Enzymatic Activities of Some Streptomycetes Isolated from Soil at Taif Region
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The Role of Earthworm Gut-Associated Microorganisms in the Fate of Prions in Soil
THE ROLE OF EARTHWORM GUT-ASSOCIATED MICROORGANISMS IN THE FATE OF PRIONS IN SOIL Von der Fakultät für Lebenswissenschaften der Technischen Universität Carolo-Wilhelmina zu Braunschweig zur Erlangung des Grades eines Doktors der Naturwissenschaften (Dr. rer. nat.) genehmigte D i s s e r t a t i o n von Taras Jur’evič Nechitaylo aus Krasnodar, Russland 2 Acknowledgement I would like to thank Prof. Dr. Kenneth N. Timmis for his guidance in the work and help. I thank Peter N. Golyshin for patience and strong support on this way. Many thanks to my other colleagues, which also taught me and made the life in the lab and studies easy: Manuel Ferrer, Alex Neef, Angelika Arnscheidt, Olga Golyshina, Tanja Chernikova, Christoph Gertler, Agnes Waliczek, Britta Scheithauer, Julia Sabirova, Oleg Kotsurbenko, and other wonderful labmates. I am also grateful to Michail Yakimov and Vitor Martins dos Santos for useful discussions and suggestions. I am very obliged to my family: my parents and my brother, my parents on low and of course to my wife, which made all of their best to support me. 3 Summary.....................................................………………………………………………... 5 1. Introduction...........................................................................................................……... 7 Prion diseases: early hypotheses...………...………………..........…......…......……….. 7 The basics of the prion concept………………………………………………….……... 8 Putative prion dissemination pathways………………………………………….……... 10 Earthworms: a putative factor of the dissemination of TSE infectivity in soil?.………. 11 Objectives of the study…………………………………………………………………. 16 2. Materials and Methods.............................…......................................................……….. 17 2.1 Sampling and general experimental design..................................................………. 17 2.2 Fluorescence in situ Hybridization (FISH)………..……………………….………. 18 2.2.1 FISH with soil, intestine, and casts samples…………………………….……... 18 Isolation of cells from environmental samples…………………………….………. -
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. -
Screening for Actinomycetes from Government Science College Campus and Study of Their Secondary Metabolites
Volume 5, Issue 10, October – 2020 International Journal of Innovative Science and Research Technology ISSN No:-2456-2165 Screening for Actinomycetes from Government Science College Campus and Study of their Secondary Metabolites Dr. KAVITHA.B, M.Phil., Ph.D Associate Professor and Head Department of Microbiology Government Science College Nrupathunga road, Bangalore VISHNU PRIYANKA.N, M.Sc ZEBA KHANUM, M.Sc Department of Microbiology Department of Microbiology Government Science College Government Science College Nrupathunga road, Bangalore Nrupathunga road, Bangalore Abstract:- Actinomycetes are a group of organisms cytosine (G+C). Compared with the DNA of other which have characteristics of both bacteria and fungi, organisms, actinomycetes have a high percentage of guanine hence, they are also called as ‘Actinobacter’ and ‘Ray – cytosine bases i.e., upto 70.80%. In growth habit, many fungi’. Actinomycetes are known for producing novel actinomycetes resemble fungi but are smaller. “The most secondary metabolites like enzymes, anti-biotics, anti- common genus of actinomycetes in soil is Streptomyces that cancerous agents and play major role in recycling of produces straight chains or coils of spores or conidia. More organic matter. In this present research study, than one-half of the antibiotics used in human medicine, actinomycetes were isolated from 11 different soil including aureomycin, chloromycetin, kanamycin, samples from different places from college campus by neomycin, streptomycin, and terramycin, have been serially diluting and spread plate technique on SCA produced from soil actinomycetes.” (Singh V, Haque S, media. 22 actinomycete isolates were obtained, which Singh H, Verma J, Vibha K, Singh R, Jawed A and Tripathi were identified by gram staining and biochemical tests CKM, 2016). -
