7
views
0
recommends
+1 Recommend
0 collections
    0
    shares
      • Record: found
      • Abstract: found
      • Article: not found

      Ochrobactrum teleogrylli sp. nov., a pesticide-degrading bacterium isolated from the insect Teleogryllus occipitalis living in deserted cropland

      Read this article at

      ScienceOpenPublisherPubMed
      Bookmark
          There is no author summary for this article yet. Authors can add summaries to their articles on ScienceOpen to make them more accessible to a non-specialist audience.

          Abstract

          A Gram-stain-negative, non-spore-forming, motile, aerobic, rod-shaped bacteria strain, designated LCB8 T, was isolated from the insect Teleogryllus occipitalis captured from a deserted cropland in Shuangliu district, Chengdu, PR China. Phylogenetic analysis on the basis of 16S rRNA gene sequence indicated that the strain represented a member of the genus Ochrobactrum , family Brucellaceae , class Alphaproteobacteria. Ochrobactrum pecoris CCUG 60088 T (97.9 %) and Ochrobactrum haematophilum CCUG 38531 T (98.8 %) were identified as the most closely related phylogenetic neighbours of strain LCB8 T. The novel strain was able to grow at salt concentrations of 0–4.5 % (w/v), pH 5–9 and temperatures of 20–42 °C. The major quinone system was ubiquinone Q-10, the major fatty acids were C 18 : 1ω7 c, C 16 : 0 and C 18 : 0. The major polar lipids were phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, phosphatidylmonomethylethanolamine, diphosphatidylglycerol and four undefined aminolipids. The major polyamines were putrescine and spermidine. Genome sequencing revealed a genome size of 4.76 Mbp and a DNA G+C content of 57.1 mol%. These phenotypic, genotypic and chemotaxonomic traits excellently supported the affiliation of LCB8 T to the genus Ochrobactrum . Pairwise determined whole-genome average nucleotide identity (ANI) values indicated that strain LCB8 T represents a novel species, for which we propose the name Ochrobactrum teleogrylli sp. nov. with the type strain LCB8 T (=KCTC 72031 T=CGMCC 1.13984 T).

          Related collections

          Most cited references46

          • Record: found
          • Abstract: found
          • Article: not found

          MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets.

          We present the latest version of the Molecular Evolutionary Genetics Analysis (Mega) software, which contains many sophisticated methods and tools for phylogenomics and phylomedicine. In this major upgrade, Mega has been optimized for use on 64-bit computing systems for analyzing larger datasets. Researchers can now explore and analyze tens of thousands of sequences in Mega The new version also provides an advanced wizard for building timetrees and includes a new functionality to automatically predict gene duplication events in gene family trees. The 64-bit Mega is made available in two interfaces: graphical and command line. The graphical user interface (GUI) is a native Microsoft Windows application that can also be used on Mac OS X. The command line Mega is available as native applications for Windows, Linux, and Mac OS X. They are intended for use in high-throughput and scripted analysis. Both versions are available from www.megasoftware.net free of charge.
            Bookmark
            • Record: found
            • Abstract: found
            • Article: not found

            The neighbor-joining method: a new method for reconstructing phylogenetic trees.

            N Saitou, M Nei (1987)
            A new method called the neighbor-joining method is proposed for reconstructing phylogenetic trees from evolutionary distance data. The principle of this method is to find pairs of operational taxonomic units (OTUs [= neighbors]) that minimize the total branch length at each stage of clustering of OTUs starting with a starlike tree. The branch lengths as well as the topology of a parsimonious tree can quickly be obtained by using this method. Using computer simulation, we studied the efficiency of this method in obtaining the correct unrooted tree in comparison with that of five other tree-making methods: the unweighted pair group method of analysis, Farris's method, Sattath and Tversky's method, Li's method, and Tateno et al.'s modified Farris method. The new, neighbor-joining method and Sattath and Tversky's method are shown to be generally better than the other methods.
              Bookmark
              • Record: found
              • Abstract: found
              • Article: not found

              A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences.

              Some simple formulae were obtained which enable us to estimate evolutionary distances in terms of the number of nucleotide substitutions (and, also, the evolutionary rates when the divergence times are known). In comparing a pair of nucleotide sequences, we distinguish two types of differences; if homologous sites are occupied by different nucleotide bases but both are purines or both pyrimidines, the difference is called type I (or "transition" type), while, if one of the two is a purine and the other is a pyrimidine, the difference is called type II (or "transversion" type). Letting P and Q be respectively the fractions of nucleotide sites showing type I and type II differences between two sequences compared, then the evolutionary distance per site is K = -(1/2) ln [(1-2P-Q) square root of 1-2Q]. The evolutionary rate per year is then given by k = K/(2T), where T is the time since the divergence of the two sequences. If only the third codon positions are compared, the synonymous component of the evolutionary base substitutions per site is estimated by K'S = -(1/2) ln (1-2P-Q). Also, formulae for standard errors were obtained. Some examples were worked out using reported globin sequences to show that synonymous substitutions occur at much higher rates than amino acid-altering substitutions in evolution.
                Bookmark

                Author and article information

                Contributors
                (View ORCID Profile)
                Journal
                International Journal of Systematic and Evolutionary Microbiology
                Microbiology Society
                1466-5026
                1466-5034
                April 01 2020
                April 01 2020
                : 70
                : 4
                : 2217-2225
                Affiliations
                [1 ] Key laboratory of Leather Chemistry and Engineering, Ministry of Education and College of Biomass Science and Engineering, Sichuan University, Chengdu 610065, PR China
                [2 ] Chengdu Jinkai Bioengineering Co., Ltd, Chengdu 611130, PR China
                [3 ] State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, PR China
                Article
                10.1099/ijsem.0.003964
                32100690
                be707f4d-3d84-4f8b-baab-c35f70d91ea6
                © 2020
                History

                Comments

                Comment on this article