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Characterization of the Aerobic Anoxygenic Phototrophic Bacterium Sphingomonas Sp
microorganisms Article Characterization of the Aerobic Anoxygenic Phototrophic Bacterium Sphingomonas sp. AAP5 Karel Kopejtka 1 , Yonghui Zeng 1,2, David Kaftan 1,3 , Vadim Selyanin 1, Zdenko Gardian 3,4 , Jürgen Tomasch 5,† , Ruben Sommaruga 6 and Michal Koblížek 1,* 1 Centre Algatech, Institute of Microbiology, Czech Academy of Sciences, 379 81 Tˇreboˇn,Czech Republic; [email protected] (K.K.); [email protected] (Y.Z.); [email protected] (D.K.); [email protected] (V.S.) 2 Department of Plant and Environmental Sciences, University of Copenhagen, Thorvaldsensvej 40, 1871 Frederiksberg C, Denmark 3 Faculty of Science, University of South Bohemia, 370 05 Ceskˇ é Budˇejovice,Czech Republic; [email protected] 4 Institute of Parasitology, Biology Centre, Czech Academy of Sciences, 370 05 Ceskˇ é Budˇejovice,Czech Republic 5 Research Group Microbial Communication, Technical University of Braunschweig, 38106 Braunschweig, Germany; [email protected] 6 Laboratory of Aquatic Photobiology and Plankton Ecology, Department of Ecology, University of Innsbruck, 6020 Innsbruck, Austria; [email protected] * Correspondence: [email protected] † Present Address: Department of Molecular Bacteriology, Helmholtz-Centre for Infection Research, 38106 Braunschweig, Germany. Abstract: An aerobic, yellow-pigmented, bacteriochlorophyll a-producing strain, designated AAP5 Citation: Kopejtka, K.; Zeng, Y.; (=DSM 111157=CCUG 74776), was isolated from the alpine lake Gossenköllesee located in the Ty- Kaftan, D.; Selyanin, V.; Gardian, Z.; rolean Alps, Austria. Here, we report its description and polyphasic characterization. Phylogenetic Tomasch, J.; Sommaruga, R.; Koblížek, analysis of the 16S rRNA gene showed that strain AAP5 belongs to the bacterial genus Sphingomonas M. Characterization of the Aerobic and has the highest pairwise 16S rRNA gene sequence similarity with Sphingomonas glacialis (98.3%), Anoxygenic Phototrophic Bacterium Sphingomonas psychrolutea (96.8%), and Sphingomonas melonis (96.5%). -
Succession and Persistence of Microbial Communities and Antimicrobial Resistance Genes Associated with International Space Stati
Singh et al. Microbiome (2018) 6:204 https://doi.org/10.1186/s40168-018-0585-2 RESEARCH Open Access Succession and persistence of microbial communities and antimicrobial resistance genes associated with International Space Station environmental surfaces Nitin Kumar Singh1, Jason M. Wood1, Fathi Karouia2,3 and Kasthuri Venkateswaran1* Abstract Background: The International Space Station (ISS) is an ideal test bed for studying the effects of microbial persistence and succession on a closed system during long space flight. Culture-based analyses, targeted gene-based amplicon sequencing (bacteriome, mycobiome, and resistome), and shotgun metagenomics approaches have previously been performed on ISS environmental sample sets using whole genome amplification (WGA). However, this is the first study reporting on the metagenomes sampled from ISS environmental surfaces without the use of WGA. Metagenome sequences generated from eight defined ISS environmental locations in three consecutive flights were analyzed to assess the succession and persistence of microbial communities, their antimicrobial resistance (AMR) profiles, and virulence properties. Metagenomic sequences were produced from the samples treated with propidium monoazide (PMA) to measure intact microorganisms. Results: The intact microbial communities detected in Flight 1 and Flight 2 samples were significantly more similar to each other than to Flight 3 samples. Among 318 microbial species detected, 46 species constituting 18 genera were common in all flight samples. Risk group or biosafety level 2 microorganisms that persisted among all three flights were Acinetobacter baumannii, Haemophilus influenzae, Klebsiella pneumoniae, Salmonella enterica, Shigella sonnei, Staphylococcus aureus, Yersinia frederiksenii,andAspergillus lentulus.EventhoughRhodotorula and Pantoea dominated the ISS microbiome, Pantoea exhibited succession and persistence. K. pneumoniae persisted in one location (US Node 1) of all three flights and might have spread to six out of the eight locations sampled on Flight 3. -