Molecular Identification and Antibacterial Activity of Streptomyces Spp. Isolated from Sulaymaniyah Governorate Soil, Iraqi Kurdistan
Polytechnic Journal. 2020. 10(2): 119-125 ISSN: 2313-5727 http://journals.epu.edu.iq/index.php/polytechnic RESEARCH ARTICLE Molecular Identification and Antibacterial Activity of Streptomyces spp. Isolated from Sulaymaniyah Governorate Soil, Iraqi Kurdistan Syamand A. Qadir*, Osama H. Shareef, Othman A. Mohammed Department of Medical Laboratory Science, Technical College of Applied Sciences, Sulaimani Polytechnic University, Halabja, Kurdistan Region, Iraq *Corresponding author: ABSTRACT Syamand A. Qadir, Department of Medical Soil is play an important role for reserve abundant groups of microorganisms, especially Streptomyces. Laboratory Science, Streptomyces are recognized as prokaryotes, aerobic and Gram-positive bacteria with high Guanine Technical College of Applied + Cytosine contents in their DNA. These groups of bacteria show filamentous growth from a single Sciences, Sulaimani spore and they are normally found in all kinds of ecosystems, including water, soil, and plants. A Polytechnic University, total of three Streptomyces strains were isolated from soil of the sides of Darband Ranya in Sulaimani Halabja, Kurdistan Region, governorate. Different approaches were followed for the identification of the isolated stains. Iraq. Morphological and cultural properties of these isolates have shown that the isolates are belonging to E-mail: syamand.qadir@ the genus Streptomyces. Desired colonies of the isolates were distinguished and separated from other spu.edu.iq bacteria on the basis of colony morphology, pigmentation, ability to produce a different color of aerial hyphae, and bottom mycelium on raffinose-histidine agar and starch-casein agar media. In addition, Received: 28 February 2020 analysis of phylogenetic tree based on 16S rRNA gene sequences, the strains related the genus. KS010 Accepted: 11 May 2020 isolates had the highest identity (99.32%) with the type strain of Streptomyces atrovirens, while Published: 30 December 2020 KS005 and KS007 isolates were most closely related to Streptomyces lateritius by identity 99.32%. -
Bioactive Actinobacteria Associated with Two South African Medicinal Plants, Aloe Ferox and Sutherlandia Frutescens
Bioactive actinobacteria associated with two South African medicinal plants, Aloe ferox and Sutherlandia frutescens Maria Catharina King A thesis submitted in partial fulfilment of the requirements for the degree of Doctor Philosophiae in the Department of Biotechnology, University of the Western Cape. Supervisor: Dr Bronwyn Kirby-McCullough August 2021 http://etd.uwc.ac.za/ Keywords Actinobacteria Antibacterial Bioactive compounds Bioactive gene clusters Fynbos Genetic potential Genome mining Medicinal plants Unique environments Whole genome sequencing ii http://etd.uwc.ac.za/ Abstract Bioactive actinobacteria associated with two South African medicinal plants, Aloe ferox and Sutherlandia frutescens MC King PhD Thesis, Department of Biotechnology, University of the Western Cape Actinobacteria, a Gram-positive phylum of bacteria found in both terrestrial and aquatic environments, are well-known producers of antibiotics and other bioactive compounds. The isolation of actinobacteria from unique environments has resulted in the discovery of new antibiotic compounds that can be used by the pharmaceutical industry. In this study, the fynbos biome was identified as one of these unique habitats due to its rich plant diversity that hosts over 8500 different plant species, including many medicinal plants. In this study two medicinal plants from the fynbos biome were identified as unique environments for the discovery of bioactive actinobacteria, Aloe ferox (Cape aloe) and Sutherlandia frutescens (cancer bush). Actinobacteria from the genera Streptomyces, Micromonaspora, Amycolatopsis and Alloactinosynnema were isolated from these two medicinal plants and tested for antibiotic activity. Actinobacterial isolates from soil (248; 188), roots (0; 7), seeds (0; 10) and leaves (0; 6), from A. ferox and S. frutescens, respectively, were tested for activity against a range of Gram-negative and Gram-positive human pathogenic bacteria. -
