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      Candidatus Sodalis melophagi sp. nov.: Phylogenetically Independent Comparative Model to the Tsetse Fly Symbiont Sodalis glossinidius

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          Abstract

          Bacteria of the genus Sodalis live in symbiosis with various groups of insects. The best known member of this group, a secondary symbiont of tsetse flies Sodalis glossinidius, has become one of the most important models in investigating establishment and evolution of insect-bacteria symbiosis. It represents a bacterium in the early/intermediate state of the transition towards symbiosis, which allows for exploring such interesting topics as: usage of secretory systems for entering the host cell, tempo of the genome modification, and metabolic interaction with a coexisting primary symbiont. In this study, we describe a new Sodalis species which could provide a useful comparative model to the tsetse symbiont. It lives in association with Melophagus ovinus, an insect related to tsetse flies, and resembles S. glossinidius in several important traits. Similar to S. glossinidius, it cohabits the host with another symbiotic bacterium, the bacteriome-harbored primary symbiont of the genus Arsenophonus. As a typical secondary symbiont, Candidatus Sodalis melophagi infects various host tissues, including bacteriome. We provide basic morphological and molecular characteristics of the symbiont and show that these traits also correspond to the early/intermediate state of the evolution towards symbiosis. Particularly, we demonstrate the ability of the bacterium to live in insect cell culture as well as in cell-free medium. We also provide basic characteristics of type three secretion system and using three reference sequences (16 S rDNA, groEL and spaPQR region) we show that the bacterium branched within the genus Sodalis, but originated independently of the two previously described symbionts of hippoboscoids. We propose the name Candidatus Sodalis melophagi for this new bacterium.

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          Most cited references48

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          MRBAYES: Bayesian inference of phylogenetic trees.

          The program MRBAYES performs Bayesian inference of phylogeny using a variant of Markov chain Monte Carlo. MRBAYES, including the source code, documentation, sample data files, and an executable, is available at http://brahms.biology.rochester.edu/software.html.
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            ProtTest: selection of best-fit models of protein evolution.

            Using an appropriate model of amino acid replacement is very important for the study of protein evolution and phylogenetic inference. We have built a tool for the selection of the best-fit model of evolution, among a set of candidate models, for a given protein sequence alignment. ProtTest is available under the GNU license from http://darwin.uvigo.es
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              AWTY (are we there yet?): a system for graphical exploration of MCMC convergence in Bayesian phylogenetics.

              A key element to a successful Markov chain Monte Carlo (MCMC) inference is the programming and run performance of the Markov chain. However, the explicit use of quality assessments of the MCMC simulations-convergence diagnostics-in phylogenetics is still uncommon. Here, we present a simple tool that uses the output from MCMC simulations and visualizes a number of properties of primary interest in a Bayesian phylogenetic analysis, such as convergence rates of posterior split probabilities and branch lengths. Graphical exploration of the output from phylogenetic MCMC simulations gives intuitive and often crucial information on the success and reliability of the analysis. The tool presented here complements convergence diagnostics already available in other software packages primarily designed for other applications of MCMC. Importantly, the common practice of using trace-plots of a single parameter or summary statistic, such as the likelihood score of sampled trees, can be misleading for assessing the success of a phylogenetic MCMC simulation. The program is available as source under the GNU General Public License and as a web application at http://ceb.scs.fsu.edu/awty.
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                Author and article information

                Contributors
                Role: Editor
                Journal
                PLoS One
                PLoS ONE
                plos
                plosone
                PLoS ONE
                Public Library of Science (San Francisco, USA )
                1932-6203
                2012
                17 July 2012
                : 7
                : 7
                : e40354
                Affiliations
                [1 ]Faculty of Science, University of South Bohemia, České Budějovice, Czech Republic
                [2 ]Institute of Parasitology, Biology Centre, Academy of Sciences of the Czech Republic, České Budějovice, Czech Republic
                Loyola University Medical Center, United States of America
                Author notes

                Wrote the paper: TC FH EN VH. Designed the study: EN VH. Established in vitro culture: TC FH. Generated and assembled the genomic data: EN. Performed the light and electron microscopy characterization: TC FH VH. Performed phylogenetic analyses: TC FH. Annotated and analyzed the TTSS sequences: TC.

                Article
                PONE-D-11-22941
                10.1371/journal.pone.0040354
                3398932
                22815743
                55c9d5e1-43d4-477e-b6a2-0981a1a2f2c6
                Chrudimský et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
                History
                : 17 November 2011
                : 7 June 2012
                Page count
                Pages: 9
                Categories
                Research Article
                Biology
                Ecology
                Microbial Ecology
                Evolutionary Biology
                Evolutionary Systematics
                Taxonomy
                Microbial Taxonomy
                Phylogenetics
                Organismal Evolution
                Microbial Evolution
                Microbiology
                Bacteriology
                Bacterial Taxonomy
                Bacterial Evolution
                Microbial Ecology
                Microbial Evolution
                Zoology
                Entomology

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                Uncategorized

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