Bridging the Gap Between Genomics- and Metabolomics-Based Perspectives of Myxobacterial Secondary Metabolite Production Capabili
Bridging the gap between genomics - and metabolomics - based perspectives of myxobacterial secondary metabolite production capability Dissertation zur Erlangung des Grades des Doktors der Naturwissenschaften der Naturwissenschaftlich - T echnischen Fakultät der Universität des Saarlandes. von Fabian Panter Saarbrücken 2018 2 Tag des Kolloquiums: 01.04.2019 Dekan : Prof. Dr. Guido Kickelbick Berichterstatter: Prof. Dr. Rolf Müller Prof. Dr. Christian Ducho Prof. Dr. Tobias Gulder Vorsitz: Prof. Dr. Uli Kazmaier Akad. Mitarbeiter : Dr. Judith Becker 3 Diese Arbeit entstand unter der Anleitung von Prof. Dr. Rolf Müller am Institut für Pharmazeutische Biotechnologie der Naturwissenschaftlich - Technischen Fakultät der Universität des Saarlandes von Dezember 2014 bis November 2018 . 4 Ο ἶ δα ο ὐ κ ε ἰ δώς Ich weiß, dass ich unwissend bin . entlehnt aus der Apologie des Sokrates, V olksgericht von Athen 399 v. Chr . 5 Danksagung Als erstes möchte ich mich bei meinem Doktorvater Prof. Dr. Rolf Müller für die Möglichkeit be danken , meine Dissertation in dieser Arbeitsgruppe durchzuführen. Das entgegengebrachte Vertrauen für die Bearbeitung anspruchsvoller Themen im Bereich des bakteriellen Sekundärstoffwechsels und die immerwährende Unterstützung im Rahmen wissenschaftlicher Diskus sionen waren sehr hilfreich und motivierend. Zudem möchte ich mich bei Prof. Dr. Christian Ducho für die Annahme des Co - Referats und Unterstützung als wissenschaftlicher Begleiter bedanken. Zudem möchte ich mich bei meinem Betreuer Dr. Daniel Krug für die tatkräftige Unterstützung meiner Dissertation, durch wissenschaftliche Diskussionen und innovative Lösungsansätze für Probleme meiner Doktorarbeit, sowie für kritische Überarbeitung meiner Manuskripte bedanken. Darüber hinaus möchte ich mich bei allen beda nken die mir in den vergangenen fast 4 Jahren mit Rat und Tat zur Seite standen und es mir ermöglichten in sehr vielen Bereichen der Naturstoffforschung dazu zu lernen. -
Drylands Soil Bacterial Community Is Affected by Land Use Change and Different Irrigation Practices in the Mezquital Valley
www.nature.com/scientificreports OPEN Drylands soil bacterial community is afected by land use change and diferent irrigation practices in the Received: 23 June 2017 Accepted: 3 January 2018 Mezquital Valley, Mexico Published: xx xx xxxx Kathia Lüneberg1, Dominik Schneider2, Christina Siebe1 & Rolf Daniel 2 Dryland agriculture nourishes one third of global population, although crop irrigation is often mandatory. As freshwater sources are scarce, treated and untreated wastewater is increasingly used for irrigation. Here, we investigated how the transformation of semiarid shrubland into rainfed farming or irrigated agriculture with freshwater, dam-stored or untreated wastewater afects the total (DNA-based) and active (RNA-based) soil bacterial community composition, diversity, and functionality. To do this we collected soil samples during the dry and rainy seasons and isolated DNA and RNA. Soil moisture, sodium content and pH were the strongest drivers of the bacterial community composition. We found lineage-specifc adaptations to drought and sodium content in specifc land use systems. Predicted functionality profles revealed gene abundances involved in nitrogen, carbon and phosphorous cycles difered among land use systems and season. Freshwater irrigated bacterial community is taxonomically and functionally susceptible to seasonal environmental changes, while wastewater irrigated ones are taxonomically susceptible but functionally resistant to them. Additionally, we identifed potentially harmful human and phytopathogens. The analyses of 16 S rRNA genes, its transcripts and deduced functional profles provided extensive understanding of the short- term and long-term responses of bacterial communities associated to land use, seasonality, and water quality used for irrigation in drylands. Drylands are defned as regions with arid, semi-arid, and dry sub humid climate with an annual precipitation/ evapotranspiration potential ratio (P/PET)1 ranging from 0.05 to 0.652. -
Communauté De Communes Cagire Garonne Salat
