Betaproteobacteria Are Predominant in Drinking Water: Are There Reasons for Concern?
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Publication List – Michael Wagner
Publication list – Michael Wagner I have published between 1992 – April 2021 in my six major research fields (nitrification, single cell microbiology, microbiome, wastewater microbiology, endosymbionts, sulfate reduction) 269 papers and more than 30 book chapters. According to Scopus (April 2021) my publications have been cited 40,640 (ISI: 37,997; Google Scholar: 59,804) and I have an H-index of 107 (ISI: 103; Google Scholar: 131). Seven of my publications appeared in Nature (plus a News & Views piece), three in Science, 13 in PNAS (all direct submission) and two in PLoS Biology. More info about my publications can be found at: Scopus: https://www.scopus.com/authid/detail.uri?authorId=57200814774 ResearcherID: https://publons.com/researcher/2814586/michael-wagner/ GoogleScholar: https://scholar.google.com/citations?user=JF6OQ_0AAAAJ&hl=de 269. Neuditschko B, Legin AA, Baier D, Schintlmeister A, Reipert S, Wagner M, Keppler BK, Berger W, Meier-Menches SM, Gerner C. 2021. Interaction with ribosomal proteins accompanies stress induction of the anticancer metallodrug BOLD-100/KP1339 in the endoplasmic reticulum. Angew Chem Int Ed Engl, 60:5063-5068 268. Willeit P, Krause R, Lamprecht B, Berghold A, Hanson B, Stelzl E, Stoiber H, Zuber J, Heinen R, Köhler A, Bernhard D, Borena W, Doppler C, von Laer D, Schmidt H, Pröll J, Steinmetz I, Wagner M. 2021. Prevalence of RT-qPCR-detected SARS-CoV-2 infection at schools: First results from the Austrian School-SARS-CoV-2 prospective cohort study. The Lancet Regional Health - Europe, 5:100086 267. Lee KS, Pereira FC, Palatinszky M, Behrendt L, Alcolombri U, Berry D, Wagner M, Stocker R. -
Development and Evaluation of Rrna Targeted in Situ Probes and Phylogenetic Relationships of Freshwater Fungi
Development and evaluation of rRNA targeted in situ probes and phylogenetic relationships of freshwater fungi vorgelegt von Diplom-Biologin Christiane Baschien aus Berlin Von der Fakultät III - Prozesswissenschaften der Technischen Universität Berlin zur Erlangung des akademischen Grades Doktorin der Naturwissenschaften - Dr. rer. nat. - genehmigte Dissertation Promotionsausschuss: Vorsitzender: Prof. Dr. sc. techn. Lutz-Günter Fleischer Berichter: Prof. Dr. rer. nat. Ulrich Szewzyk Berichter: Prof. Dr. rer. nat. Felix Bärlocher Berichter: Dr. habil. Werner Manz Tag der wissenschaftlichen Aussprache: 19.05.2003 Berlin 2003 D83 Table of contents INTRODUCTION ..................................................................................................................................... 1 MATERIAL AND METHODS .................................................................................................................. 8 1. Used organisms ............................................................................................................................. 8 2. Media, culture conditions, maintenance of cultures and harvest procedure.................................. 9 2.1. Culture media........................................................................................................................... 9 2.2. Culture conditions .................................................................................................................. 10 2.3. Maintenance of cultures.........................................................................................................10 -
Bacterial Population Dynamics and Separation of Active Degraders by Stable Isotope Probing During Benzene Degradation in a Btex-Impacted Aquifer
Rev. Int. Contam. Ambient. 25 (3) 147-156, 2009 BACTERIAL POPULATION DYNAMICS AND SEPARATION OF ACTIVE DEGRADERS BY STABLE ISOTOPE PROBING DURING BENZENE DEGRADATION IN A BTEX-IMPACTED AQUIFER Arturo ABURTO1,2*, and Andrew S. BALL1,3 1 Department of Biological Sciences, University of Essex, Wivenhoe Park, Colchester CO4 3SQ, United Kingdom. *Corresponding author: Arturo Aburto. Tel.: +52 55 58044600 ext 2677, Fax: +52 55 58046407. E-mail address: [email protected] 2 Present address: Universidad Autonoma Metropolitana, Artificios 40, Miguel Hidalgo, Cuajimalpa, México. 