Pseudomonas Floridensis Sp. Nov., a Bacterial Pathogen Isolated from Tomato
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토양에서 분리한 국내 미기록종 Pseudomonas 속 6종의 생화학적 특성과 계통 분류
Korean Journal of Microbiology (2019) Vol. 55, No. 1, pp. 39-45 pISSN 0440-2413 DOI https://doi.org/10.7845/kjm.2019.8099 eISSN 2383-9902 Copyright ⓒ 2019, The Microbiological Society of Korea 토양에서 분리한 국내 미기록종 Pseudomonas 속 6종의 생화학적 특성과 계통 분류 김현중1 ・ 정유정2 ・ 김해영1 ・ 허문석2* 1 2 경희대학교 생명과학대학 식품생명공학 전공, 국립생물자원관 생물자원연구부 미생물자원과 Isolation and characterization of 6 unrecorded Pseudomonas spp. from Korean soil 1 2 1 2 Hyun-Joong Kim , You-Jung Jung , Hae-Yeong Kim , and Moonsuk Hur * 1 Institute of Life Sciences and Resources Graduate School of Biotechnology, Kyung Hee University, Yongin 17104, Republic of Korea 2 Biological Resources Research Department, National Institute of Biological Resources, Incheon 22689, Republic of Korea (Received November 30, 2018; Revised December 19, 2018; Accepted December 19, 2018) In 2017, as a study to discover indigenous prokaryotic species 물의 공통된 특징은 그람 음성(Gram-negative), 호기성, Oxidase in Korea, a total of 6 bacterial strains assigned to the genus 양성 또는 음성, Catalase 양성, 형태학적으로 간균의 모양을 Pseudomonas were isolated from soil. From the high 16S 하고 있다. DNA의 GC 함량은 58~69 mol%이며 하나 혹은 몇 rRNA gene sequence similarity (≥ 99.5%) and phylogenetic 개의 극편모(polar flagella)를 이용하여 운동성을 갖는 것으로 analysis with closely related species, the isolated strains were 알려져 있으며, 현재까지 총 253개 종이 보고 되어 있다(http:// identified as independent Pseudomonas species which were unrecorded in Korea. The six Pseudomonas species were www.bacterio.net/pseudomonas.html) (Palleroni, 1984; Peix Pseudomonas mandelii, P. canadensis, P. thivervalensis, P. et al., 2009; Mulet et al., 2010). -
Molecular Analysis of the Bacterial Communities in Crude Oil Samples from Two Brazilian Offshore Petroleum Platforms
Hindawi Publishing Corporation International Journal of Microbiology Volume 2012, Article ID 156537, 8 pages doi:10.1155/2012/156537 Research Article Molecular Analysis of the Bacterial Communities in Crude Oil Samples from Two Brazilian Offshore Petroleum Platforms Elisa Korenblum,1 Diogo Bastos Souza,1 Monica Penna,2 and Lucy Seldin1 1 Laborat´orio de Gen´etica Microbiana, Instituto de Microbiologia Prof. Paulo de G´oes, Universidade Federal do Rio de Janeiro, Centro de Ciˆencias da Sa´ude, Bloco I, Ilha do Fund˜ao, 21941-590 Rio de Janeiro, RJ, Brazil 2 Gerˆencia de Biotecnologia e Tratamentos Ambientais, CENPES-PETROBRAS, Ilha do Fund˜ao, 21949-900 Rio de Janeiro, RJ, Brazil Correspondence should be addressed to Lucy Seldin, [email protected] Received 18 April 2011; Revised 11 June 2011; Accepted 13 October 2011 Academic Editor: J. Wiegel Copyright © 2012 Elisa Korenblum et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Crude oil samples with high- and low-water content from two offshore platforms (PA and PB) in Campos Basin, Brazil, were assessed for bacterial communities by 16S rRNA gene-based clone libraries. RDP Classifier was used to analyze a total of 156 clones within four libraries obtained from two platforms. The clone sequences were mainly affiliated with Gammaproteobacteria (78.2% of the total clones); however, clones associated with Betaproteobacteria (10.9%), Alphaproteobacteria (9%), and Firmicutes (1.9%) were also identified. Pseudomonadaceae was the most common family affiliated with these clone sequences. -
Estudio Molecular De Poblaciones De Pseudomonas Ambientales