Phylogenetic Study of the Species Within the Family Streptomycetaceae
Antonie van Leeuwenhoek DOI 10.1007/s10482-011-9656-0 ORIGINAL PAPER Phylogenetic study of the species within the family Streptomycetaceae D. P. Labeda • M. Goodfellow • R. Brown • A. C. Ward • B. Lanoot • M. Vanncanneyt • J. Swings • S.-B. Kim • Z. Liu • J. Chun • T. Tamura • A. Oguchi • T. Kikuchi • H. Kikuchi • T. Nishii • K. Tsuji • Y. Yamaguchi • A. Tase • M. Takahashi • T. Sakane • K. I. Suzuki • K. Hatano Received: 7 September 2011 / Accepted: 7 October 2011 Ó Springer Science+Business Media B.V. (outside the USA) 2011 Abstract Species of the genus Streptomyces, which any other microbial genus, resulting from academic constitute the vast majority of taxa within the family and industrial activities. The methods used for char- Streptomycetaceae, are a predominant component of acterization have evolved through several phases over the microbial population in soils throughout the world the years from those based largely on morphological and have been the subject of extensive isolation and observations, to subsequent classifications based on screening efforts over the years because they are a numerical taxonomic analyses of standardized sets of major source of commercially and medically impor- phenotypic characters and, most recently, to the use of tant secondary metabolites. Taxonomic characteriza- molecular phylogenetic analyses of gene sequences. tion of Streptomyces strains has been a challenge due The present phylogenetic study examines almost all to the large number of described species, greater than described species (615 taxa) within the family Strep- tomycetaceae based on 16S rRNA gene sequences Electronic supplementary material The online version and illustrates the species diversity within this family, of this article (doi:10.1007/s10482-011-9656-0) contains which is observed to contain 130 statistically supplementary material, which is available to authorized users. -
Airborne Bacteria in Show Caves from Southern Spain
Research Report www.microbialcell.com Airborne bacteria in show caves from Southern Spain Irene Dominguez-Moñino1, Valme Jurado1, Miguel Angel Rogerio-Candelera1, Bernardo Hermosin1 and Cesareo Saiz-Jimenez1,* 1 Instituto de Recursos Naturales y Agrobiologia, IRNAS-CSIC, 41012 Sevilla, Spain. * Corresponding Author: Cesareo Saiz-Jimenez, Instituto de Recursos Naturales y Agrobiologia, IRNAS-CSIC, 41012 Sevilla, Spain; E-mail: [email protected] ABSTRACT This work presents a study on the airborne bacteria recorded in doi: xxx three Andalusian show caves, subjected to different managements. The main Received originally: 11.06.2021; differences within the caves were the absence of lighting and phototrophic In revised form: 13.07.2021, Accepted 21.07.2021, biofilms in Cueva de Ardales, the periodic maintenance and low occurrence of Published 26.07.2021. phototrophic biofilms in Gruta de las Maravillas, and the abundance of pho- totrophic biofilms in speleothems and walls in Cueva del Tesoro. These factors conditioned the diversity of bacteria in the caves and therefore there are Keywords: aerobiology, airborne large differences among the CFU m-3, determined using a suction impact col- bacteria, phototrophic biofilms, lector, equipment widely used in aerobiological studies. The study of the bac- Bacillus, Arthrobacter, Micrococcus. terial diversity, inside and outside the caves, indicates that the air is mostly populated by bacteria thriving in the subterranean environment. In addition, the diversity seems to be related with the presence of abundant phototrophic biofilms, but not with the number of visitors received by each cave. INTRODUCTION ing, or massive visits. The introduction of this ecological The region of Andalusia, Southern Spain, has an important indicator was possible due to the well-characterized air- number of show caves and shelters, most of them contain- borne fungal patterns, but unfortunately, this cannot be ing Paleolithic art and with high cultural interest. -
