A Novel Hydroxamic Acid-Containing Antibiotic Produced by a Saharan Soil-Living Streptomyces Strain A

Total Page:16

File Type:pdf, Size:1020Kb

A Novel Hydroxamic Acid-Containing Antibiotic Produced by a Saharan Soil-Living Streptomyces Strain A View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Open Archive Toulouse Archive Ouverte . . . . A novel hydroxamic acid-containing antibiotic produced by Streptomyces a Saharan soil-living strain 1,2 1 3 1 4 4 5 1 A. Yekkour , A. Meklat , C. Bijani , O. Toumatia , R. Errakhi , A. Lebrihi , F. Mathieu , A. Zitouni 1 and N. Sabaou 1 Laboratoire de Biologie des Systemes Microbiens (LBSM), Ecole Normale Superieure de Kouba, Alger, Algeria 2 Centre de Recherche Polyvalent, Institut National de la Recherche Agronomique d’Algerie, Alger, Algeria 3 Laboratoire de Chimie de Coordination (LCC), CNRS, Universite de Toulouse, UPS, INPT, Toulouse, France 4 Universite Moulay Ismail, Meknes, Morocco 5 Universite de Toulouse, Laboratoire de Genie Chimique UMR 5503 (CNRS/INPT/UPS), INP de Toulouse/ENSAT, Castanet-Tolosan Cedex, France Significance and Impact of the Study: This study presents the isolation of a Streptomyces strain, named WAB9, from a Saharan soil in Algeria. This strain was found to produce a new hydroxamic acid-contain- ing molecule with interesting antimicrobial activities towards various multidrug-resistant micro-organ- isms. Although hydroxamic acid-containing molecules are known to exhibit low toxicities in general, only real evaluations of the toxicity levels could decide on the applications for which this new molecule is potentially most appropriate. Thus, this article provides a new framework of research. Keywords Abstract antimicrobial activity, hydroxamic acid, Streptomyces, structure elucidation, During screening for potentially antimicrobial actinobacteria, a highly taxonomy. antagonistic strain, designated WAB9, was isolated from a Saharan soil of Algeria. A polyphasic approach characterized the strain taxonomically as a Correspondence member of the genus Streptomyces. The strain WAB9 exhibited a broad Nasserdine Sabaou, Laboratoire de Biologie spectrum of antimicrobial activity toward various multidrug-resistant micro- des Systemes Microbiens, Ecole Normale organisms. A PCR-based assay of genomic potential for producing bioactive Superieure de Kouba, Alger 16050, Algeria. E-mail: [email protected] metabolites revealed the presence of PKS-II gene. After 6 days of strain fermentation, one bioactive compound was extracted from the remaining aqueous phase and then purified by HPLC. The chemical structure of the compound was determined by spectroscopic (UV–visible, and 1H and 13C doi:10.1111/lam.12412 NMR) and spectrometric analysis. The compound was identified to be 2-amino-N-(2-amino-3-phenylpropanoyl)-N-hydroxy-3-phenylpropanamide, a novel hydroxamic acid-containing molecule. The pure molecule showed appreciable minimum inhibitory concentration values against a selection of drug-resistant bacteria, filamentous fungi and yeasts. Introduction respect to their effects against pathogenic strains and have led to the discovery of a large number of novel active Actinobacteria are a group of ubiquitous Gram-positive compounds of considerable value (Solecka et al. 2012). bacteria with a percentage of guanine–cytosine higher However, the present context of both a decline in the dis- than 55%, and most of them produce mycelia. Because of covery of new antibiotics and an increase in drug-resis- their ability to provide a broad range of bioactive com- tant pathogens makes the screening for new antibiotic- pounds, these micro-organisms have attracted much producing Streptomyces essential. interest. Members of this group, in particular those One of the strategies for enhancing the likelihood of belonging to the genus Streptomyces, are considered as the obtaining particularly interesting isolates and secondary most