7.  Revisiting the taxonomy of the genus Elizabethkingia using whole-genome sequencing, optical mapping, and MALDI-TOF, along with proposal of three novel Elizabethkingia species: Elizabethkingia bruuniana sp. nov., Elizabethkingia ursingii sp. nov., and Elizabethkingia occulta sp. nov.

Authors:  Ainsley C Nicholson; Christopher A Gulvik; Anne M Whitney; Ben W Humrighouse; James Graziano; Brian Emery; Melissa Bell; Vladimir Loparev; Phalasy Juieng; Jarrett Gartin; Chantal Bizet; Dominique Clermont; Alexis Criscuolo; Sylvain Brisse; John R McQuiston
Journal:  Antonie Van Leeuwenhoek       Date:  2017-08-30       Impact factor: 2.271

Review 8.  Taxonomically Characterized and Validated Bacterial Species Based on 16S rRNA Gene Sequences from India During the Last Decade.

Authors:  Princy Hira; Priya Singh; Anil Kumar Pinnaka; Suresh Korpole; Rup Lal
Journal:  Indian J Microbiol       Date:  2019-12-03       Impact factor: 2.461

9.  Phylogenomic Analyses of Members of the Widespread Marine Heterotrophic Genus Pseudovibrio Suggest Distinct Evolutionary Trajectories and a Novel Genus, Polycladidibacter gen. nov.

Authors:  I Hinger; S Romano; R Ansorge; M Mussmann
Journal:  Appl Environ Microbiol       Date:  2020-02-03       Impact factor: 4.792

10.  Classification of Aspergillus, Penicillium, Talaromyces and related genera (Eurotiales): An overview of families, genera, subgenera, sections, series and species.

Authors:  J Houbraken; S Kocsubé; C M Visagie; N Yilmaz; X-C Wang; M Meijer; B Kraak; V Hubka; K Bensch; R A Samson; J C Frisvad
Journal:  Stud Mycol       Date:  2020-06-27       Impact factor: 16.097
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