3 Present address: School of Biological Sciences, Flinders University of South Australia, GPO Box 2100, Adelaide, South Australia 5001 (Recibido agosto 2008, aceptado febrero 2009) Key words: aerobic benzene degradation, SIP, groundwater, population dynamics ABSTRACT The activity and diversity of a groundwater bacterial community was studied during the degradation of benzene in samples from a BTEX-contaminated aquifer (SIReN, UK) through the use of denaturing gradient gel electrophoresis (DGGE), followed by excision and sequencing of dominant bands. Rapid aerobic benzene degradation occurred in all samples, with 60-70 % degradation of benzene. DGGE analysis revealed that unique, stable bacterial communities were formed in each sample. Pseudomonas putida and Aci- dovorax delafieldii were identified in groundwater samples 308s and W6s respectively, suggesting they are the important taxa involved in the degradation of benzene. Further work based on stable isotope probing (SIP) of RNA using 13C benzene was carried out. Prominent bands were identified as Acidovorax and Malikia genera; the latter is very similar to the benzene-degrader Hydrogenophaga, which confirms the presence of ac- tive benzene degraders in the groundwater samples. -
Response of Heterotrophic Stream Biofilm Communities to a Gradient of Resources
The following supplement accompanies the article Response of heterotrophic stream biofilm communities to a gradient of resources D. J. Van Horn1,*, R. L. Sinsabaugh1, C. D. Takacs-Vesbach1, K. R. Mitchell1,2, C. N. Dahm1 1Department of Biology, University of New Mexico, Albuquerque, New Mexico 87131, USA 2Present address: Department of Microbiology & Immunology, University of British Columbia Life Sciences Centre, Vancouver BC V6T 1Z3, Canada *Email: [email protected] Aquatic Microbial Ecology 64:149–161 (2011) Table S1. Representative sequences for each OTU, associated GenBank accession numbers, and taxonomic classifications with bootstrap values (in parentheses), generated in mothur using 14956 reference sequences from the SILVA data base Treatment Accession Sequence name SILVA taxonomy classification number Control JF695047 BF8FCONT18Fa04.b1 Bacteria(100);Proteobacteria(100);Gammaproteobacteria(100);Pseudomonadales(100);Pseudomonadaceae(100);Cellvibrio(100);unclassified; Control JF695049 BF8FCONT18Fa12.b1 Bacteria(100);Proteobacteria(100);Alphaproteobacteria(100);Rhizobiales(100);Methylocystaceae(100);uncultured(100);unclassified; Control JF695054 BF8FCONT18Fc01.b1 Bacteria(100);Planctomycetes(100);Planctomycetacia(100);Planctomycetales(100);Planctomycetaceae(100);Isosphaera(50);unclassified; Control JF695056 BF8FCONT18Fc04.b1 Bacteria(100);Proteobacteria(100);Gammaproteobacteria(100);Xanthomonadales(100);Xanthomonadaceae(100);uncultured(64);unclassified; Control JF695057 BF8FCONT18Fc06.b1 Bacteria(100);Proteobacteria(100);Betaproteobacteria(100);Burkholderiales(100);Comamonadaceae(100);Ideonella(54);unclassified; -
Metabolomics-Guided Discovery and Characterization of Five New Cyclic
Justus-Liebig-Universität Gießen Department 08 - Biology & Chemistry Dissertation Metabolomics-Guided Discovery and Characterization of five n ew Cyclic Lipopeptides from Freshwater Isolate Pseudomonas sp. Michael MARNER Gießen, March 2020 1 st examiner: PD Dr. Jens Glaeser 2 nd examiner: Prof. Dr. Peter Hammann I Contents 1 Abstract1 2 Introduction2 2.1 Antibiotic Resistance . .2 2.2 Natural product research and Metabolomics . .3 3 Developement and Evaluation of a Metabolomics platform6 3.1 Introduction . .6 3.2 Material and Methods . 12 3.2.1 Cultivation of bacteria . 12 3.2.2 Extract preparation . 13 3.2.3 Bioactivity assessment . 14 3.2.4 Analytics . 15 3.2.5 Data bucketing and visualization . 16 3.2.6 Variable dereplication via molecular networking . 16 3.3 Results . 18 3.3.1 Bioactivity . 18 3.3.2 Chemical diversity assessment and automatic annotation . 19 3.3.3 Molecular networking and variable dereplication . 25 3.3.4 Linking bioactivity to causative agent . 30 3.4 Discussion . 38 3.4.1 Metabolomics . 38 3.4.2 Bioactivity . 41 4 Bioprospecting and characterization of the bacterial community of Lake Stechlin 44 4.1 Intoduction . 44 4.2 Material and Methods . 45 4.2.1 Sampling of microorganisms from Lake Stechlin . 45 4.2.2 Sample preparation . 46 4.2.3 Cell enumeration via fluorescence microscopy . 47 4.2.4 Microbiome analysis . 47 4.2.5 Cultivation and conservation . 49 4.2.6 Bioactivity assessment via quick supernatant lux assay . 49 4.2.7 Phylogenetic identification based on 16S rRNA gene se- quencing . 50 4.3 Results . -
Kaistella Soli Sp. Nov., Isolated from Oil-Contaminated Soil