important producers of bioactive molecules. There- metabolites is to analyse extreme habitats (Santhanam fore, Streptomyces have been thoroughly investigated with et al. 2012), such as arid Saharan soils. Previous surveys on the ecological distribution of Actinomycetes in Alge- Table 1 Antagonistic properties of the strain WAB9 against various multidrug-resistant micro-organisms rian Saharan soils have already demonstrated their appre- ciable biodiversity (Sabaou et al. 1998) and permitted Target micro-organism new species and new antibiotics to be found (Boubetra (antibiotic resistance pattern*) Activity† (mm) et al. 2013; Meklat et al. 2013). Bacillus subtilis ATCC 6633 (NEO) 39 Hydroxamic acids (bearing the functional group N- Staphylococcus aureus S1 28 hydroxy amide) are one such interesting class of molecule (CAR, GEN, K, NEO, OLE, SPI, VAN) produced by many Streptomyces species (Dimkpa et al. Enterobacter cloacae E13 (AMC, ATM, CEP, 29 2008; Kodani et al. 2013). Their low toxicities in general, CTX, FEP, FOX, GEN, PIP, TCC, TIC, TOB) their weak acid properties and their ability for complex- Escherichia coli E52 (ATM, CAZ, CEP, CTX, 35 ing transition metal ions have resulted in these molecules FEP, GEN, PIP, TIC, TOB) Klebsiella pneumoniae K44 (AMX, AN, CF, 29 receiving considerable attention for broad therapeutic and CRO, CTX, CXM, GEN, K, MZ, SSS, TIC) industrial applications (Vanjari and Pande 2003; Rho Pseudomonas aeruginosa IPA1 (AMX, CAR, 29 et al. 2006; Jahangirian et al. 2011). Among their numer- GEN, NEO, SPI, SSS, VAN) ous properties, hydroxamic acids and derivatives have Salmonella enterica E32 (ATM, CAZ, CEP, 16 been largely reported as effective antibacterial and anti- CTX, FEP, GEM, PIP, TIC, TOB) fungal agents (Li et al. 2003; Pepeljnjak et al. 2005). These Fusarium culmorum (CHX, ITR, NYS, TIZ) 39 activities are connected with the ability of hydroxamic Fusarium moniliforme (AMB, CHX, NYS, TIZ) 29 Fusarium sporotrichoides 20 acids to potently and selectively inhibit a range of (AMB, CHX, ITR, NYS, TIZ, TER) enzymes that are vital for the survival of bacteria, such as Fusarium graminearum (CHX, NYS, TIZ) 25 various metalloproteinases, urease, cyclooxygenases and Fusarium oxysporum f. sp. lini (ITR,TIZ) 25 peroxidase (Muri et al. 2004). F. oxysporum f. sp. albedinis 26 Recently, exploration of microbial antibiotic potential (AMB, CHX, ITR, NYS, TIZ, TER) has focused on the screening of polyketide synthase (PKS) Fusarium proliferatum (CHX, ITR, NYS, TIZ) 22 and nonribosomal peptide synthetase (NRPS) genes. This Fusarium equiseti (CHX, TIZ) 30 Aspergillus carbonarius (CHX, NYS) 33 exploration approach seems applicable for hydroxamic Aspergillus niger (AMB, CHX, NYS, TIZ) 25 acid-containing molecules, since these molecules are Aspergillus flavus (TIZ) 26 already known to be synthesized through NRPS-depen- Aspergillus parasiticus (AMB, CHX, ITR, NYS, TIZ) 20 dent or independent pathways (Barry and Challis 2009; Penicillium glabrum (CHX) 38 Oves-Costales et al. 2009). Penicillium expansum 37 Here, we describe the isolation of a highly antagonistic Umbelopsis ramanniana (CHX, ITR, TIZ, TER) 36 Streptomyces strain, designated WAB9, from a Saharan soil Candida albicans IPA 200 (NYS, ITR, TIZ, CHX, TER) 15 Saccharomyces cerevisiae ATCC 4226 34 sample and its identification by conventional and molecu- lar methods, together with production and structure eluci- AMC, amoxicillin + clavulanic acid; AMX, amoxicillin; AN, amikacin; dation of the corresponding bioactive compound, which ATM, aztreonam; C, chloramphenicol; CAR, carbenicillin; CAZ, ceftazi- was found to be a new hydroxamic acid-containing antibi- dime; CFP, cefpirome; CRO, ceftriaxone; CTX, cefotaxime; CXM, ce- otic. The minimum inhibitory concentrations (MICs) of furoxime; FEP, cefepime; FOX, cefoxitin; GEN, gentamicin; K, kanamycin; MZ, mezlocillin; NEO, neomycin; OLE, oleandomycin PIP, this