Universitat de les Illes Balears ESTUDIO MOLECULAR DE POBLACIONES DE PSEUDOMONAS AMBIENTALES T E S I S D O C T O R A L DAVID SÁNCHEZ BERMÚDEZ DIRECTORA: ELENA GARCÍA-VALDÉS PUKKITS Departamento de Biología Universitat de les Illes Balears Palma de Mallorca, Septiembre 2013 Universitat de les Illes Balears ESTUDIO MOLECULAR DE POBLACIONES DE PSEUDOMONAS AMBIENTALES Tesis Doctoral presentada por David Sánchez Bermúdez para optar al título de Doctor en el programa Microbiología Ambiental y Biotecnología, de la Universitat de les Illes Balears, bajo la dirección de la Dra. Elena García-Valdés Pukkits. Vo Bo Director de la Tesis El doctorando DRA. ELENA GARCÍA-VALDÉS PUKKITS DAVID SÁNCHEZ BERMÚDEZ Catedrática de Universidad Universitat de les Illes Balears PALMA DE MALLORCA, SEPTIEMBRE 2013 III IV Index Agradecimientos .................................................................................................... IX Resumen ................................................................................................................ 1 Abstract ................................................................................................................... 3 Introduction ............................................................................................................ 5 I.1. The genus Pseudomonas ............................................................................................ 7 I.1.1. Definition ................................................................................................................ 7 I.1.2. -
Microbiological Quality and Occurrence of Antibiotic Resistant Bacteria in Ready-To-Eat Salad
Microbiological quality and occurrence of antibiotic resistant bacteria in ready-to-eat salad Tamara Lupan Master thesis for a diploma in Food Technology and Nutrition, 30 ECTS credits Department of Food Technology, Engineering and Nutrition, Faculty of Engineering, Lund University Abstract An increase in demand for fresh vegetables resulted in an increased production of minimally processed, ready-to-eat salad in Sweden. That also brought new food safety challenges that are yet to be addressed. To assess whether ready-to-eat leafy green vegetables present a threat in terms of food borne outbreaks, aerobic bacteria, as well as bacteria belonging to the Enterobacteriaceae family, were recovered, using selective media, from 3 different sets (n=18) of ready-to-eat rocket salad. Bacterial investigation showed that most bacteria retrieved from ready-to-eat rocket salad belongs to the Pseudomonadaceae family, which are typical spoilage bacteria commonly associated with vegetables. No food-borne pathogens (e.g. Clostridium botulinum, Escherichia coli O157:H7, Salmonella spp., Shigella spp., Listeria monocytogenes) were isolated from any of three sets of rocket salad. Following the assumption that microbiological quality of the salad could change during the storage period, as well as a result of salad bags being opened, sealed, stored and opened again in the household, the total aerobic count as well as the total amount of Enterobacteriaceae were assessed every day before the best-before date. Following the NSW food Authority guidance on the microbiological status of ready-to-eat food, it can be confirmed, that each of three sets of salad were from the first day after packaging, unsatisfactory in regards to total aerobic count, showing values higher than 5 log CFU/g. -
Developing a Genetic Manipulation System for the Antarctic Archaeon, Halorubrum Lacusprofundi: Investigating Acetamidase Gene Function
