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Discovery of a Paenibacillus Isolate for Biocontrol of Black Rot in Brassicas
Lincoln University Digital Thesis Copyright Statement The digital copy of this thesis is protected by the Copyright Act 1994 (New Zealand). This thesis may be consulted by you, provided you comply with the provisions of the Act and the following conditions of use: you will use the copy only for the purposes of research or private study you will recognise the author's right to be identified as the author of the thesis and due acknowledgement will be made to the author where appropriate you will obtain the author's permission before publishing any material from the thesis. Discovery of a Paenibacillus isolate for biocontrol of black rot in brassicas A thesis submitted in partial fulfilment of the requirements for the Degree of Doctor of Philosophy at Lincoln University by Hoda Ghazalibiglar Lincoln University 2014 DECLARATION This dissertation/thesis (please circle one) is submitted in partial fulfilment of the requirements for the Lincoln University Degree of ________________________________________ The regulations for the degree are set out in the Lincoln University Calendar and are elaborated in a practice manual known as House Rules for the Study of Doctor of Philosophy or Masters Degrees at Lincoln University. Supervisor’s Declaration I confirm that, to the best of my knowledge: • the research was carried out and the dissertation was prepared under my direct supervision; • except where otherwise approved by the Academic Administration Committee of Lincoln University, the research was conducted in accordance with the degree regulations and house rules; • the dissertation/thesis (please circle one)represents the original research work of the candidate; • the contribution made to the research by me, by other members of the supervisory team, by other members of staff of the University and by others was consistent with normal supervisory practice. -
Paenibacillaceae Cover
The Family Paenibacillaceae Strain Catalog and Reference • BGSC • Daniel R. Zeigler, Director The Family Paenibacillaceae Bacillus Genetic Stock Center Catalog of Strains Part 5 Daniel R. Zeigler, Ph.D. BGSC Director © 2013 Daniel R. Zeigler Bacillus Genetic Stock Center 484 West Twelfth Avenue Biological Sciences 556 Columbus OH 43210 USA www.bgsc.org The Bacillus Genetic Stock Center is supported in part by a grant from the National Sciences Foundation, Award Number: DBI-1349029 The author disclaims any conflict of interest. Description or mention of instrumentation, software, or other products in this book does not imply endorsement by the author or by the Ohio State University. Cover: Paenibacillus dendritiformus colony pattern formation. Color added for effect. Image courtesy of Eshel Ben Jacob. TABLE OF CONTENTS Table of Contents .......................................................................................................................................................... 1 Welcome to the Bacillus Genetic Stock Center ............................................................................................................. 2 What is the Bacillus Genetic Stock Center? ............................................................................................................... 2 What kinds of cultures are available from the BGSC? ............................................................................................... 2 What you can do to help the BGSC ........................................................................................................................... -
Comparative Fecal Metagenomics Unveils Unique Functional Capacity
Lamendella et al. BMC Microbiology 2011, 11:103 http://www.biomedcentral.com/1471-2180/11/103 RESEARCHARTICLE Open Access Comparative fecal metagenomics unveils unique functional capacity of the swine gut Regina Lamendella1,4, Jorge W Santo Domingo2*, Shreya Ghosh1, John Martinson3 and Daniel B Oerther1,5 Abstract Background: Uncovering the taxonomic composition and functional capacity within the swine gut microbial consortia is of great importance to animal physiology and health as well as to food and water safety due to the presence of human pathogens in pig feces. Nonetheless, limited information on the functional diversity of the swine gut microbiome is available. Results: Analysis of 637, 722 pyrosequencing reads (130 megabases) generated from Yorkshire pig fecal DNA extracts was performed to help better understand the microbial diversity and largely unknown functional capacity of