antibiotic were also evaluated on a set of various mul- piperacillin; SPI; spiramycin; SSS, sulfamide; TCC, ticarcillin + clavulan- tidrug-resistant bacteria, filamentous fungi and yeasts. ic acid; TIC, ticarcillin; TOB, tobramycin; VAN, vancomycin; AMB, amphotericin B; CHX, cycloheximide; ITR, itraconazole; NYS, nystatin; TIZ, thioconazole; TER, terbinafine. Results and discussion *The antibiotic resistance patterns were evaluated in house as The strain WAB9 was isolated by plating a 2 : 10 serial described by Touati et al. (2006). dilution of the soil sample of Bechar on chitin-vitamin †Activity estimated by measuring the length of inhibition between agar medium supplemented with selective antibiotics. Actinomycetes and target micro-organisms. This strain was found in only a single small colony, which shows it rarity. the targeted bacteria, filamentous fungi and yeasts (dis- tance of inhibition ranged between 15 and 35 mm). Sal- monella enterica and Candida albicans were the least Antagonistic properties and detection of PKS and NRPS sensitive (distance of inhibition <20 mm). The use of sequences antibiotics as selective agents in the isolation of actino- The strain WAB9 exhibited a broad spectrum of antimi- bacteria has already been mentioned as a successful crobial activity (Table 1), since it was active against all method for the isolation of interesting strains originating from Saharan soils (Sabaou et al. 1998) and has permitted mannitol, rhamnose, salicine, xylose, histidine, phenylala- novel species and antibiotics to be discovered (Boubetra nine, proline, starch and xanthine, but not melibiose, raf- et al. 2013; Meklat et al. 2013). finose or sucrose. The strain was able to grow in the Á Only the PKS-II gene was detected through the PCR- presence of phenol (0 1% w/v), penicillin (10 UI) and rif- À based screening of genomic potential for producing bio- ampicin (50 lgml 1),
Recommended publications
  • Identification and Antibiosis of a Novel Actinomycete Strain RAF-11 Isolated from Iraqi Soil
    View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by GSSRR.ORG: International Journals: Publishing Research Papers in all Fields International Journal of Sciences: Basic and Applied Research (IJSBAR) ISSN 2307-4531 http://gssrr.org/index.php?journal=JournalOfBasicAndApplied Identification and Antibiosis of a Novel Actinomycete Strain RAF-11 Isolated From Iraqi Soil. R. FORAR. LAIDIa, A. ABDERRAHMANEb, A. A. HOCINE NORYAc. a Department of Natural Sciences, Ecole Normale Superieure, Vieux-Kouba, Algiers – Algeria b,c Institute of Genetic Engineering and Biotechnology, Baghdad - Iraq. a email: [email protected] Abstract A total of 35 actinomycetes strains were isolated from and around Baghdad, Iraq, at a depth of 5-10 m, by serial dilution agar plating method. Nineteen out of them showed noticeable antimicrobial activities against at least, to one of the target pathogens. Five among the nineteen were active against both Gram positive and Gram negative bacteria, yeasts and moulds. The most active isolate, strain RAF-11, based on its largest zone of inhibition and strong antifungal activity, especially against Candida albicans and Aspergillus niger, the causative of candidiasis and aspergillosis respectively, was selected for identification. Morphological and chemical studies indicated that this isolate belongs to the genus Streptomyces. Analysis of the 16S rDNA sequence showed a high similarity, 98 %, with the most closely related species, Streptomyces labedae NBRC 15864T/AB184704, S. erythrogriseus LMG 19406T/AJ781328, S. griseoincarnatus LMG 19316T/AJ781321 and S. variabilis NBRC 12825T/AB184884, having the closest match. From the taxonomic features, strain RAF-11 matched with S. labedae, in the morphological, physiological and biochemical characters, however it showed significant differences in morphological characteristics with this nearest species, S.
