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Improved Taxonomy of the Genus Streptomyces
UNIVERSITEIT GENT Faculteit Wetenschappen Vakgroep Biochemie, Fysiologie & Microbiologie Laboratorium voor Microbiologie Improved taxonomy of the genus Streptomyces Benjamin LANOOT Scriptie voorgelegd tot het behalen van de graad van Doctor in de Wetenschappen (Biochemie) Promotor: Prof. Dr. ir. J. Swings Co-promotor: Dr. M. Vancanneyt Academiejaar 2004-2005 FACULTY OF SCIENCES ____________________________________________________________ DEPARTMENT OF BIOCHEMISTRY, PHYSIOLOGY AND MICROBIOLOGY UNIVERSITEIT LABORATORY OF MICROBIOLOGY GENT IMPROVED TAXONOMY OF THE GENUS STREPTOMYCES DISSERTATION Submitted in fulfilment of the requirements for the degree of Doctor (Ph D) in Sciences, Biochemistry December 2004 Benjamin LANOOT Promotor: Prof. Dr. ir. J. SWINGS Co-promotor: Dr. M. VANCANNEYT 1: Aerial mycelium of a Streptomyces sp. © Michel Cavatta, Academy de Lyon, France 1 2 2: Streptomyces coelicolor colonies © John Innes Centre 3: Blue haloes surrounding Streptomyces coelicolor colonies are secreted 3 4 actinorhodin (an antibiotic) © John Innes Centre 4: Antibiotic droplet secreted by Streptomyces coelicolor © John Innes Centre PhD thesis, Faculty of Sciences, Ghent University, Ghent, Belgium. Publicly defended in Ghent, December 9th, 2004. Examination Commission PROF. DR. J. VAN BEEUMEN (ACTING CHAIRMAN) Faculty of Sciences, University of Ghent PROF. DR. IR. J. SWINGS (PROMOTOR) Faculty of Sciences, University of Ghent DR. M. VANCANNEYT (CO-PROMOTOR) Faculty of Sciences, University of Ghent PROF. DR. M. GOODFELLOW Department of Agricultural & Environmental Science University of Newcastle, UK PROF. Z. LIU Institute of Microbiology Chinese Academy of Sciences, Beijing, P.R. China DR. D. LABEDA United States Department of Agriculture National Center for Agricultural Utilization Research Peoria, IL, USA PROF. DR. R.M. KROPPENSTEDT Deutsche Sammlung von Mikroorganismen & Zellkulturen (DSMZ) Braunschweig, Germany DR. -
Evolution of the Streptomycin and Viomycin Biosynthetic Clusters and Resistance Genes
University of Warwick institutional repository: http://go.warwick.ac.uk/wrap A Thesis Submitted for the Degree of PhD at the University of Warwick http://go.warwick.ac.uk/wrap/2773 This thesis is made available online and is protected by original copyright. Please scroll down to view the document itself. Please refer to the repository record for this item for information to help you to cite it. Our policy information is available from the repository home page. Evolution of the streptomycin and viomycin biosynthetic clusters and resistance genes Paris Laskaris, B.Sc. (Hons.) A thesis submitted to the University of Warwick for the degree of Doctor of Philosophy. Department of Biological Sciences, University of Warwick, Coventry, CV4 7AL September 2009 Contents List of Figures ........................................................................................................................ vi List of Tables ....................................................................................................................... xvi Abbreviations ........................................................................................................................ xx Acknowledgements .............................................................................................................. xxi Declaration .......................................................................................................................... xxii Abstract ............................................................................................................................. -
Diversity of Free-Living Nitrogen Fixing Bacteria in the Badlands of South Dakota Bibha Dahal South Dakota State University