the swine gut microbiome. Swine fecal metagenomic sequences were annotated using both MG-RAST and JGI IMG/M-ER pipelines. Taxonomic analysis of metagenomic reads indicated that swine fecal microbiomes were dominated by Firmicutes and Bacteroidetes phyla. At a finer phylogenetic resolution, Prevotella spp. dominated the swine fecal metagenome, while some genes associated with Treponema and Anareovibrio species were found to be exclusively within the pig fecal metagenomic sequences analyzed. Functional analysis revealed that carbohydrate metabolism was the most abundant SEED subsystem, representing 13% of the swine metagenome. Genes associated with stress, virulence, cell wall and cell capsule were also abundant. Virulence factors associated with antibiotic resistance genes with highest sequence homology to genes in Bacteroidetes, Clostridia, and Methanosarcina were numerous within the gene families unique to the swine fecal metagenomes. -
Mutually Facilitated Dispersal Between the Nonmotile Fungus Aspergillus Fumigatus and the Swarming Bacterium Paenibacillus Vortex
Mutually facilitated dispersal between the nonmotile fungus Aspergillus fumigatus and the swarming bacterium Paenibacillus vortex Colin J. Inghama,b,c,1, Oren Kalismand, Alin Finkelshteind,e, and Eshel Ben-Jacobd,1 aLaboratory of Microbiology, Wageningen University, 6703 HB, Wageningen, The Netherlands; bJBZ Hospital, Department of Infection Control and Microbiology, 5223 GZ, Den Bosch, The Netherlands; cMicroDish BV, 3584 CH, Utrecht, The Netherlands; dThe Sackler School of Physics and Astronomy, Tel Aviv University, Tel Aviv 69978, Israel; and eThe Sackler School of Medicine, Tel Aviv University, Tel Aviv 69978, Israel Edited* by Nigel D. Goldenfeld, University of Illinois at Urbana–Champaign, Urbana, IL, and approved October 19, 2011 (received for review February 25, 2011) In the heterogeneous environment surrounding plant roots (the bials, including putative antifungals. P. vortex is known to limit the rhizosphere), microorganisms both compete and cooperate. Here, growth of Verticillium dahliae, a fungal pathogen of plants (8). we show that two very different inhabitants of the rhizosphere, Members of the genus Paenibacillus have a variety of interactions the nonmotile fungus Aspergillus fumigatus and the swarming with fungi, both antagonistic (9, 10) and cooperative; an example bacterium Paenibacillus vortex, can facilitate each other’s dis- of the latter is stimulation of the growth of the fungus Glomus persal. A. fumigatus conidia (nonmotile asexual fungal spores) intraradices by P. validus (11). can be transported by P. vortex swarms over distances of at least Aspergillus fumigatus is another versatile inhabitant of the −1 30 cm and at rates of up to 10.8 mm h . Moreover, conidia can be rhizosphere and many other environments; its 29.4-Mb genome rescued and transported by P. -
Mesures De Maîtrise De La Brucellose Chez Les Bouquetins Du Bargy Co
Co-exposureMesures de maîtrise of bees tode stressla brucellose factors chez les bouquetins du Bargy AvisANSES de l’AnsesOpinion RapportExpert Report d’expertise collective JuilletJuly 2015 2015 ÉditionScientific scientifique publication Co-exposure of bees to stress factors ANSES Opinion Expert Report July 2015 Scientific publication ANSES Opinion Request No 2012-SA-0176 The Director General Maisons-Alfort, 30 June 2015 OPINION of the French Agency for Food, Environmental and Occupational Health & Safety on co-exposure of bees to stress factors ANSES undertakes independent and pluralistic scientific expert assessments. ANSES's public health mission involves ensuring environmental, occupational and food safety as well as assessing the potential health risks they may entail. It also contributes to the protection of the health and welfare of animals, the protection of plant health and the evaluation of the nutritional characteristics of food. It provides the competent authorities with the necessary information concerning these risks as well as the requisite expertise and technical support for drafting legislative and statutory provisions and implementing risk management strategies (Article L.1313-1 of the French Public Health Code). Its opinions are made public. This opinion is a translation of the original French version. In the event of any discrepancy or ambiguity the French language text dated 30 June 2015 shall prevail. ANSES issued a formal internal request on 13 July 2012 concerning the issue of co-exposure of bees to stress factors. 1. BACKGROUND AND PURPOSE OF THE REQUEST Over the last 50 years or so, the number of pollinators has been on the decline in industrialised countries. -