www.nature.com/scientificreports OPEN Developing a genetic manipulation system for the Antarctic archaeon, Halorubrum lacusprofundi: Received: 27 May 2016 Accepted: 16 September 2016 investigating acetamidase gene Published: 06 October 2016 function Y. Liao1, T. J. Williams1, J. C. Walsh2,3, M. Ji1, A. Poljak4, P. M. G. Curmi2, I. G. Duggin3 & R. Cavicchioli1 No systems have been reported for genetic manipulation of cold-adapted Archaea. Halorubrum lacusprofundi is an important member of Deep Lake, Antarctica (~10% of the population), and is amendable to laboratory cultivation. Here we report the development of a shuttle-vector and targeted gene-knockout system for this species. To investigate the function of acetamidase/formamidase genes, a class of genes not experimentally studied in Archaea, the acetamidase gene, amd3, was disrupted. The wild-type grew on acetamide as a sole source of carbon and nitrogen, but the mutant did not. Acetamidase/formamidase genes were found to form three distinct clades within a broad distribution of Archaea and Bacteria. Genes were present within lineages characterized by aerobic growth in low nutrient environments (e.g. haloarchaea, Starkeya) but absent from lineages containing anaerobes or facultative anaerobes (e.g. methanogens, Epsilonproteobacteria) or parasites of animals and plants (e.g. Chlamydiae). While acetamide is not a well characterized natural substrate, the build-up of plastic pollutants in the environment provides a potential source of introduced acetamide. In view of the extent and pattern of distribution of acetamidase/formamidase sequences within Archaea and Bacteria, we speculate that acetamide from plastics may promote the selection of amd/fmd genes in an increasing number of environmental microorganisms. -
Cultivation-Independent Analysis of Pseudomonas Species in Soil and in the Rhizosphere of field-Grown Verticillium Dahliae Host Plants
Blackwell Publishing LtdOxford, UKEMIEnvironmental Microbiology1462-2912© 2006 The Authors; Journal compilation © 2006 Society for Applied Microbiology and Blackwell Publishing Ltd200681221362149Original Article Pseudomonas diversity in the rhizosphereR. Costa, J. F. Salles, G. Berg and K. Smalla Environmental Microbiology (2006) 8(12), 2136–2149 doi:10.1111/j.1462-2920.2006.01096.x Cultivation-independent analysis of Pseudomonas species in soil and in the rhizosphere of field-grown Verticillium dahliae host plants Rodrigo Costa,1 Joana Falcão Salles,2 Gabriele Berg3 rescens lineage and showed closest similarity to and Kornelia Smalla1* culturable Pseudomonas known for displaying anti- 1Federal Biological Research Centre for Agriculture and fungal properties. This report provides a better under- Forestry (BBA), Messeweg 11/12, D-38104 standing of how different factors drive Pseudomonas Braunschweig, Germany. community structure and diversity in bulk and rhizo- 2UMR 5557 Ecologie Microbienne (CNRS – Université sphere soils. Lyon 1), USC 1193 INRA, bâtiment G. Mendel, 43 boulevard du 11 Novembre 1918, F-69622 Villeurbanne, Introduction France. 3Graz University of Technology, Institute of Environmental Verticillium dahliae causes wilt of a broad range of crop Biotechnology, Petersgasse 12, A-8010 Graz, Austria. plants and significant annual yield losses worldwide (Tja- mos et al., 2000). Control of V. dahliae in soil had been largely dependent on the application of methyl bromide in Summary the field. As this ozone-depleting soil fumigant has been Despite their importance for rhizosphere functioning, recently phased-out, the use of alternative, ecologically rhizobacterial Pseudomonas spp. have been mainly friendly practices to combat V. dahliae is a subject of studied in a cultivation-based manner. -
Symbiotic Bacteria Associated with Ascidian Vanadium Accumulation Identified by 16S Rrna Amplicon Sequencing
