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Micromonospora orduensis sp. nov., isolated from deep marine sediment

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Abstract

A novel actinobacterial strain, designated S2509T, was isolated from marine sediment collected by a dredge at a depth of 45 m along Melet River offshore of the southern Black Sea coast, Ordu, Turkey. The cell wall peptidoglycan of strain was found to contain meso-diaminopimelic acid and 3-OH-diaminopimelic acid. The whole cell sugars detected were arabinose, glucose, rhamnose, ribose and xylose. The diagnostic phospholipids of strain S2509T were found to be diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol, a glycolipid and two unidentified phospholipids. The predominant menaquinones were identified as MK-9(H8), MK-9(H6), MK-10(H8), MK-9(H4), MK-10(H4) and MK-10(H6). The major cellular fatty acids were found to be iso-C16:0, iso-C15:0 and 10-methyl C17:0. The taxonomic position of the strain was established using a polyphasic approach, showing that S2509T strain belongs to the genus Micromonospora. Phylogenetic analysis based on the 16S rRNA gene sequence of strain S2509T showed that it is closely related to the type strain of Micromonospora chokoriensis DSM 45160T (99.37% sequence similarity), and phylogenetically clustered with Micromonospora inaquosa LB39T (99.37%), Micromonospora lupini Lupac 14NT (99.16%), Micromonospora violae NEAU-zh8T (99.23%) and Micromonospora taraxaci NEAU-P5T (99.03%). The phylogenetic analysis based on the gyrB gene sequence of strain S2509T confirmed its close relationship with M. chokoriensis JCM 13247T (96.5% sequence similarity). Whole genome sequences confirmed by digital DNA-DNA hybridization analysis that the strain S2509T represents a novel species in the genus Micromonospora, for which the name Micromonospora orduensis sp. nov. is proposed. The type strain is S2509T (=DSM 45926T = KCTC 29201T).

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Acknowledgements

AV is gratefully acknowledge support from Ondokuz Mayis University (Project No. PYO. FEN. 1901.12.014) and the School of Biology (Newcastle University). LC thanks the University of Salamanca for a postdoctoral fellowship. Genome sequencing was provided by MicrobesNG (http://www.microbesng.uk), which is supported by the BBSRC (Grant Number BB/L024209).

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Author notes

  1. Aysel Veyisoglu and Lorena Carro have contributed equally to this work.

Authors and Affiliations

  1. Department of Medical Laboratory Techniques, Vocational School of Health Services, Sinop University, 57000, Sinop, Turkey

    Aysel Veyisoglu

  2. Departamento de Microbiología y Genética, Edificio Departamental, Campus Miguel de Unamuno, Universidad de Salamanca, 37007, Salamanca, Spain

    Lorena Carro

  3. Division of Science Education, Department of Mathematics and Science Education, Gazi Faculty of Education, Gazi University, 06500, Ankara, Turkey

    Demet Cetin

  4. Instituto de Recursos Naturales y Agrobiología de Salamanca, Consejo Superior de Investigaciones Científicas (IRNASA-CSIC), c/Cordel de Merinas 40-52, 37008, Salamanca, Spain

    Jose M. Igual

  5. School of Natural and Environmental Sciences, Newcastle University, Ridley Building, Newcastle upon Tyne, NE1 7RU, UK

    Hans-Peter Klenk

  6. Department of Molecular Biology and Genetics, Faculty of Art and Science, Ondokuz Mayis University, 55139, Samsun, Turkey

    Nevzat Sahin

Authors
  1. Aysel Veyisoglu
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  2. Lorena Carro
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  3. Demet Cetin
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  4. Jose M. Igual
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Contributions

AV, NS and HPK designed the study. AV isolated the strain and carried out phenotypic characterisation and single gene phylogenies. LC carried out chemotaxonomic analysis and genome sequencing and analysing. DC carried out scanning electron microscopy analysis and JMI carried out fatty acids determination. AV and LC wrote the manuscript. All authors have revised the manuscript.

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Correspondence to Aysel Veyisoglu or Nevzat Sahin.

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Veyisoglu, A., Carro, L., Cetin, D. et al. Micromonospora orduensis sp. nov., isolated from deep marine sediment. Antonie van Leeuwenhoek 113, 397–405 (2020). https://doi.org/10.1007/s10482-019-01349-6

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