2017000001553.Pdf
EVALUACIÓN DE MICROORGANISMOS, ENMIENDAS ORGÁNICAS Y SUSTANCIAS NATURALES PARA EL CONTROL BIOLÓGICO DE LA VERTICILOSIS EN OLIVO TESIS DOCTORAL ÁNGELA VARO SUÁREZ TITULO: EVALUACIÓN DE ENMIENDAS ORGÁNICAS, MICROORGANISMOS Y PRODUCTOS NATURALES PARA EL CONTROL BIOLÓGICO DE LA VERTICILOSIS EN OLIVO AUTOR: Ángela Varo Suarez © Edita: UCOPress. 2017 Campus de Rabanales Ctra. Nacional IV, Km. 396 A 14071 Córdoba www.uco.es/publicaciones [email protected] ESCUELA TÉCNICA SUPERIOR DE INGENIERÍA AGRONÓMICA Y DE MONTES. DEPARTAMENTO DE AGRONOMÍA Programa de Doctorado en Ingeniería Agraria, Alimentaria, Forestal y de Desarrollo Rural Sostenible EVALUACIÓN DE ENMIENDAS ORGÁNICAS, MICROORGANISMOS Y PRODUCTOS NATURALES PARA EL CONTROL BIOLÓGICO DE LA VERTICILOSIS EN OLIVO (EVALUATION OF ORGANIC AMENDMENTS, MICROORGANISMS, AND NATURAL PRODUCTS FOR THE CONTROL OF VERTICILLIUM WILT IN OLIVE) Memoria de Tesis para aspirar al grado de Doctor con Mención Internacional por la Universidad de Córdoba por la Ingeniera Agrónoma Ángela Varo Suárez Director: Dr. Antonio Trapero Casas Córdoba, Noviembre 2016 TÍTULO DE LA TESIS: Evaluación de enmiendas orgánicas, microorganismos y productos naturales para el control biológico de la Verticilosis en olivo. DOCTORANDO/A: Ángela Varo Suárez INFORME RAZONADO DEL/DE LOS DIRECTOR/ES DE LA TESIS (se hará mención a la evolución y desarrollo de la tesis, así como a trabajos y publicaciones derivados de la misma). La doctoranda Ángela Varo Suárez ha realizado satisfactoriamente y en los plazos previstos el trabajo presentado en esta Tesis Doctoral. A lo largo de su investigación, la doctoranda ha contribuido con diversas aportaciones de interés para la comunidad científica respecto al control de la Verticilosis del olivo mediante control biológico, así como la identificación de potenciales tratamientos biológicos. -
Isolati on and Bacill D Char Lus Spe Acteriz Ecies I Zation N Lake of Ant E
Vol. 9(14), pp. 1037-1043, 8 April, 2015 DOI: 10.5897/AJMR2015.7441 Article Number: FF2AA0F52318 ISSN 1996-0808 African Journal of Microbiology Research Copyright © 2015 Author(s) retain the copyrighht of this article http://www.academicjournals.org/AJMR Full Length Research Paper Isolation and characterization of antibiotic producing Bacillus species in Lake Bogoria, Kenya Tom Kintet Torome1*, Lexa Gomezgani Matasyoh2, George Orinda1 and Francis Gakuya3 1Biochemistry and Biotechnology Department, Kenyatta University, P. O. Box 43844-00100, Nairobi, Kenya. 2Biological Science Department, University of Eldoret, P. O. Box 1125-30100, Eldoret, Kenya. 3Kenya Wildlife Service, P. O. Box 402411-00100, Nairobi, Kenya. Received 20 February, 2015; Accepted 25 March, 2015 Bacilli are a large homogeneous group of bacteria that survive in a wide range of environmental conditions. Formation of resistant spores allows them to survive in high temperature zones where other organisms cannot. Eighty samples were collected and inoculated directly into nutrient broth. Of the eighty samples collected, thirty three exhibited growth. Nine of these were Gram positive rods, twenty were Gram negative rods, and four were Gram positive cocci. Only cultures that yielded Gram positive rods were processed further. Antimicrobial profiling was performed using standard organisms: Staphylococcus aureus ATCC 29213, Escherichia coli ATCC 25922, E. coli 35218 and Pseuddomonas aeruginosa ATCC 27853. No inhibition was noted against S. aureus ATCC 29213 and E. coli 35218. Five of the nine Gram positive isolates revealed inhibitory properties against the standard organisms. Phylogenetic analysis of amplified 16S rDNA gene conffirmed that aall the six antagonistic isolates formed close phylogenetic clusters with known members of Bacillus species with a 88-99% sequence identity. -
Indole and 3-Indolylacetonitrile Inhibit Spore Maturation in Paenibacillus Alvei Yong-Guy Kim, Jin-Hyung Lee, Moo Hwan Cho and Jintae Lee*