Symbiotic bacteria associated with ascidian vanadium accumulation identified by 16S rRNA amplicon sequencing Author Tatsuya Ueki, Manabu Fujie, Romaidi, Noriyuki Satoh journal or Marine Genomics publication title volume 43 page range 33-42 year 2018-11-09 Publisher Elsevier B.V. Rights (C) 2018 The Author(s). Author's flag publisher URL http://id.nii.ac.jp/1394/00000917/ doi: info:doi/10.1016/j.margen.2018.10.006 Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (https://creativecommons.org/licenses/by-nc-nd/4.0/) Marine Genomics 43 (2019) 33–42 Contents lists available at ScienceDirect Marine Genomics journal homepage: www.elsevier.com/locate/margen Full length article Symbiotic bacteria associated with ascidian vanadium accumulation identified by 16S rRNA amplicon sequencing T ⁎ Tatsuya Uekia,b, , Manabu Fujiec, Romaidia,d, Noriyuki Satohe a Molecular Physiology Laboratory, Graduate School of Science, Hiroshima University, Higashi-Hiroshima, Hiroshima, Japan b Marine Biological Laboratory, Graduate School of Science, Hiroshima University, Onomichi, Hiroshima, Japan c DNA Sequencing Section, Okinawa Institute of Science and Technology Graduate University, Kunigami-gun, Okinawa, Japan d Biology Department, Science and Technology Faculty, State Islamic University of Malang, Malang, Jawa Timur, Indonesia e Marine Genomics Unit, Okinawa Institute of Science and Technology Graduate University, Kunigami-gun, Okinawa, Japan ARTICLE INFO ABSTRACT Keywords: Ascidians belonging to Phlebobranchia accumulate vanadium to an extraordinary degree (≤ 350 mM). Bacterial population Vanadium levels are strictly regulated and vary among ascidian species; thus, they represent well-suited models 16S rRNA for studies on vanadium accumulation. No comprehensive study on metal accumulation and reduction in marine Marine invertebrates organisms in relation to their symbiotic bacterial communities has been published. -
Sensitive and Specific Detection of Pseudomonas Avellanae Using
J. Phytopathology 149, 527±532 (2001) Ó 2001 Blackwell Wissenschafts-Verlag, Berlin ISSN 0931-1785 Istituto Sperimentale per la Frutticoltura, Ciampino Aeroporto, Roma, Italy Sensitive and Speci®c Detection of Pseudomonas avellanae using Primers based on 16S rRNA Gene Sequences M. SCORTICHINI* and U. MARCHESI Authors' address: Istituto Sperimentale per la Frutticoltura, Via di Fioranello, 52, I-00040 Ciampino Aeroporto, Rome, Italy (correspondence to M. Scortichini. E-mail: [email protected]) With 4 ®gures Received January 1, 2001; accepted May 1, 2001 Keywords: Pseudomonas avellanae, 16S rRNA gene, detection, hazelnut decline, primers Abstract up to some years. The detection of P. avellanae is A rapid polymerase chain reaction (PCR)-based proce- currently based either on traditional techniques that dure was developed for the detection of Pseudomonas include pathogenicity tests which require at least avellanae, the causal agent of hazelnut (Corylus avellana) 6±7 months for the completion or on repetitive-PCR decline in northern Greece and central Italy. The partial using the ERIC primers and requiring the isolation and sequence of the 16S rRNA gene of P. avellanae strain the production of pure cultures (Scortichini et al., PD 2390, isolated in central Italy, was compared with 2000a). The latter procedure can be completed in the sequence coding for the same gene of P. syringae pv. 4±6 days but latent infection cannot be detected. The syringae type-strain LMG 1247t1. Primers PAV 1 and possibility of utilizing a diagnostic technique enabling a PAV 22 were chosen, and after the PCR, an ampli®ca- reliable and rapid screening of the propagative material, tion product of 762 base pairs was speci®cally produced can also support the establishing of new hazelnut only by 40 strains of P. -
Rapport Nederlands