    [Show full text]
  • In Vitro Antagonistic Activity of Soil Streptomyces Collinus Dpr20 Against Bacterial Pathogens
    IN VITRO ANTAGONISTIC ACTIVITY OF SOIL STREPTOMYCES COLLINUS DPR20 AGAINST BACTERIAL PATHOGENS Pachaiyappan Saravana Kumar1, Michael Gabriel Paulraj1, Savarimuthu Ignacimuthu1,3*, Naif Abdullah Al-Dhabi2, Devanathan Sukumaran4 Address(es): Dr. Savarimuthu Ignacimuthu, 1Division of Microbiology, Entomology Research Institute, Loyola College, Chennai, India-600 034. 2Department of Botany and Microbiology, Addiriyah Chair for Environmental Studies, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia. 3International Scientific Program Partnership (ISPP), King Saud University, Riyadh11451, Saudi Arabia 4Vector Management Division, Defence Research and Development Establishment, Gwalior, Madhya Pradesh, India. *Corresponding author: [email protected] doi: 10.15414/jmbfs.2017/18.7.3.317-324 ARTICLE INFO ABSTRACT Received 20. 9. 2017 Actinomycetes are one of the most important groups that produce useful secondary metabolites. They play a great role in pharmaceutical Revised 2. 11. 2017 and industrial uses. The search for antibiotic producing soil actinomycetes to inhibit the growth of pathogenic microorganisms has Accepted 6. 11. 2017 become widespread due to the need for newer antibiotics. The present work was aimed to isolate soil actinomycetes from pinus tree Published 1. 12. 2017 rhizosphere from Doddabetta, Western Ghats, Tamil Nadu, India. Thirty one actinomycetes were isolated based on heterogeneity and stability in subculturing; they were screened against 5 Gram positive and 7 Gram negative bacteria in an in vitro antagonism assay. In the preliminary screening, out of 31 isolates, 12.09% showed good antagonistic activity; 25.08% showed moderate activity; 19.35% Regular article showed weak activity and 41.93% showed no activity against the tested bacteria. Among the isolates tested, DPR20 showed good antibacterial activity against both Gram positive and Gram negative bacteria.