Communauté de Communes Cagire Garonne Salat. Conseil communautaire du jeudi 16 mars 2017 à 20h30. Titulaires présents : François ARCANGELI (Arbas), André ESPARBES (Arbon), Philippe PRADERE (Arguenos), Jean-Pierre VIALATTE (Arnaud-Guilhem), Josette SARRADET (Aspet), Louis BARES (Aspet), Gilles PARIS (Ausseing), Jean-Luc PICARD (Beauchalot), Raymond JOUBE (Belbeze-en-Comminges), Gilles FAVAREL (Cabanac-Cazaux), Joëlle GAILLARD (Cassagne), Martine CANAL (Castagnède), Pierre BRAQUET (Castelbiague), Philippe GIMENEZ (Castillon-de-Saint-Martory), Corinne ORTET (Couret), Jean-Louis PRADERE (Encausse-les- Thermes), Jacques SOUMET (Escoulis), Robert MARTIN (Estadens), Jean Charles ROSELLO (Figarol), Jean-Pierre ESCAIG (Fougaron), Jean-Pierre MARE (Francazal), Jeannine REY (Ganties), Nathalie AUGUSTIN-ROUCH (Herran), Alain SOULE (His), Dominique PONTICACCIA (Juzet-d’Izaut), Jean-Claude FOURCADE (Laffite-Toupière), Frédéric LAVAIL (Le Fréchet), Patrick GHENASSIA (Lestelle-de-Saint-Martory), Henri GOIZET (Mancioux), Michel MASQUERE (Mane), Danielle REBELLATO (Mane), Josette PEYRIGUER (Mane), Jean-Claude DOUGNAC (Mazères-sur-Salat), Manuel ALCAIDE (Mazères-sur-Salat), Alain RUMEBE (Milhas), Bertrand LACARRERE (Montastruc-de-Salies), Marie-Christine LLORENS (Montespan), Sylvie DUCHEIN (Montgaillard-de-Salies), Maryse MOURLAN (Montsaunès), Chantal RIVIERE (Poupiary), Jean-Claude CROS (Razecueillé), Jean-Bernard PORTET (Roquefort-sur-Garonne), André CASTERAS (Rouède), Raoul RASPEAU (Saint-Martory), Anne BERGAMELLI (Saint-Martory), Raymond NOMDEDEU (Saint-Martory), -
3B2 to Ps Tmp 1..96
1975L0271 — EN — 14.04.1998 — 014.001 — 1 This document is meant purely as a documentation tool and the institutions do not assume any liability for its contents ►B COUNCIL DIRECTIVE of 28 April 1975 concerning the Community list of less-favoured farming areas within the meaning of Directive No 75/268/EEC (France) (75/271/EEC) (OJ L 128, 19.5.1975, p. 33) Amended by: Official Journal No page date ►M1 Council Directive 76/401/EEC of 6 April 1976 L 108 22 26.4.1976 ►M2 Council Directive 77/178/EEC of 14 February 1977 L 58 22 3.3.1977 ►M3 Commission Decision 77/3/EEC of 13 December 1976 L 3 12 5.1.1977 ►M4 Commission Decision 78/863/EEC of 9 October 1978 L 297 19 24.10.1978 ►M5 Commission Decision 81/408/EEC of 22 April 1981 L 156 56 15.6.1981 ►M6 Commission Decision 83/121/EEC of 16 March 1983 L 79 42 25.3.1983 ►M7 Commission Decision 84/266/EEC of 8 May 1984 L 131 46 17.5.1984 ►M8 Commission Decision 85/138/EEC of 29 January 1985 L 51 43 21.2.1985 ►M9 Commission Decision 85/599/EEC of 12 December 1985 L 373 46 31.12.1985 ►M10 Commission Decision 86/129/EEC of 11 March 1986 L 101 32 17.4.1986 ►M11 Commission Decision 87/348/EEC of 11 June 1987 L 189 35 9.7.1987 ►M12 Commission Decision 89/565/EEC of 16 October 1989 L 308 17 25.10.1989 ►M13 Commission Decision 93/238/EEC of 7 April 1993 L 108 134 1.5.1993 ►M14 Commission Decision 97/158/EC of 13 February 1997 L 60 64 1.3.1997 ►M15 Commission Decision 98/280/EC of 8 April 1998 L 127 29 29.4.1998 Corrected by: ►C1 Corrigendum, OJ L 288, 20.10.1976, p. -
Schema Departemental De Gestion Cynegetique De
SCHEMA DEPARTEMENTA L DE GESTION CYNEGETIQUE DE HAUTE-GARONNE Bilan de réalisation du SDGC 2007-2012 Bilan des consultations partenariales Contextes cynégétiques 2013 3 Table des matières Le mot du Président ............................................................................................................................................................................... 5 Introduction ............................................................................................................................................................................................... 6 1-Contexte national et régional ........................................................................................................................................................ 7 2-Bilan du schéma départemental de gestion cynégétique de la Haute-Garonne de 2006 à 2012 .................. 12 3-Bilan des consultations des activités en relation avec les territoires cynégétiques ................................................... 21 4-Evolution de l’activité cynégétique en Haute-Garonne ....................................................................................................... 23 4.1-Evolutions relatives aux espèces ...................................................................................................................................... 23 4.2-Evolutions relatives aux chasseurs ................................................................................................................................. 30 4.3-Evolutions relatives -