Moleculaire detectie van bacteriën in dekaarde Dr. J.J.P. Baars & dr. G. Straatsma Plant Research International B.V., Wageningen December 2007 Rapport nummer 2007-10 © 2007 Wageningen, Plant Research International B.V. Alle rechten voorbehouden. Niets uit deze uitgave mag worden verveelvoudigd, opgeslagen in een geautomatiseerd gegevensbestand, of openbaar gemaakt, in enige vorm of op enige wijze, hetzij elektronisch, mechanisch, door fotokopieën, opnamen of enige andere manier zonder voorafgaande schriftelijke toestemming van Plant Research International B.V. Exemplaren van dit rapport kunnen bij de (eerste) auteur worden besteld. Bij toezending wordt een factuur toegevoegd; de kosten (incl. verzend- en administratiekosten) bedragen € 50 per exemplaar. Plant Research International B.V. Adres : Droevendaalsesteeg 1, Wageningen : Postbus 16, 6700 AA Wageningen Tel. : 0317 - 47 70 00 Fax : 0317 - 41 80 94 E-mail : [email protected] Internet : www.pri.wur.nl Inhoudsopgave pagina 1. Samenvatting 1 2. Inleiding 3 3. Methodiek 8 Algemene werkwijze 8 Bestudeerde monsters 8 Monsters uit praktijkteelten 8 Monsters uit proefteelten 9 Alternatieve analyse m.b.v. DGGE 10 Vaststellen van verschillen tussen de bacterie-gemeenschappen op myceliumstrengen en in de omringende dekaarde. 11 4. Resultaten 13 Monsters uit praktijkteelten 13 Monsters uit proefteelten 16 Alternatieve analyse m.b.v. DGGE 23 Vaststellen van verschillen tussen de bacterie-gemeenschappen op myceliumstrengen en in de omringende dekaarde. 25 5. Discussie 28 6. Conclusies 33 7. Suggesties voor verder onderzoek 35 8. Gebruikte literatuur. 37 Bijlage I. Bacteriesoorten geïsoleerd uit dekaarde en van mycelium uit commerciële teelten I-1 Bijlage II. Bacteriesoorten geïsoleerd uit dekaarde en van mycelium uit experimentele teelten II-1 1 1. -
Host Specificity and Virulence of the Phytopathogenic Bacteria Pseudomonas Savastanoi Eloy Caballo Ponce Caballo Eloy
Host specificity and virulence of the phytopathogenic bacteria Pseudomonas savastanoi Eloy Caballo Ponce Caballo Eloy TESIS DOCTORAL Eloy Caballo Ponce Director: Cayo Ramos Rodríguez Programa de Doctorado: Biotecnología Avanzada TESIS DOCTORAL TESIS Instituto de Hortofruticultura Subtropical y Mediterránea “La Mayora” Universidad de Málaga – CSIC 2017 Año 2017 Memoria presentada por: Eloy Caballo Ponce para optar al grado de Doctor por la Universidad de Málaga Host specificity and virulence of the phytopathogenic bacteria Pseudomonas savastanoi Director: Cayo J. Ramos Rodríguez Catedrático. Área de Genética. Departamento de Biología Celular, Genética y Fisiología. Instituto de Hortofruticultura Subtropical y Mediterránea (IHSM) Universidad de Málaga – Consejo Superior de Investigaciones Científicas Málaga, 2016 AUTOR: Eloy Caballo Ponce http://orcid.org/0000-0003-0501-3321 EDITA: Publicaciones y Divulgación Científica. Universidad de Málaga Esta obra está bajo una licencia de Creative Commons Reconocimiento-NoComercial- SinObraDerivada 4.0 Internacional: http://creativecommons.org/licenses/by-nc-nd/4.0/legalcode Cualquier parte de esta obra se puede reproducir sin autorización pero con el reconocimiento y atribución de los autores. No se puede hacer uso comercial de la obra y no se puede alterar, transformar o hacer obras derivadas. Esta Tesis Doctoral está depositada en el Repositorio Institucional de la Universidad de Málaga (RIUMA): riuma.uma.es COMITÉ EVALUADOR Presidente Dr. Jesús Murillo Martínez Departamento de Producción Agraria Universidad Pública de Navarra Secretario Dr. Francisco Manuel Cazorla López Departamento de Microbiología Universidad de Málaga Vocal Dra. Chiaraluce Moretti Departamento de Ciencias Agrarias, Alimentarias y Medioambientales Universidad de Perugia Suplentes Dr. Pablo Rodríguez Palenzuela Departamento de Biotecnología – Biología Vegetal Universidad Politécnica de Madrid Dr. -
Scientific Prospects for Cannabis-Microbiome Research To