    [Show full text]
  • DAFTAR PUSTAKA Abidin, Z. A. Z., A. J. K. Chowdhury
    160 DAFTAR PUSTAKA AKTINOMISETES PENGHASIL ANTIBIOTIK DARI HUTAN BAKAU TOROSIAJE GORONTALO YULIANA RETNOWATI, PROF. DR. A. ENDANG SUTARININGSIH SOETARTO, M.SC; PROF. DR. SUKARTI MOELJOPAWIRO, M.APP.SC; PROF. DR. TJUT SUGANDAWATY DJOHAN, M.SC Universitas Gadjah Mada, 2019 | Diunduh dari http://etd.repository.ugm.ac.id/ Abidin, Z. A. Z., A. J. K. Chowdhury, N. A. Malek, and Z. Zainuddin. 2018. Diversity, antimicrobial capabilities, and biosynthetic potential of mangrove actinomycetes from coastal waters in Pahang, Malaysia. J. Coast. Res., 82:174–179 Adegboye, M. F., and O. O. Babalola. 2012. Taxonomy and ecology of antibiotic producing actinomycetes. Afr. J. Agric. Res., 7(15):2255-2261 Adegboye, M.,F., and O. O. Babalola. 2013. Actinomycetes: a yet inexhausative source of bioactive secondary metabolites. Microbial pathogen and strategies for combating them: science, technology and eductaion, (A.Mendez-Vila, Ed.). Pp. 786 – 795. Adegboye, M. F., and O. O. Babalola. 2015. Evaluation of biosynthesis antibiotic potential of actinomycete isolates to produces antimicrobial agents. Br. Microbiol. Res. J., 7(5):243-254. Accoceberry, I., and T. Noel. 2006. Antifungal cellular target and mechanisms of resistance. Therapie., 61(3): 195-199. Abstract. Alongi, D. M. 2009. The energetics of mangrove forests. Springer, New Delhi. India Alongi, D. M. 2012. Carbon sequestration in mangrove forests. Carbon Management, 3(3):313-322 Amrita, K., J. Nitin, and C. S. Devi. 2012. Novel bioactive compounds from mangrove dirived Actinomycetes. Int. Res. J. Pharm., 3(2):25-29 Ara, I., M. A Bakir, W. N. Hozzein, and T. Kudo. 2013. Population, morphological and chemotaxonomical characterization of diverse rare actinomycetes in the mangrove and medicinal plant rhizozphere.
    [Show full text]
  • 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.
    [Show full text]
  • Study of Actinobacteria and Their Secondary Metabolites from Various Habitats in Indonesia and Deep-Sea of the North Atlantic Ocean
    Study of Actinobacteria and their Secondary Metabolites from Various Habitats in Indonesia and Deep-Sea of the North Atlantic Ocean 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 Chandra Risdian aus Jakarta / Indonesien 1. Referent: Professor Dr. Michael Steinert 2. Referent: Privatdozent Dr. Joachim M. Wink eingereicht am: 18.12.2019 mündliche Prüfung (Disputation) am: 04.03.2020 Druckjahr 2020 ii Vorveröffentlichungen der Dissertation Teilergebnisse aus dieser Arbeit wurden mit Genehmigung der Fakultät für Lebenswissenschaften, vertreten durch den Mentor der Arbeit, in folgenden Beiträgen vorab veröffentlicht: Publikationen Risdian C, Primahana G, Mozef T, Dewi RT, Ratnakomala S, Lisdiyanti P, and Wink J. Screening of antimicrobial producing Actinobacteria from Enggano Island, Indonesia. AIP Conf Proc 2024(1):020039 (2018). Risdian C, Mozef T, and Wink J. Biosynthesis of polyketides in Streptomyces. Microorganisms 7(5):124 (2019) Posterbeiträge Risdian C, Mozef T, Dewi RT, Primahana G, Lisdiyanti P, Ratnakomala S, Sudarman E, Steinert M, and Wink J. Isolation, characterization, and screening of antibiotic producing Streptomyces spp. collected from soil of Enggano Island, Indonesia. The 7th HIPS Symposium, Saarbrücken, Germany (2017). Risdian C, Ratnakomala S, Lisdiyanti P, Mozef T, and Wink J. Multilocus sequence analysis of Streptomyces sp. SHP 1-2 and related species for phylogenetic and taxonomic studies. The HIPS Symposium, Saarbrücken, Germany (2019). iii Acknowledgements Acknowledgements First and foremost I would like to express my deep gratitude to my mentor PD Dr.