Fish Bacterial Flora Identification Via Rapid Cellular Fatty Acid Analysis
Fish bacterial flora identification via rapid cellular fatty acid analysis Item Type Thesis Authors Morey, Amit Download date 09/10/2021 08:41:29 Link to Item http://hdl.handle.net/11122/4939 FISH BACTERIAL FLORA IDENTIFICATION VIA RAPID CELLULAR FATTY ACID ANALYSIS By Amit Morey /V RECOMMENDED: $ Advisory Committe/ Chair < r Head, Interdisciplinary iProgram in Seafood Science and Nutrition /-■ x ? APPROVED: Dean, SchooLof Fisheries and Ocfcan Sciences de3n of the Graduate School Date FISH BACTERIAL FLORA IDENTIFICATION VIA RAPID CELLULAR FATTY ACID ANALYSIS A THESIS Presented to the Faculty of the University of Alaska Fairbanks in Partial Fulfillment of the Requirements for the Degree of MASTER OF SCIENCE By Amit Morey, M.F.Sc. Fairbanks, Alaska h r A Q t ■ ^% 0 /v AlA s ((0 August 2007 ^>c0^b Abstract Seafood quality can be assessed by determining the bacterial load and flora composition, although classical taxonomic methods are time-consuming and subjective to interpretation bias. A two-prong approach was used to assess a commercially available microbial identification system: confirmation of known cultures and fish spoilage experiments to isolate unknowns for identification. Bacterial isolates from the Fishery Industrial Technology Center Culture Collection (FITCCC) and the American Type Culture Collection (ATCC) were used to test the identification ability of the Sherlock Microbial Identification System (MIS). Twelve ATCC and 21 FITCCC strains were identified to species with the exception of Pseudomonas fluorescens and P. putida which could not be distinguished by cellular fatty acid analysis. The bacterial flora changes that occurred in iced Alaska pink salmon ( Oncorhynchus gorbuscha) were determined by the rapid method. -
In Situ Relationships Between Microbiota and Potential Pathobiota in Arabidopsis Thaliana
bioRxiv preprint doi: https://doi.org/10.1101/261602; this version posted February 7, 2018. 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 In situ relationships between microbiota and potential pathobiota in Arabidopsis thaliana 2 Claudia Bartoli1¶, Léa Frachon1¶, Matthieu Barret2, Mylène Rigal1, Carine Huard-Chauveau1, 3 Baptiste Mayjonade1, Catherine Zanchetta3, Olivier Bouchez3, Dominique Roby1, Sébastien 4 Carrère1, Fabrice Roux1* 5 6 Affiliations: 7 1 LIPM, Université de Toulouse, INRA, CNRS, Castanet-Tolosan, France 8 2 IRHS, INRA, AGROCAMPUS-Ouest, Université d’Angers, SFR4207 QUASAV, 42, rue 9 Georges Morel, 49071 Beaucouzé, France 10 3 INRA, GeT-PlaGe, Genotoul, Castanet-Tolosan, France 11 ¶These authors contributed equally to this work. 12 13 Corresponding author: [email protected] 1 bioRxiv preprint doi: https://doi.org/10.1101/261602; this version posted February 7, 2018. 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. 14 ABSTRACT 15 A current challenge in microbial pathogenesis is to identify biological control agents that may 16 prevent and/or limit host invasion by microbial pathogens. In natura, hosts are often infected 17 by multiple pathogens. However, most of the current studies have been performed under 18 laboratory controlled conditions and by taking into account the interaction between a single 19 commensal species and a single pathogenic species. -
Communiqué De Presse Avis De Vigilance Crues De Niveau
