标题
Microbial taxonomy in the post-genomic era: Rebuilding from scratch?
作者
关键词
Bacteria, Archaea, Microbes, Taxonomy, Genomics, Evolution, Open access
出版物
ARCHIVES OF MICROBIOLOGY
Volume 197, Issue 3, Pages 359-370
出版商
Springer Nature
发表日期
2014-12-22
DOI
10.1007/s00203-014-1071-2
参考文献
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注意:仅列出部分参考文献,下载原文获取全部文献信息。- Whole-Genome Assembly of Klebsiella pneumoniae Coproducing NDM-1 and OXA-232 Carbapenemases Using Single-Molecule, Real-Time Sequencing
- (2014) Yohei Doi et al. ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
- Time to revisit polyphasic taxonomy
- (2014) Peter Vandamme et al. ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY
- Comparative genomics of 274 Vibrio cholerae genomes reveals mobile functions structuring three niche dimensions
- (2014) Bas E Dutilh et al. BMC GENOMICS
- Complete Genome Sequence of Enterococcus mundtii QU 25, an Efficient L-(+)-Lactic Acid-Producing Bacterium
- (2014) Y. Shiwa et al. DNA RESEARCH
- A polyphasic strategy incorporating genomic data for the taxonomic description of novel bacterial species
- (2014) D. Ramasamy et al. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
- Genotype to phenotype: identification of diagnostic vibrio phenotypes using whole genome sequences
- (2014) G. R. S. Amaral et al. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
- Integrating genomics into the taxonomy and systematics of the Bacteria and Archaea
- (2014) J. Chun et al. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
- Phylogeny of the class Actinobacteria revisited in the light of complete genomes. The orders 'Frankiales' and Micrococcales should be split into coherent entities: proposal of Frankiales ord. nov., Geodermatophilales ord. nov., Acidothermales ord. nov. and Nakamurellales ord. nov.
- (2014) A. Sen et al. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
- Benchmarking of Methods for Genomic Taxonomy
- (2014) M. V. Larsen et al. JOURNAL OF CLINICAL MICROBIOLOGY
- High-resolution metagenomics
- (2014) Eran Mick et al. NATURE BIOTECHNOLOGY
- Explaining microbial genomic diversity in light of evolutionary ecology
- (2014) Otto X. Cordero et al. NATURE REVIEWS MICROBIOLOGY
- The Complete Genome Sequence of Escherichia coli EC958: A High Quality Reference Sequence for the Globally Disseminated Multidrug Resistant E. coli O25b:H4-ST131 Clone
- (2014) Brian M. Forde et al. PLoS One
- Single-Cell Genomics Reveals Hundreds of Coexisting Subpopulations in Wild Prochlorococcus
- (2014) N. Kashtan et al. SCIENCE
- Ordering microbial diversity into ecologically and genetically cohesive units
- (2014) B. Jesse Shapiro et al. TRENDS IN MICROBIOLOGY
- Photobacterium sanctipaulisp. nov. isolated from bleachedMadracis decactis(Scleractinia) in the St Peter & St Paul Archipelago, Mid-Atlantic Ridge, Brazil
- (2014) Ana Paula B. Moreira et al. PeerJ
- Deposit of microbial strains in public service collections as part of the publication process to underpin good practice in science
- (2014) Erko Stackebrandt et al. SpringerPlus
- Fuzzy species revisited
- (2013) William P Hanage BMC BIOLOGY
- Microbial genomic taxonomy
- (2013) Cristiane C Thompson et al. BMC GENOMICS
- Explaining microbial phenotypes on a genomic scale: GWAS for microbes
- (2013) B. E. Dutilh et al. Briefings in Functional Genomics
- Genomic Taxonomy of the Genus Prochlorococcus
- (2013) Cristiane C. Thompson et al. MICROBIAL ECOLOGY
- Insights into the phylogeny and coding potential of microbial dark matter
- (2013) Christian Rinke et al. NATURE
- MetaRef: a pan-genomic database for comparative and community microbial genomics
- (2013) Katherine Huang et al. NUCLEIC ACIDS RESEARCH
- IMG 4 version of the integrated microbial genomes comparative analysis system
- (2013) Victor M. Markowitz et al. NUCLEIC ACIDS RESEARCH
- The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST)
- (2013) Ross Overbeek et al. NUCLEIC ACIDS RESEARCH
- Multilocus Sequence Analysis of Nectar Pseudomonads Reveals High Genetic Diversity and Contrasting Recombination Patterns
- (2013) Sergio Álvarez-Pérez et al. PLoS One
- Horizontal gene transfer and the evolution of bacterial and archaeal population structure
- (2013) Martin F. Polz et al. TRENDS IN GENETICS
- Comparative Genomics of Wolbachia and the Bacterial Species Concept
- (2013) Kirsten Maren Ellegaard et al. PLoS Genetics
- PhenoLink - a web-tool for linking phenotype to ~omics data for bacteria: application to gene-trait matching for Lactobacillus plantarum strains