    [Show full text]
  • Actinobacteria and Myxobacteria Isolated from Freshwater Snails and Other Uncommon Iranian Habitats, Their Taxonomy and Secondary Metabolism
    Actinobacteria and Myxobacteria isolated from freshwater snails and other uncommon Iranian habitats, their taxonomy and secondary metabolism Von der Fakultät für Lebenswissenschaften der Technischen Universität Carolo-Wilhelmina zu Braunschweig zur Erlangung des Grades einer Doktorin der Naturwissenschaften (Dr. rer. nat.) genehmigte D i s s e r t a t i o n von Nasim Safaei aus Teheran / Iran 1. Referent: Professor Dr. Michael Steinert 2. Referent: Privatdozent Dr. Joachim M. Wink eingereicht am: 24.02.2021 mündliche Prüfung (Disputation) am: 20.04.2021 Druckjahr 2021 Vorveröffentlichungen der Dissertation Teilergebnisse aus dieser Arbeit wurden mit Genehmigung der Fakultät für Lebenswissenschaften, vertreten durch den Mentor der Arbeit, in folgenden Beiträgen vorab veröffentlicht: Publikationen Safaei, N. Mast, Y. Steinert, M. Huber, K. Bunk, B. Wink, J. (2020). Angucycline-like aromatic polyketide from a novel Streptomyces species reveals freshwater snail Physa acuta as underexplored reservoir for antibiotic-producing actinomycetes. J Antibiotics. DOI: 10.3390/ antibiotics10010022 Safaei, N. Nouioui, I. Mast, Y. Zaburannyi, N. Rohde, M. Schumann, P. Müller, R. Wink.J (2021) Kibdelosporangium persicum sp. nov., a new member of the Actinomycetes from a hot desert in Iran. Int J Syst Evol Microbiol (IJSEM). DOI: 10.1099/ijsem.0.004625 Tagungsbeiträge Actinobacteria and myxobacteria isolated from freshwater snails (Talk in 11th Annual Retreat, HZI, 2020) Posterbeiträge Myxobacteria and Actinomycetes isolated from freshwater snails and
    [Show full text]
  • Synthesis of Antibacterial Silver Nanoparticles From
    SYNTHESIS OF ANTIBACTERIAL SILVER NANOPARTICLES FROM ACTINOMYCETES ISOLATED FROM THIKA INDUSTRIAL WASTE DUMP SITES SOIL AND MOLECULAR IDENTIFICATION OF POTENTIAL ACTINOMYCETES ABEBE BIZUYE KASSAHUN DOCTOR OF PHILOSOPHY IN MOLECULAR BIOLOGY AND BIOTECHNOLOGY PAN AFRICAN UNIVERSITY INSTITUTE FOR BASIC SCIENCES, TECHNOLOGY AND INNOVATION 2018 SYNTHESIS OF ANTIBACTERIAL SILVER NANOPARTICLES FROM ACTINOMYCETES ISOLATED FROM THIKA INDUSTRIAL WASTE DUMP SITES SOIL AND MOLECULAR IDENTIFICATION OF POTENTIAL ACTINOMYCETES Abebe Bizuye Kassahun MB400-0005/15 A Thesis submitted to Pan African University Institute for Basic Sciences, Technology and Innovation in partial fulfillment of the requirements for the degree of Doctor of Philosophy in Molecular Biology and Biotechnology 2018 DECLARATION Statement by the student I, declare that this thesis submitted to the Pan African University Institute of Basic Sciences, Technology and Innovation in partial fulfillment of the requirements for the degree of doctor of philosophy in Molecular Biology and Biotechnology, is original research work done by me under the supervision and guidance of my supervisors, except where due acknowledgement is made in the text; to the best of my knowledge it has not been submitted to in this institution or other institutions seeking for similar degree or other purposes. Student name: Abebe Bizuye Kassahun Signature---------------Date--------------------- ID: MB400-0005/2015 This thesis has been submitted with our approval as university supervisors. 1. Professor Naomi Maina Signature------------------------Date------------------ JKUAT, Nairobi, Kenya 2. Professor Erastus Gatebe Signature-----------------------Date---------------- KIRDI, Nairobi, Kenya 3. Doctor Christine Bii Signature-----------------------Date------------------ KEMRI, Nairobi, Kenya iii DEDICATION I dedicated this work to my parents and family for their support and encouragement throughout my studies.
