A robust phylogenetic framework for members of the order Legionellales and its main genera (Legionella, Aquicella, Coxiella and Rickettsiella) based on phylogenomic analyses and identification of molecular markers demarcating different clades

Two novel Rickettsia species of soft ticks in North Africa: ‘Candidatus Rickettsia africaseptentrionalis’ and ‘Candidatus Rickettsia mauretanica’

(2020) Marie Buysse et al.   Ticks and Tick-Borne Diseases

Reclassification of genus Izhakiella into the family Erwiniaceae based on phylogenetic and genomic analyses

(2020) Lingmin Jiang et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Protein signatures to identify the different genera within the Xanthomonadaceae family

(2020) Ania Margarita Cutiño-Jiménez et al.   BRAZILIAN JOURNAL OF MICROBIOLOGY

Tissue localization of Coxiella-like endosymbionts in three European tick species through fluorescence in situ hybridization

(2019) Marie Buysse et al.   Ticks and Tick-Borne Diseases

Reclassification of Burkholderia insecticola as Caballeronia insecticola comb. nov. and reliability of conserved signature indels as molecular synapomorphies

(2019) Anatoly P. Dobritsa et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Taking a Closer Look at the Valid Publication and Authorship of Legionella bozemanae Brenner et al. 1980, Fluoribacter bozemanae Garrity et al. 1980, Legionella pittsburghensis Pasculle et al. 1980, Legionella micdadei Hébert et al. 1980 and Tatlockia micdadei (Hébert et al. 1980) Garrity et al. 1980

(2019) B. J. Tindall   CURRENT MICROBIOLOGY

LPSN – List of Prokaryotic names with Standing in Nomenclature (bacterio.net), 20 years on

(2018) Aidan C. Parte   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms

(2018) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Phylogenetic studies of bacteria ( Rickettsia , Coxiella , and Anaplasma ) in Amblyomma and Dermacentor ticks in Thailand and their co-infection

(2018) Pornpiroon Nooroong et al.   Ticks and Tick-Borne Diseases

Phylogenomics and Comparative Genomic Studies Robustly Support Division of the Genus Mycobacterium into an Emended Genus Mycobacterium and Four Novel Genera

(2018) Radhey S. Gupta et al.   Frontiers in Microbiology

Coxiella burnetii: A Pathogenic Intracellular Acidophile

(2018) Edward I. Shaw et al.   MICROBIOLOGY-SGM

The Importance of Revisiting Legionellales Diversity

(2018) Olivier Duron et al.   TRENDS IN PARASITOLOGY

Identification of a conserved 8 aa insert in the PIP5K protein in the Saccharomycetaceae family of fungi and the molecular dynamics simulations and structural analysis to investigate its potential functional role

(2017) Bijendra Khadka et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

‘Candidatus Cochliophilus cryoturris’ (Coxiellaceae), a symbiont of the testate amoeba Cochliopodium minus

(2017) Han-Fei Tsao et al.   Scientific Reports

Targeting single-nucleotide polymorphisms in the 16S rRNA gene to detect and differentiate Legionella pneumophila and non-Legionella pneumophila species

(2016) Xiao-Yong Zhan et al.   ARCHIVES OF MICROBIOLOGY

Molecular epidemiology, phylogeny and evolution of Legionella

(2016) A. Khodr et al.   INFECTION GENETICS AND EVOLUTION

Description of ‘Candidatus Berkiella aquae’ and ‘Candidatus Berkiella cookevillensis’, two intranuclear bacteria of freshwater amoebae

(2016) Yohannes T. Mehari et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Genome-based phylogeny and taxonomy of the ‘Enterobacteriales’: proposal for Enterobacterales ord. nov. divided into the families Enterobacteriaceae, Erwiniaceae fam. nov., Pectobacteriaceae fam. nov., Yersiniaceae fam. nov., Hafniaceae fam. nov., Morganellaceae fam. nov., and Budviciaceae fam. nov.

(2016)   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Genomic analysis of 38 Legionella species identifies large and diverse effector repertoires

(2016) David Burstein et al.   NATURE GENETICS

Marine amoebae with cytoplasmic and perinuclear symbionts deeply branching in the Gammaproteobacteria

(2015) Frederik Schulz et al.   Scientific Reports

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Insertion/Deletion-Based Approach for the Detection of Escherichia coli O157:H7 in Freshwater Environments

(2014) Shirley Y. Wong et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Conserved signature indels and signature proteins as novel tools for understanding microbial phylogeny and systematics: identification of molecular signatures that are specific for the phytopathogenic genera Dickeya, Pectobacterium and Brenneria

(2014) H. S. Naushad et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Diversity and global distribution of the Coxiella intracellular bacterium in seabird ticks

(2014) Olivier Duron et al.   Ticks and Tick-Borne Diseases

Molecular signatures for the phylum (class) Thermotogae and a proposal for its division into three orders (Thermotogales, Kosmotogales ord. nov. and Petrotogales ord. nov.) containing four families (Thermotogaceae, Fervidobacteriaceae fam. nov., Kosmotogaceae fam. nov. and Petrotogaceae fam. nov.) and a new genus Pseudothermotoga gen. nov. with five new combinations

(2013) Vaibhav Bhandari et al.   ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY

Microbial genomic taxonomy

(2013) Cristiane C Thompson et al.   BMC GENOMICS

CD-HIT: accelerated for clustering the next-generation sequencing data

(2012) Limin Fu et al.   BIOINFORMATICS

Genome Sequence of Diplorickettsia massiliensis, an Emerging Ixodes ricinus-Associated Human Pathogen

(2012) M. J. Mathew et al.   JOURNAL OF BACTERIOLOGY

Diplorickettsia massiliensis as a human pathogen

(2011) G. Subramanian et al.   EUROPEAN JOURNAL OF CLINICAL MICROBIOLOGY & INFECTIOUS DISEASES

Identification of a Bacillus anthracis specific indel in the yeaC gene and development of a rapid pyrosequencing assay for distinguishing B. anthracis from the B. cereus group

(2011) Nadia Z. Ahmod et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega

(2011) F. Sievers et al.   Molecular Systems Biology

T-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension

(2011) P. Di Tommaso et al.   NUCLEIC ACIDS RESEARCH

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

A Novel Obligate Intracellular Gamma-Proteobacterium Associated with Ixodid Ticks, Diplorickettsia massiliensis, Gen. Nov., Sp. Nov

(2010) Oleg Mediannikov et al.   PLoS One

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

(2009) S. Capella-Gutierrez et al.   BIOINFORMATICS

Conserved inserts in the Hsp60 (GroEL) and Hsp70 (DnaK) proteins are essential for cellular growth

(2009) Bhag Singh et al.   MOLECULAR GENETICS AND GENOMICS

An Improved General Amino Acid Replacement Matrix

(2008) S. Q. Le et al.   MOLECULAR BIOLOGY AND EVOLUTION

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