South Dakota State University Open PRAIRIE: Open Public Research Access Institutional Repository and Information Exchange Theses and Dissertations 2016 Diversity of Free-living Nitrogen Fixing Bacteria in the Badlands of South Dakota Bibha Dahal South Dakota State University Follow this and additional works at: http://openprairie.sdstate.edu/etd Part of the Bacteriology Commons, and the Environmental Microbiology and Microbial Ecology Commons Recommended Citation Dahal, Bibha, "Diversity of Free-living Nitrogen Fixing Bacteria in the Badlands of South Dakota" (2016). Theses and Dissertations. 688. http://openprairie.sdstate.edu/etd/688 This Thesis - Open Access is brought to you for free and open access by Open PRAIRIE: Open Public Research Access Institutional Repository and Information Exchange. It has been accepted for inclusion in Theses and Dissertations by an authorized administrator of Open PRAIRIE: Open Public Research Access Institutional Repository and Information Exchange. For more information, please contact [email protected]. DIVERSITY OF FREE-LIVING NITROGEN FIXING BACTERIA IN THE BADLANDS OF SOUTH DAKOTA BY BIBHA DAHAL A thesis submitted in partial fulfillment of the requirements for the Master of Science Major in Biological Sciences Specialization in Microbiology South Dakota State University 2016 iii ACKNOWLEDGEMENTS “Always aim for the moon, even if you miss, you’ll land among the stars”.- W. Clement Stone I would like to express my profuse gratitude and heartfelt appreciation to my advisor Dr. Volker Brӧzel for providing me a rewarding place to foster my career as a scientist. I am thankful for his implicit encouragement, guidance, and support throughout my research. This research would not be successful without his guidance and inspiration. -
Biologically Active Secondary Metabolites from Actinomycetes
Cent. Eur. J. Biol. • 7(3) • 2012 • 373-390 DOI: 10.2478/s11535-012-0036-1 Central European Journal of Biology Biologically active secondary metabolites from Actinomycetes Review Article Jolanta Solecka*, Joanna Zajko, Magdalena Postek, Aleksandra Rajnisz Laboratory of Biologically Active Compounds, National Institute of Public Health - National Institute of Hygiene, 00-791 Warsaw, Poland Received 01 September 2011; Accepted 05 March 2012 Abstract: Secondary metabolites obtained from Actinomycetales provide a potential source of many novel compounds with antibacterial, antitumour, antifungal, antiviral, antiparasitic and other properties. The majority of these compounds are widely used as medicines for combating multidrug-resistant Gram-positive and Gram-negative bacterial strains. Members of the genus Streptomyces are profile producers of previously-known secondary metabolites. Actinomycetes have been isolated from terrestrial soils, from the rhizospheres of plant roots, and recently from marine sediments. This review demonstrates the diversity of secondary metabolites produced by actinomycete strains with respect to their chemical structure, biological activity and origin. On the basis of this diversity, this review concludes that the discovery of new bioactive compounds will continue to pose a great challenge for scientists. Keywords: Bioactive • Secondary metabolites • Antibacterial properties • Cytotoxicity • Streptomyces sp. © Versita Sp. z o.o. 1. Introduction (8 600) are of fungal origin [1,3]. Among filamentous actinomycetes, about 75% (7 600) of metabolites are Bioactive metabolites are products of primary and produced by species of the genus Streptomyces [3,4] secondary metabolism of different organisms (plants, (Figure 1). animals, fungi, bacteria). They often demonstrate More than 140 actinomycete genera have been biological activity [1]. Secondary metabolites have described to date. -
A New Antibiotic, Asukamycin, Produced by Streptomyces
876 THE JOURNAL OF ANTIBIOTICS SEPT. 1976 A NEW ANTIBIOTIC, ASUKAMYCIN, PRODUCED BY STREPTOMYCES SATOSHI OMURA, CHIAKI KITAO, HARUO TANAKA, RUIKO OIWA, YOKO TAKAHASHI, AKIRA NAKAGAWA, MASAYUKI SHIMADA and YUZURU IWAI Kitasato University and The Kitasato Institute, Minato-ku, Tokyo 108, Japan (Received for publication June 2, 1976) Asukamycin, a new antibiotic, has been isolated from the culture broth of a strepto- mycete designated as Streptomyces nodosus subsp. asukaensis. The antibiotic inhibits the growth of Gram-positive bacteria including Nocardia asteroides. The empirical formula of antibiotic asukamycin has been proposed as C29H22N2O9(M.W. 542). An acute toxicity of the antibiotic in mice is LD50 48.5 mg/kg by intraperitoneal injection and it has no effect on mice when it was administered by 450 mg/kg per os. During the course of searching for new antibiotics, we have found a new compound designated as asukamycin, which inhibits the growth of some Gram-positive bacteria, in culture broths of a strepto- mycete isolated from the soil sample collected in Nara Prefecture, Japan. In the present paper, the taxonomy of the producing strain, fermentation, isolation, and physico-chemical and biological pro- perties of antibiotic asukamycin are described. Taxonomic Studies The antibiotic-producing strain AM-1042, which was cultured on several agar media for 2-3 weeks at 27'C, was used for taxonomic studies. Morphological characteristics of Fig. 1. Morphological observations of strain AM-1042 grown on oatmeal agar for 14 days by optical and electron micro- the strain are shown in Fig. 1. A scopes well-branched substrate mycelium was formed abundantly on most agar media, except for several natu- ral media. -