Antimicrobial Activity of Streptomyces Spp. Isolated from Apis Dorsata Combs Against Some Phytopathogenic Bacteria
Antimicrobial activity of Streptomyces spp. isolated from Apis dorsata combs against some phytopathogenic bacteria Yaowanoot Promnuan1, Saran Promsai1 and Sujinan Meelai2 1 Department of Microbiology, Faculty of Liberal Arts and Science, Kasetsart University-Kamphaeng Saen campus, Kamphaeng Saen, Nakhon Pathom, Thailand 2 Department of Microbiology, Faculty of Science, Silpakorn University-Sanam Chandra Palace campus, Nakhon Pathom, Nakhon Pathom, Thailand ABSTRACT The aim of this study was to investigate the antimicrobial potential of actinomycetes isolated from combs of the giant honey bee, Apis dorsata. In total, 25 isolates were obtained from three different media and were screened for antimicrobial activity against four plant pathogenic bacteria (Ralstonia solanacearum, Xanthomonas campestris pv. campestris, Xanthomonas oryzae pv. oryzae and Pectobacterium carotovorum). Following screening using a cross-streaking method, three isolates showed the potential to inhibit the growth of plant pathogenic bacteria. Based on a 96-well microtiter assay, the crude extract of DSC3-6 had minimum inhibitory concentration (MIC) values against X. oryzae pv. oryzae, X. campestris pv. campestris, R. solanacearum and P. carotovorum of 16, 32, 32 and 64 mg L−1, respectively. The crude extract of DGA3-20 had MIC values against X. oryzae pv. oryzae, X. campestris pv. campestris, R. solanacearum and P. carotovorum of 32, 32, 32 and 64 mg L−1, respectively. The crude extract of DGA8-3 at 32 mgL−1 inhibited the growth of X. oryzae pv. oryzae, X. campestris pv. campestris, R. solanacearum and P. carotovorum. Based on their 16S rRNA gene sequences, all isolates were identified as members of the genus Streptomyces. The analysis of 16S rRNA gene sequence similarity and of the phylogenetic tree based on the maximum likelihood algorithm showed that isolates DSC3-6, DGA3-20 and DGA8-3 were closely related Submitted 30 April 2020 to Streptomyces ramulosus (99.42%), Streptomyces axinellae (99.70%) and Streptomyces Accepted 16 November 2020 drozdowiczii (99.71%), respectively. -
A Taxonomic Study of the Genus Streptomyces by Analysis Of
INTERNATIONALJOURNAL OF SYSTEMATICBACTERIOLOGY, July 1995, p. 507-514 Vol. 45, No. 3 0020-7713/95/$04.00+ 0 Copyright 0 1995, International Union of Microbiological Societies A Taxonomic Study of the Genus Streptomyces by Analysis of Ribosomal Protein AT-L30 KOZO OCHI” National Food Research Institute, 2-1-2 Kannondai, Tsukuba, Ibaraki 305, Japan The ribosomal AT-I30 proteins from 81 species of the genus Streptomyces as listed by Williams et al. in Bergey’s Manual of Systematic Bacteriology were analyzed. My results provided further evidence that the genus Streptomyces is well circumscribed. On the basis of levels of AT-L30 N-terminal amino acid sequence homology, the strains were classified into four groups (groups I to IV) and a nongrouped category, whose members contained amino acid sequences characteristic of each species. A phylogenetic tree constructed on the basis of the levels of similarity of the amino acid sequences revealed the existence of six clusters within the genus. The first cluster contains the members of groups I and I1 together with several other species; the second cluster contains the members of groups I11 and IV and several other species; the third cluster contains Streptomyces ramulosus and Streptomyces ochraceiscleroticus; the fourth cluster contains only Streptomyces rimosus; the fifth cluster contains Streptomyces aurantiacus and Streptomyces tubercidicus; and the sixth cluster contains Strepto- myces albus and Streptomyces sulphureus. Considerable agreement between the results of the AT-L30 analyses and the results of numerical phenetic classification was found, although there were numerous disagreements in details. For example, four groups (groups I to IV) defined by the AT-L30 analysis data did not correlate with the aggregate groups defined by numerical classification.