Kim et al. BMC Microbiology 2011, 11:119 http://www.biomedcentral.com/1471-2180/11/119 RESEARCHARTICLE Open Access Indole and 3-indolylacetonitrile inhibit spore maturation in Paenibacillus alvei Yong-Guy Kim, Jin-Hyung Lee, Moo Hwan Cho and Jintae Lee* Abstract Background: Bacteria use diverse signaling molecules to ensure the survival of the species in environmental niches. A variety of both Gram-positive and Gram-negative bacteria produce large quantities of indole that functions as an intercellular signal controlling diverse aspects of bacterial physiology. Results: In this study, we sought a novel role of indole in a Gram-positive bacteria Paenibacillus alvei that can produce extracellular indole at a concentration of up to 300 μM in the stationary phase in Luria-Bertani medium. Unlike previous studies, our data show that the production of indole in P. alvei is strictly controlled by catabolite repression since the addition of glucose and glycerol completely turns off the indole production. The addition of exogenous indole markedly inhibits the heat resistance of P. alvei without affecting cell growth. Observation of cell morphology with electron microscopy shows that indole inhibits the development of spore coats and cortex in P. alvei. As a result of the immature spore formation of P. alvei, indole also decreases P. alvei survival when exposed to antibiotics, low pH, and ethanol. Additionally, indole derivatives also influence the heat resistance; for example, a plant auxin, 3-indolylacetonitrile dramatically (2900-fold) decreased the heat resistance of P. alvei, while another auxin 3-indoleacetic acid had a less significant influence on the heat resistance of P. -
Efficiency of Crude Oil Degradation and Peroxidase Production by Indigenous Bacteria Isolated from Ogoni Land, River State, Nigeria
ORIGINAL RESEARCH ARTICLE Efficiency of crude oil degradation and peroxidase production by indigenous bacteria isolated from Ogoni land, River State, Nigeria Folasade M. Olajuyigbe1∗, Cornelius O. Fatokun1, Kevin I. Ehiosun1,2 Affiliation Enzyme Biotechnology and Environmental Health Unit, Department of Biochemistry, Federal University of Technology, Akure 340252, Ondo State, Nigeria1; Department of Biochemistry, Edo University, Iyamho, Edo State, Nigeria2 *For Correspondence Email: [email protected]; ORCID ID: 0000-0002-1060-1868 Abstract Detrimental impacts of crude oil spills on life below water require urgent intervention. With the emergence of microbial remediation technology as a viable strategy for clean-up of oil spill, low degradation efficiency by many bacteria remains a major challenge. Exploring new bacterial isolates with improved crude oil degradation efficiency is therefore crucial. In this study, bacterial isolates from crude oil contaminated site in Ogoniland, Rivers State, Nigeria were screened for ability to grow on crude oil and glucose (control) as sole carbon sources. Three isolates exhibited higher growth on crude oil based medium (COBM) than on glucose based medium, and were identified using 16S rRNA sequencing as Bacillus cereus and Paenibacillus alvei strains 1 and 2. They were further investigated for their growth kinetics, degradation efficiency and total peroxidase production on varying concentrations of crude oil (30, 50 and 75 g/L) at 30°C and 180 rpm for 288 h. Results revealed exponential decline in residual crude oil during the logarithmic growth phase of the three bacteria. Total peroxidase activity increased as crude oil degradation progressed. Highest enzyme yields of 1.79 U/mg, 1.39 U/mg and 1.69 U/mg were recorded from B. -
Paenibacillus Hemolyticus, the First Hemolytic Paenibacillus with Growth-Promoting Activities Discovered
Biologia 67/6: 1031—1037, 2012 Section Cellular and Molecular Biology DOI: 10.2478/s11756-012-0117-7 Paenibacillus hemolyticus, the first hemolytic Paenibacillus with growth-promoting activities discovered Salmah Ismail1, Teow Chong Teoh1*, Choong Yong Ung2, Saad Musbah Alasil3 &RahmatOmar3 1Institute of Biological Sciences, Faculty of Science,University of Malaya, 50603 Kuala Lumpur, Malaysia; e-mail: [email protected] 2 Department of Mathematics, National University of Singapore, Singapore 3Department of Otorhinolaryngology, Faculty of Medicine, University of Malaya, 50603 Kuala Lumpur, Malaysia Abstract: Paenibacillus spp. are Gram-positive, facultatively aerobic, bacilli-shaped endospore-forming bacteria. They have been detected in a variety of environments, such as soil, water, forage, insect larvae, and even clinical samples. The strain 139SI (GenBank accession No.: JF825470.1) from three strains of Paenibacillus isolates investigated here was chosen as the type strain of the proposed novel species. The other two similar strain isolates investigated were 140SI (JF825471.1) and 141SI (JQ734548.1). These strains were identified as members of the genus Paenibacillus on the basis of phenotypic characteristics, phylogenetic analysis and 16S rRNA G+C content. Surprisingly, these strains exhibited a strong hemolytic activity on 5% sheep blood agar. Their crude extracts also showed positive growth-promoting activities in colon cancer and Vero cell lines. To our knowledge, this is the first Paenibacillus with hemolytic and growth-promoting activities reported, and the name Paenibacillus hemolyticus for this novel species is proposed. The capability of this novel species in hemolytic and cell growth activities suggests its potential in both clinical and pharmacological implications. Key words: Paenibacillus hemolyticus; soil bacteria; hemolytic; anticancer and cytotoxic activities; 16S rRNA G+C content. -