Production of an Antibiotic-Like Activity by Streptomyces Sp. COUK1 Under Different Growth Conditions Olaitan G
East Tennessee State University Digital Commons @ East Tennessee State University Electronic Theses and Dissertations Student Works 8-2014 Production of an Antibiotic-like Activity by Streptomyces sp. COUK1 under Different Growth Conditions Olaitan G. Akintunde East Tennessee State University Follow this and additional works at: https://dc.etsu.edu/etd Part of the Biology Commons Recommended Citation Akintunde, Olaitan G., "Production of an Antibiotic-like Activity by Streptomyces sp. COUK1 under Different Growth Conditions" (2014). Electronic Theses and Dissertations. Paper 2412. https://dc.etsu.edu/etd/2412 This Thesis - Open Access is brought to you for free and open access by the Student Works at Digital Commons @ East Tennessee State University. It has been accepted for inclusion in Electronic Theses and Dissertations by an authorized administrator of Digital Commons @ East Tennessee State University. For more information, please contact [email protected]. Production of an Antibiotic-like Activity by Streptomyces sp. COUK1 under Different Growth Conditions A thesis presented to the faculty of the Department of Health Sciences East Tennessee State University In partial fulfillment of the requirements for the degree Master of Science in Biology by Olaitan G. Akintunde August 2014 Dr. Bert Lampson Dr. Eric Mustain Dr. Foster Levy Keywords: Streptomyces, antibiotics, natural products, bioactive compounds ABSTRACT Production of an Antibiotic-like Activity by Streptomyces sp. COUK1 under Different Growth Conditions by Olaitan Akintunde Streptomyces are known to produce a large variety of antibiotics and other bioactive compounds with remarkable industrial importance. Streptomyces sp. COUK1 was found as a contaminant on a plate in which Rhodococcus erythropolis was used as a test strain in a disk diffusion assay and produced a zone of inhibition against the cultured R. -
Genomic and Phylogenomic Insights Into the Family Streptomycetaceae Lead to Proposal of Charcoactinosporaceae Fam. Nov. and 8 No
bioRxiv preprint doi: https://doi.org/10.1101/2020.07.08.193797; this version posted July 8, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 1 Genomic and phylogenomic insights into the family Streptomycetaceae 2 lead to proposal of Charcoactinosporaceae fam. nov. and 8 novel genera 3 with emended descriptions of Streptomyces calvus 4 Munusamy Madhaiyan1, †, * Venkatakrishnan Sivaraj Saravanan2, † Wah-Seng See-Too3, † 5 1Temasek Life Sciences Laboratory, 1 Research Link, National University of Singapore, 6 Singapore 117604; 2Department of Microbiology, Indira Gandhi College of Arts and Science, 7 Kathirkamam 605009, Pondicherry, India; 3Division of Genetics and Molecular Biology, 8 Institute of Biological Sciences, Faculty of Science, University of Malaya, Kuala Lumpur, 9 Malaysia 10 *Corresponding author: Temasek Life Sciences Laboratory, 1 Research Link, National 11 University of Singapore, Singapore 117604; E-mail: [email protected] 12 †All these authors have contributed equally to this work 13 Abstract 14 Streptomycetaceae is one of the oldest families within phylum Actinobacteria and it is large and 15 diverse in terms of number of described taxa. The members of the family are known for their 16 ability to produce medically important secondary metabolites and antibiotics. In this study, 17 strains showing low 16S rRNA gene similarity (<97.3 %) with other members of 18 Streptomycetaceae were identified and subjected to phylogenomic analysis using 33 orthologous 19 gene clusters (OGC) for accurate taxonomic reassignment resulted in identification of eight 20 distinct and deeply branching clades, further average amino acid identity (AAI) analysis showed 1 bioRxiv preprint doi: https://doi.org/10.1101/2020.07.08.193797; this version posted July 8, 2020. -
Induction of Secondary Metabolism Across Actinobacterial Genera
