ActinoBase: tools and protocols for researchers working on Streptomyces and other filamentous actinobacteria

Author:

Feeney Morgan Anne1,Newitt Jake Terry2,Addington Emily1,Algora-Gallardo Lis1,Allan Craig3,Balis Lucas2,Birke Anna S.1,Castaño-Espriu Laia1,Charkoudian Louise K.4,Devine Rebecca2,Gayrard Damien2,Hamilton Jacob2,Hennrich Oliver5,Hoskisson Paul A.1,Keith-Baker Molly1,Klein Joshua G.4,Kruasuwan Worarat6,Mark David R.1,Mast Yvonne5,McHugh Rebecca E.1,McLean Thomas C.2,Mohit Elmira1,Munnoch John T.1,Murray Jordan7,Noble Katie2,Otani Hiroshi89,Parra Jonathan1,Pereira Camila F.10,Perry Louisa2,Pintor-Escobar Linamaria11,Pritchard Leighton1,Prudence Samuel M. M.12,Russell Alicia H.13,Schniete Jana K.11,Seipke Ryan F.1415,Sélem-Mojica Nelly16,Undabarrena Agustina17,Vind Kristiina18,van Wezel Gilles P.19,Wilkinson Barrie2,Worsley Sarah F.20,Duncan Katherine R.1,Fernández-Martínez Lorena T.11,Hutchings Matthew I.2ORCID

Affiliation:

1. University of Strathclyde, Strathclyde Institute of Pharmacy and Biomedical Sciences, Glasgow, G4 0RE, UK

2. Department of Molecular Microbiology, John Innes Centre, Norwich, NR4 7UH, UK

3. Swansea University Institute of Life Science, College of Medicine, Swansea, Wales, UK

4. Haverford College, Department of Chemistry, USA

5. Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures GmbH Inhoffenstraße 7B, 38124 Braunschweig, Germany

6. Division of Bioinformatics and Data Management for Research, Research Group and Research Network Division, Research Department, Faculty of Medicine Siriraj Hospital, Mahidol University, Bangkok, Thailand

7. Department of Physics, SUPA, University of Strathclyde, Glasgow, G4 0NG, UK

8. Lawrence Berkeley National Laboratory, Environmental Genomics and Systems Biology Division, Berkeley, CA 94720, USA

9. US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA

10. Department of Insect Symbiosis, Max Planck Institute for Chemical Ecology, Hans-Knöll-Straße 8, 07745 Jena, Germany

11. Biology Department, Edge Hill University, St Helens Road, Ormskirk, L39 4QP, UK

12. School of Biological and Behavioral Sciences, Queen Mary University of London, Mile End Road, London, E1 4NS, UK

13. Colorifix Ltd, Norwich Research Park, Norwich, UK

14. Faculty of Biological Sciences, University of Leeds, Leeds, LS2 9JT, UK

15. Astbury Centre for Structural Molecular Biology, University of Leeds, Leeds, LS2 9JT, UK

16. Universidad Nacional Autónoma de México, Centro de Ciencias Matemáticas, en Morelia, Michoacán, Mexico

17. Departamento de Química & Centro de Biotecnología Daniel Alkalay Lowitt, Universidad Técnica Federico Santa María, Laboratorio de Microbiología Molecular y Biotecnología Ambiental, Valparaíso, 2340000, Chile

18. Host-Microbe Interactomics Group, Wageningen University, 6708 WD Wageningen, The Netherlands

19. Microbial Biotechnology, Institute of Biology, Leiden University, Rapenburg, The Netherlands

20. School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, NR4 7TJ, UK

Abstract

Actinobacteria is an ancient phylum of Gram-positive bacteria with a characteristic high GC content to their DNA. The ActinoBase Wiki is focused on the filamentous actinobacteria, such as Streptomyces species, and the techniques and growth conditions used to study them. These organisms are studied because of their complex developmental life cycles and diverse specialised metabolism which produces many of the antibiotics currently used in the clinic. ActinoBase is a community effort that provides valuable and freely accessible resources, including protocols and practical information about filamentous actinobacteria. It is aimed at enabling knowledge exchange between members of the international research community working with these fascinating bacteria. ActinoBase is an anchor platform that underpins worldwide efforts to understand the ecology, biology and metabolic potential of these organisms. There are two key differences that set ActinoBase apart from other Wiki-based platforms: [] ActinoBase is specifically aimed at researchers working on filamentous actinobacteria and is tailored to help users overcome challenges working with these bacteria and [] it provides a freely accessible resource with global networking opportunities for researchers with a broad range of experience in this field.

Publisher

Microbiology Society

Subject

General Medicine

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