- (2012) Jumamurat R Bayjanov et al. BMC GENOMICS
- Global biogeography of SAR11 marine bacteria
- (2012) Mark V Brown et al. Molecular Systems Biology
- Transforming clinical microbiology with bacterial genome sequencing
- (2012) Xavier Didelot et al. NATURE REVIEWS GENETICS
- Public good dynamics drive evolution of iron acquisition strategies in natural bacterioplankton populations
- (2012) O. X. Cordero et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Population Genomics of Early Events in the Ecological Differentiation of Bacteria
- (2012) B. J. Shapiro et al. SCIENCE
- On the fitness of microbial taxonomy
- (2012) Javier Tamames et al. TRENDS IN MICROBIOLOGY
- Patterns of Gene Flow Define Species of Thermophilic Archaea
- (2012) Hinsby Cadillo-Quiroz et al. PLOS BIOLOGY
- Prokaryotic systematics in the genomics era
- (2011) Xiao-Yang Zhi et al. ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY
- Merging Taxonomy with Ecological Population Prediction in a Case Study of Vibrionaceae
- (2011) Sarah P. Preheim et al. APPLIED AND ENVIRONMENTAL MICROBIOLOGY
- Bacterial species may exist, metagenomics reveal
- (2011) Alejandro Caro-Quintero et al. ENVIRONMENTAL MICROBIOLOGY
- Towards a taxonomy of Bacteria and Archaea based on interactive and cumulative data repositories
- (2011) Ramon Rosselló-Móra ENVIRONMENTAL MICROBIOLOGY
- Prokaryotic taxonomy in the sequencing era - the polyphasic approach revisited
- (2011) Peter Kämpfer et al. ENVIRONMENTAL MICROBIOLOGY
- Towards a genome based taxonomy of Mycoplasmas
- (2011) Cristiane C. Thompson et al. INFECTION GENETICS AND EVOLUTION
- The genus Listonella MacDonell and Colwell 1986 is a later heterotypic synonym of the genus Vibrio Pacini 1854 (Approved Lists 1980) - a taxonomic opinion
- (2011) F. L. Thompson et al. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
- The Genomes OnLine Database (GOLD) v.4: status of genomic and metagenomic projects and their associated metadata
- (2011) I. Pagani et al. NUCLEIC ACIDS RESEARCH
- Comparative genomic analysis reveals evidence of two novel Vibrio species closely related to V. cholerae
- (2010) Bradd J Haley et al. BMC MICROBIOLOGY
- AMD biofilms: using model communities to study microbial evolution and ecological complexity in nature
- (2010) Vincent J Denef et al. ISME Journal
- En route to a genome-based classification of Archaea and Bacteria?
- (2010) H.-P. Klenk et al. SYSTEMATIC AND APPLIED MICROBIOLOGY
- Standard operating procedure for computing pangenome trees
- (2010) Lars Snipen et al. Standards in Genomic Sciences
- Digital DNA-DNA hybridization for microbial species delineation by means of genome-to-genome sequence comparison
- (2010) Alexander F. Auch et al. Standards in Genomic Sciences
- Genomic taxonomy of vibrios
- (2009) Cristiane C Thompson et al. BMC EVOLUTIONARY BIOLOGY
- On the origin of prokaryotic species
- (2009) W. F. Doolittle et al. GENOME RESEARCH
- Notes on the characterization of prokaryote strains for taxonomic purposes
- (2009) B. J. Tindall et al. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
- The Modern Concept of the Procaryote
- (2009) W. B. Whitman JOURNAL OF BACTERIOLOGY
- Universal species concept: pipe dream or a step toward unifying biology?
- (2009) James T. Staley JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY
- A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea
- (2009) Dongying Wu et al. NATURE
- Explaining microbial population genomics through phage predation
- (2009) Francisco Rodriguez-Valera et al. NATURE REVIEWS MICROBIOLOGY
- Assembling the Marine Metagenome, One Cell at a Time
- (2009) Tanja Woyke et al. PLoS One
- The Bacterial Species Challenge: Making Sense of Genetic and Ecological Diversity
- (2009) C. Fraser et al. SCIENCE
- The RAST Server: Rapid Annotations using Subsystems Technology
- (2008) Ramy K Aziz et al. BMC GENOMICS
- Genomic patterns of recombination, clonal divergence and environment in marine microbial populations
- (2008) Konstantinos T Konstantinidis et al. ISME Journal
- Hybridization, ecological races and the nature of species: empirical evidence for the ease of speciation
- (2008) J. Mallet PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
- Resource Partitioning and Sympatric Differentiation Among Closely Related Bacterioplankton
- (2008) D. E. Hunt et al. SCIENCE
- The All-Species Living Tree project: A 16S rRNA-based phylogenetic tree of all sequenced type strains
- (2008) Pablo Yarza et al. SYSTEMATIC AND APPLIED MICROBIOLOGY
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