Induction of secondary metabolism across actinobacterial genera A thesis submitted for the award Doctor of Philosophy at Flinders University of South Australia Rio Risandiansyah Department of Medical Biotechnology Faculty of Medicine, Nursing and Health Sciences Flinders University 2016 TABLE OF CONTENTS TABLE OF CONTENTS ............................................................................................ ii TABLE OF FIGURES ............................................................................................. viii LIST OF TABLES .................................................................................................... xii SUMMARY ......................................................................................................... xiii DECLARATION ...................................................................................................... xv ACKNOWLEDGEMENTS ...................................................................................... xvi Chapter 1. Literature review ................................................................................. 1 1.1 Actinobacteria as a source of novel bioactive compounds ......................... 1 1.1.1 Natural product discovery from actinobacteria .................................... 1 1.1.2 The need for new antibiotics ............................................................... 3 1.1.3 Secondary metabolite biosynthetic pathways in actinobacteria ........... 4 1.1.4 Streptomyces genetic potential: cryptic/silent genes .......................... -
Investigating the Relationship Between Amphotericin B and Extracellular
Investigating the relationship between amphotericin B and extracellular vesicles produced by Streptomyces nodosus By Samuel John King A thesis submitted in partial fulfilment of the requirements for the degree of Master of Research School of Science and Health Western Sydney University 2017 Acknowledgements A big thank you to the following people who have helped me throughout this project: Jo, for all of your support over the last two years; Ric, Tim, Shamilla and Sue for assistance with electron microscope operation; Renee for guidance with phylogenetics; Greg, Herbert and Adam for technical support; and Mum, you're the real MVP. I acknowledge the services of AGRF for sequencing of 16S rDNA products of Streptomyces "purple". Statement of Authentication The work presented in this thesis is, to the best of my knowledge and belief, original except as acknowledged in the text. I hereby declare that I have not submitted this material, either in full or in part, for a degree at this or any other institution. ……………………………………………………..… (Signature) Contents List of Tables............................................................................................................... iv List of Figures .............................................................................................................. v Abbreviations .............................................................................................................. vi Abstract ..................................................................................................................... -
Exploring the Potential of Antibiotic Production from Rare Actinobacteria by Whole-Genome Sequencing and Guided MS/MS Analysis
fmicb-11-01540 July 27, 2020 Time: 14:51 # 1 ORIGINAL RESEARCH published: 15 July 2020 doi: 10.3389/fmicb.2020.01540 Exploring the Potential of Antibiotic Production From Rare Actinobacteria by Whole-Genome Sequencing and Guided MS/MS Analysis Dini Hu1,2, Chenghang Sun3, Tao Jin4, Guangyi Fan4, Kai Meng Mok2, Kai Li1* and Simon Ming-Yuen Lee5* 1 School of Ecology and Nature Conservation, Beijing Forestry University, Beijing, China, 2 Department of Civil and Environmental Engineering, Faculty of Science and Technology, University of Macau, Macau, China, 3 Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China, 4 Beijing Genomics Institute, Shenzhen, China, 5 State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau, Macau, China Actinobacteria are well recognized for their production of structurally diverse bioactive Edited by: secondary metabolites, but the rare actinobacterial genera have been underexploited Sukhwan Yoon, for such potential. To search for new sources of active compounds, an experiment Korea Advanced Institute of Science combining genomic analysis and tandem mass spectrometry (MS/MS) screening and Technology, South Korea was designed to isolate and characterize actinobacterial strains from a mangrove Reviewed by: Hui Li, environment in Macau. Fourteen actinobacterial strains were isolated from the collected Jinan University, China samples. Partial 16S sequences indicated that they were from six genera, including Baogang Zhang, China University of Geosciences, Brevibacterium, Curtobacterium, Kineococcus, Micromonospora, Mycobacterium, and China Streptomyces. The isolate sp.01 showing 99.28% sequence similarity with a reference *Correspondence: rare actinobacterial species Micromonospora aurantiaca ATCC 27029T was selected for Kai Li whole genome sequencing. -