microorganisms Review Scientific Prospects for Cannabis-Microbiome Research to Ensure Quality and Safety of Products Vladimir Vujanovic 1,*, Darren R. Korber 1 , Silva Vujanovic 2, Josko Vujanovic 3 and Suha Jabaji 4 1 Food and Bioproduct Sciences, University of Saskatchewan, Saskatoon, SK S7N 5A8, Canada; [email protected] 2 Hospital Pharmacy, CISSS des Laurentides and Université de Montréal-Montreal, QC J8H 4C7, Canada; [email protected] 3 Medical Imaging, CISSS-Laurentides, Lachute, QC J8H 4C7, Canada; [email protected] 4 Plant Science, McGill University, Ste-Anne-de-Bellevue, QC H9X 3V9, Canada; [email protected] * Correspondence: [email protected]; Tel.: +1-306-966-5048 Received: 4 December 2019; Accepted: 18 February 2020; Published: 20 February 2020 Abstract: Cannabis legalization has occurred in several countries worldwide. Along with steadily growing research in Cannabis healthcare science, there is an increasing interest for scientific-based knowledge in plant microbiology and food science, with work connecting the plant microbiome and plant health to product quality across the value chain of cannabis. This review paper provides an overview of the state of knowledge and challenges in Cannabis science, and thereby identifies critical risk management and safety issues in order to capitalize on innovations while ensuring product quality control. It highlights scientific gap areas to steer future research, with an emphasis on plant-microbiome sciences committed to using cutting-edge technologies for more efficient Cannabis production and high-quality products intended for recreational, pharmaceutical, and medicinal use. Keywords: Cannabis; microbiome; NCBI and USDA databases; omics; risk management; safety 1. Introduction The course of Cannabis science has been a top-down process, with the effects of the plant on humans and animals being tested before conducting extensive agronomic and ecological studies. -
Pseudomonas Syringae Pv. Aesculi
Pseudomonas syringae pv. aesculi Scientific Name Pseudomonas syringae pv. aesculi (ex Durgapal & Singh 1980) Young et al. 1991 Synonyms: None known Common Name(s) Bleeding canker of horse chestnut, bleeding canker disease Type of Pest Bacterial pathogen Taxonomic Position Class: Gammaproteobacteria, Order: Pseudomonadales, Family: Pseudomonadaceae Reason for Inclusion in Manual CAPS Target: Additional Pests of Concern - 2011 A B C Figure 1: A. Healthy horse chestnut tree. B. Crown dieback and yellowing associated with P. syringae pv. aesculi. C. Crown dieback and premature leaf fall seen with bleeding canker disease. Photos courtesy of the Forestry Commission. http://www.forestry.gov.uk/website/forestresearch.nsf/ByUnique/INFD- 6L4GBT Background Stem bleeding on horse chestnut trees caused by Phytophthora citricola and P. cactorum was first observed in the early 1970s in the United Kingdom and other European countries (Brasier and Strouts, 1976; Green et al., 2009). Since 2002, the 1 Last Update: February 2, 2011 number of horse chestnuts with bleeding canker, however, has dramatically increased and the disease has become severe in some parts of Europe. Initial assumptions that a Phytophthora species was the primary causal agent were refuted when the bacterium Pseudomonas syringae pv. aesculi was proven to be associated with the recent spread of the disease in the United Kingdom (Webber et al., 2007). Pest Description Pseudomonas syringae is a rod-shaped gram negative bacterium with polar flagellae (Mabbett, 2007). P. syringae exists as over 50 pathovars (strains) infecting a wide range of plants that fall within nine genomospecies (Gardan, 1999). Pathovars are genetically distinct but morphologically the same and primarily differentiated by host range.