Paenibacillus and Emended Description of the Genus Paenibacillus OSAMU SHIDA,H HIROAKI TAKAGI,L KIYOSHI KADOWAKI,L LAWRE CE K
7729 I 'TERNATIONAL JOURNAL OF SYSTEMATIC BACTERIOLOGY, Apr. 1997, p. 289-298 Vol. 47, 0.2 0020-7713/97/$04.00 0 Copyright © 1997, International Union of Microbiological Societies Transfer of Bacillus alginolyticus, Bacillus chondroitinus, Bacillus curdlanolyticus, Bacillus glucanolyticus, Bacillus kobensis, and Bacillus thiaminolyticus to the Genus Paenibacillus and Emended Description of the Genus Paenibacillus OSAMU SHIDA,h HIROAKI TAKAGI,l KIYOSHI KADOWAKI,l LAWRE CE K. NAKAMURA,2 3 AD KAZUO KOMAGATA Research Laboratory, Higeta Shoyu Co., Ltd., Choshi, Chiba 288,1 and Department ofAgricultural Chemistry, Faculty ofAgriculture, Tokyo University ofAgriculture, Setagaya-ku, Tokyo 156,3 Japan, and Microbial Properties Research, National Center for Agricultural Utilization Research, Us. Department ofAgriculture, Peoria, Illinois 616042 We determined the taxonomic status of six Bacillus species (Bacillus alginolyticus, Bacillus chondroitinus, Bacillus curdlanolyticus, Bacillus glucanolyticus, Bacillus kobensis, and Bacillus thiaminolyticus) by using the results of 168 rR A gene sequence and cellular fatty acid composition analyses. Phylogenetic analysis clus tered these species closely with the Paenibacillus species. Like the Paenibacillus species, the six Bacillus species contained anteiso-C 1s:o fatty acid as a major cellular fatty acid. The use of a specific PCR primer designed for differentiating the genus Paenibacillus from other members of the Bacillaceae showed that the six Bacillus species had the same amplified 168 rRNA gene fragment as members of the genus Paenibacillus. Based on these observations and other taxonomic characteristics, the six Bacillus species were transferred to the genus Paenibacillus. In addition, we propose emendation of the genus Paenibacillus. Rod-shaped, aerobic, endospore-forming bacteria have gen among the Bacillaceae, we determined the sequences of their erally been assigned to the genus Bacillus, a systematically 16S rR A genes and compared these sequences with homol diverse taxon (5). -
Peptide-Based Quorum Sensing Systems in Paenibacillus Polymyxa
Published Online: 6 August, 2020 | Supp Info: http://doi.org/10.26508/lsa.202000847 Downloaded from life-science-alliance.org on 1 October, 2021 Research Article Peptide-based quorum sensing systems in Paenibacillus polymyxa Maya Voichek1 , Sandra Maaß2 , Tobias Kroniger2,Dorte¨ Becher2, Rotem Sorek1 Paenibacillus polymyxa is an agriculturally important plant Many of the characteristic features associated with the above- growth–promoting rhizobacterium. Many Paenibacillus species mentioned behaviors—production and secretion of antimicrobials, are known to be engaged in complex bacteria–bacteria and expression of virulence factors, and forming complex colony bacteria–host interactions, which in other species were shown to structures—often require some form of intercellular communica- necessitate quorum sensing communication. However, to date, no tion such as quorum sensing (12). Bacteria use quorum sensing to quorum sensing systems have been described in Paenibacillus. coordinate gene expression patterns on a population level. For Here, we show that the type strain P. polymyxa ATCC 842 encodes example, the quorum sensing network of Pseudomonas aeruginosa at least 16 peptide-based communication systems. Each of these controls the production of secreted toxins as well as the production systems is comprised of a pro-peptide that is secreted to the of rhamnolipids, which are important for its biofilm architecture (13, growth medium and processed to generate a mature short peptide. 14). Quorum sensing regulates the production of bacteriocin an- Each peptide has a cognate intracellular receptor of the RRNPP timicrobials in Lactobacilli (15) and Streptococci (16, 17), and in P. polymyxa family, and we show that external addition of com- Bacillus subtilis, quorum sensing systems play a major role in munication peptides leads to reprogramming of the transcriptional sporulation, biofilm formation, and genetic competence (18).