Systematic Research on Actinomycetes Selected According
Systematic Research on Actinomycetes Selected according to Biological Activities Dissertation Submitted in fulfillment of the requirements for the award of the Doctor (Ph.D.) degree of the Math.-Nat. Fakultät of the Christian-Albrechts-Universität in Kiel By MSci. - Biol. Yi Jiang Leibniz-Institut für Meereswissenschaften, IFM-GEOMAR, Marine Mikrobiologie, Düsternbrooker Weg 20, D-24105 Kiel, Germany Supervised by Prof. Dr. Johannes F. Imhoff Kiel 2009 Referent: Prof. Dr. Johannes F. Imhoff Korreferent: ______________________ Tag der mündlichen Prüfung: Kiel, ____________ Zum Druck genehmigt: Kiel, _____________ Summary Content Chapter 1 Introduction 1 Chapter 2 Habitats, Isolation and Identification 24 Chapter 3 Streptomyces hainanensis sp. nov., a new member of the genus Streptomyces 38 Chapter 4 Actinomycetospora chiangmaiensis gen. nov., sp. nov., a new member of the family Pseudonocardiaceae 52 Chapter 5 A new member of the family Micromonosporaceae, Planosporangium flavogriseum gen nov., sp. nov. 67 Chapter 6 Promicromonospora flava sp. nov., isolated from sediment of the Baltic Sea 87 Chapter 7 Discussion 99 Appendix a Resume, Publication list and Patent 115 Appendix b Medium list 122 Appendix c Abbreviations 126 Appendix d Poster (2007 VAAM, Germany) 127 Appendix e List of research strains 128 Acknowledgements 134 Erklärung 136 Summary Actinomycetes (Actinobacteria) are the group of bacteria producing most of the bioactive metabolites. Approx. 100 out of 150 antibiotics used in human therapy and agriculture are produced by actinomycetes. Finding novel leader compounds from actinomycetes is still one of the promising approaches to develop new pharmaceuticals. The aim of this study was to find new species and genera of actinomycetes as the basis for the discovery of new leader compounds for pharmaceuticals. -
Malaysian Journal of Microbiology, Vol 14(7) 2018, Pp
Malaysian Journal of Microbiology, Vol 14(7) 2018, pp. 663-673 DOI: http://dx.doi.org/10.21161/mjm.108617 Malaysian Journal of Microbiology Published by Malaysian Society for Microbiology (In since 2011) Diversity and functional characterization of antifungal-producing Streptomyces-like microbes isolated from the rhizosphere of cajuput plants (Melaleuca leucodendron L.) Alimuddin Ali1*, Mustofa2, Widya Asmara3, Herlina Rante4 and Jaka Widada5 1Laboratory of Microbiology. Department of Biology, Universitas Negeri Makassar, South Sulawesi, Indonesia. 2Department of Pharmacology and Therapy, Faculty of Medicine, Public Health and Nursing, Universitas Gadjah Mada, Yogyakarta, Indonesia. 3Research Center for Biotechnology, Universitas Gadjah Mada, Yogyakarta, Indonesia. 4Laboratory of Microbiology. Faculty of Pharmacy, Hasanuddin University, Makassar, Indonesia. 5Department of Microbiology. Faculty of Agriculture, Universitas Gadjah Mada, Yogyakarta, Indonesia. Email: [email protected] Received 10 August 2017; Received in revised form 7 August 2018; Accepted 8 August 2018 ABSTRACT Aims: The study was undertaken to evaluate the diversity of actinomycetes from the rhizosphere of the cajuput plant (Melaleuca leucodendron L.) using ARDRA, and to examine their in vitro antifungal potency against selected fungi. Methodology and results: A total of 78 Streptomyces-like microbes were isolated from the limestone rhizosphere of cajuput plants and cultured in SN agar medium. The ability to inhibit fungal growth was observed using a dual culture assay. The diversity of the isolates was examined by morphological and genotype profiling using ARDRA (Amplified 16S ribosomal DNA restriction analysis), following which they were assigned to eight groups. Seventeen (21.8%) strains showed the ability to produce the antifungal compound as evidenced by their antagonism in vitro against the tested fungi, namely Saccharomyces cerevisiae BY 47420, Candida albicans CGMCC 2538, Aspergillus flavus NRLL 3357, and Fusarium oxysporum KFCC 11363P in the dual culture assay.