COMMUNIQUÉ DE PRESSE A Toulouse, le 26 septembre 2020 AVIS DE VIGILANCE CRUES DE NIVEAU JAUNE POUR DEUX TRONÇONS DU DÉPARTEMENT DE LA HAUTE-GARONNE La préfecture de la Haute-Garonne appelle à la vigilance et met en place son dispositif de réponse. Le service de prévision des crues a émis un avis de vigilance de niveau JAUNE, à partir de 10h, sur les tronçons suivants : - Garonne amont – Nestes - Ger Salat Description de l’évènement : Une nouvelle dégradation est prévue en fin de journée jusqu'à dimanche matin. Les pluies soutenues vont générer une augmentation du niveau de la Garonne amont et du Ger Salat. Les niveaux de premiers débordements sont attendus dans la nuit de samedi à dimanche sur la Garonne, notamment le secteur de Saint-Béat Lez, et sur le Ger. La vigilance jaune : Elle représente le risque de crue ou de montée rapide des eaux n'entraînant pas de dommages significatifs, mais nécessitant une vigilance particulière dans le cas d'activités saisonnières et/ou exposées. Le préfet engage chacun à être très vigilant et à respecter les consignes de sécurité. Rappel aux usagers concernant les crues : Ces conditions météorologiques appellent une vigilance accrue de la part de tous. • Tenez-vous informé de la situation. Les premiers débordements peuvent être constatés. Certains cours d’eaux peuvent connaître une montée rapide des eaux. • Soyez vigilants si vous vous situez à proximité d’un cours d’eau ou d’une zone habituellement inondable. • Conformez-vous à la signalisation routière. 1 Rappel aux usagers concernant les zones inondées : • Renseignez-vous avant d’entreprendre vos déplacements et soyez très prudents. -
ETH Zurich Research Collection
Research Collection Doctoral Thesis Identification of Indigenous Phyllosphere Isolates of the Genus Sphingomonas as Plant-Protective Bacteria Author(s): Innerebner, Gerd Publication Date: 2011 Permanent Link: https://doi.org/10.3929/ethz-a-6620246 Rights / License: In Copyright - Non-Commercial Use Permitted This page was generated automatically upon download from the ETH Zurich Research Collection. For more information please consult the Terms of use. ETH Library DISS. ETH NO. 19649 Identification of Indigenous Phyllosphere Isolates of the Genus Sphingomonas as Plant-Protective Bacteria A dissertation submitted to ETH Zurich for the degree of Doctor of Sciences Presented by Gerd Innerebner Mag. rer. nat., Leopold-Franzens-Universität Innsbruck Born on 3 January 1980 Citizen of Italy April 2011 Referees: Prof. Dr. Julia A. Vorholt Prof. Dr. Hans-Martin Fischer Prof. Dr. Leo Eberl Table of Contents Thesis Abstract ........................................................................................................................ 5 Zusammenfassung ................................................................................................................... 7 Chapter 1 General Introduction ............................................................................................................. 11 The phyllosphere as habitat for microorganisms ......................................................................... 11 Leaf-associated bacterial communities ........................................................................................ -
Tumour Associated Microbiota: Comparison of Methods for the Identification of Low Abundance Microbiome Samples Using RNA Sequencing Data
UNIVERSIDAD AUTONÓMA DE MADRID ESCUELA POLITÉCNICA SUPERIOR TRABAJO FIN DE MÁSTER Tumour associated microbiota: comparison of methods for the identification of low abundance microbiome samples using RNA sequencing data Máster Universitario en BioinformátiCa y Biología Computacional Autor: Francisco José Jurado Rueda Tutora: Lola Alonso Guirado Supervisora: Núria Malats Riera Ponente: Miguel Redondo Nieto Grupo Epidemiología Genética y Molecular. Centro Nacional de Investigaciones Oncológicas. Febrero 2020 Acknowledgements To my mother, for her tireless support and constant supply of tuppers. To my bike, for the time saved. To my entire group, for keeping up a great environment in the lab. To my directors Núria and Lola. May I leave here a piece of Lola’s uniqueness: Francisella gaditana Bacteria del alma mía No vas a estar en vejiga Porque a ti te dé la gana Yo no me creo tu género Y mucho menos tu especie ¿Cómo vas a estar ahí dentro escondida entre los genes? Francisella gaditana Yo te relego al olvido O me aportas una prueba O eres falso positivo 1 3 INDEX Abstract .............................................................................................................. 5 1. Introduction ................................................................................................ 6 2. Objectives ................................................................................................... 7 4. Hypotheses ................................................................................................. 7 5. Materials and