    [Show full text]
  • 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.
    [Show full text]
  • Genome Analysis of Streptomyces Nojiriensis JCM 3382 and Distribution of Gene Clusters for Three Antibiotics and an Azasugar Across the Genus Streptomyces
    microorganisms Article Genome Analysis of Streptomyces nojiriensis JCM 3382 and Distribution of Gene Clusters for Three Antibiotics and an Azasugar across the Genus Streptomyces Jin-Soo Park 1 , Da-Eun Kim 1, Sung-Chul Hong 1, Seung-Young Kim 2, Hak Cheol Kwon 1 , Chang-Gu Hyun 3,* and Jaeyoung Choi 4,* 1 Natural Product Informatics Research Center, Korea Institute of Science and Technology, Gangneung 25451, Korea; [email protected] (J.-S.P.); [email protected] (D.-E.K.); [email protected] (S.-C.H.); [email protected] (H.C.K.) 2 Department of Pharmaceutical Engineering & Biotechnology, Sunmoon University, Chungnam 31460, Korea; [email protected] 3 Department of Chemistry and Cosmetics, Jeju National University, Jeju 63243, Korea 4 Smart Farm Research Center, Korea Institute of Science and Technology, Gangneung 25451, Korea * Correspondence: [email protected] (C.-G.H.); [email protected] (J.C.) Abstract: Streptomyces spp. have been major contributors of novel natural products that are used in many application areas. We found that the nojirimycin (NJ) producer JCM 3382 has antimicrobial activity against Staphylococcus aureus via cellular degradation. Genome analysis revealed 30 biosyn- thetic gene clusters, including those responsible for producing antibiotics, including an azasugar Citation: Park, J.-S.; Kim, D.-E.; NJ. In-depth MS/MS analysis confirmed the production of 1-deoxynojirimycin (DNJ) along with Hong, S.-C.; Kim, S.-Y.; Kwon, H.C.; NJ. In addition, the production of tambromycins, setomimycin, and linearmycins was verified by Hyun, C.-G.; Choi, J. Genome spectroscopic analyses, including LC-MS and NMR.
    [Show full text]
  • 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 .....................................................................................................................
    [Show full text]
  • 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.
    [Show full text]
  • Production of Vineomycin A1 and Chaetoglobosin a by Streptomyces Sp
    Production of vineomycin A1 and chaetoglobosin A by Streptomyces sp. PAL114 Adel Aouiche, Atika Meklat, Christian Bijani, Abdelghani Zitouni, Nasserdine Sabaou, Florence Mathieu To cite this version: Adel Aouiche, Atika Meklat, Christian Bijani, Abdelghani Zitouni, Nasserdine Sabaou, et al.. Produc- tion of vineomycin A1 and chaetoglobosin A by Streptomyces sp. PAL114. Annals of Microbiology, Springer, 2015, 65 (3), pp.1351-1359. 10.1007/s13213-014-0973-1. hal-01923617 HAL Id: hal-01923617 https://hal.archives-ouvertes.fr/hal-01923617 Submitted on 15 Nov 2018 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. Open Archive Toulouse Archive Ouverte OATAO is an open access repository that collects the work of Toulouse researchers and makes it freely available over the web where possible This is an author’s version published in: http://oatao.univ-toulouse.fr/20338 Official URL: https://doi.org/10.1007/s13213-014-0973-1 To cite this version: Aouiche, Adel and Meklat, Atika and Bijani, Christian and Zitouni, Abdelghani and Sabaou, Nasserdine and Mathieu, Florence Production of vineomycin A1 and chaetoglobosin A by Streptomyces sp. PAL114. (2015) Annals of Microbiology, 65 (3). 1351-1359.
    [Show full text]