A001 Kaistella soli sp. nov., Isolated from Oil-contaminated Soil Dhiraj Kumar Chaudhary1, Ram Hari Dahal2, Dong-Uk Kim3, and Yongseok Hong1* 1Department of Environmental Engineering, Korea University Sejong Campus, 2Department of Microbiology, School of Medicine, Kyungpook National University, 3Department of Biological Science, College of Science and Engineering, Sangji University A light yellow-colored, rod-shaped bacterial strain DKR-2T was isolated from oil-contaminated experimental soil. The strain was Gram-stain-negative, catalase and oxidase positive, and grew at temperature 10–35°C, at pH 6.0– 9.0, and at 0–1.5% (w/v) NaCl concentration. The phylogenetic analysis and 16S rRNA gene sequence analysis suggested that the strain DKR-2T was affiliated to the genus Kaistella, with the closest species being Kaistella haifensis H38T (97.6% sequence similarity). The chemotaxonomic profiles revealed the presence of phosphatidylethanolamine as the principal polar lipids;iso-C15:0, antiso-C15:0, and summed feature 9 (iso-C17:1 9c and/or C16:0 10-methyl) as the main fatty acids; and menaquinone-6 as a major menaquinone. The DNA G + C content was 39.5%. In addition, the average nucleotide identity (ANIu) and in silico DNA–DNA hybridization (dDDH) relatedness values between strain DKR-2T and phylogenically closest members were below the threshold values for species delineation. The polyphasic taxonomic features illustrated in this study clearly implied that strain DKR-2T represents a novel species in the genus Kaistella, for which the name Kaistella soli sp. nov. is proposed with the type strain DKR-2T (= KACC 22070T = NBRC 114725T). [This study was supported by Creative Challenge Research Foundation Support Program through the National Research Foundation of Korea (NRF) funded by the Ministry of Education (NRF- 2020R1I1A1A01071920).] A002 Chitinibacter bivalviorum sp. -
Table S1. Bacterial Otus from 16S Rrna
Table S1. Bacterial OTUs from 16S rRNA sequencing analysis including only taxa which were identified to genus level (those OTUs identified as Ambiguous taxa, uncultured bacteria or without genus-level identifications were omitted). OTUs with only a single representative across all samples were also omitted. Taxa are listed from most to least abundant. Pitcher Plant Sample Class Order Family Genus CB1p1 CB1p2 CB1p3 CB1p4 CB5p234 Sp3p2 Sp3p4 Sp3p5 Sp5p23 Sp9p234 sum Gammaproteobacteria Legionellales Coxiellaceae Rickettsiella 1 2 0 1 2 3 60194 497 1038 2 61740 Alphaproteobacteria Rhodospirillales Rhodospirillaceae Azospirillum 686 527 10513 485 11 3 2 7 16494 8201 36929 Sphingobacteriia Sphingobacteriales Sphingobacteriaceae Pedobacter 455 302 873 103 16 19242 279 55 760 1077 23162 Betaproteobacteria Burkholderiales Oxalobacteraceae Duganella 9060 5734 2660 40 1357 280 117 29 129 35 19441 Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas 3336 1991 3475 1309 2819 233 1335 1666 3046 218 19428 Betaproteobacteria Burkholderiales Burkholderiaceae Paraburkholderia 0 1 0 1 16051 98 41 140 23 17 16372 Sphingobacteriia Sphingobacteriales Sphingobacteriaceae Mucilaginibacter 77 39 3123 20 2006 324 982 5764 408 21 12764 Gammaproteobacteria Pseudomonadales Moraxellaceae Alkanindiges 9 10 14 7 9632 6 79 518 1183 65 11523 Betaproteobacteria Neisseriales Neisseriaceae Aquitalea 0 0 0 0 1 1577 5715 1471 2141 177 11082 Flavobacteriia Flavobacteriales Flavobacteriaceae Flavobacterium 324 219 8432 533 24 123 7 15 111 324 10112 Alphaproteobacteria -
Microbial Community Response to Heavy and Light Crude Oil in the Great Lakes
Microbial Community Response to Heavy and Light Crude Oil in the Great Lakes Stephen Techtmann 10/24/19 Microbial Sensors Techtmann Lab @ MTU Investigating the applications of environmental microbial communities Hydraulic Fracturing Related Antibiotic Resistance Oil Bioremediation Techtmann Lab @ MTU Overview • Background on oil biodegradation • Microbial response to light and heavy crude oil in the Great Lakes • Machine learning for prediction of contamination in the Great Lakes. Oil Spills Deepwater Horizon Enbridge Line 6B Deepwater Horizon Oil Spill • 4,1000,000 bbl of oil released • Light Sweet Crude oil released • April 20, 2010 • 1101.7 miles of shoreline oiled Atlas and Hazen 2011 Enbridge Line 6B Spill – Marshall MI • 20,082 bbl of oil released • Diluted Bitumen • July 26, 2010 • 70 miles of shoreline oiled https://www.mlive.com/news/kalamazoo/2010/07/state_of_emergency_declared_as.html Oil Transmissions Pipelines in the Great Lakes Region Line 5: • 645 miles from Superior WI to Sarnia Ontario • 540,000 barrels per day • Light crude and natural gas liquids (NGLs) Crude oil Oil types and API Gravity Microbes and Biotechnology (Bioremediation) Low cost input Microbe High value output Decreased Cost Contaminant Increased Efficiency Carbon dioxide or non- toxic daughter products Carbon dioxide Microbial Biomass Petroleum Microbe Daughter Products Water Microbial Ecology and Biotechnology Low cost input Microbe High value output Decreased Cost/Increased Efficiency Complex input Input A Microbe Microbe Output A Input B Microbe Output -
Aquabacterium Gen. Nov., with Description of Aquabacterium Citratiphilum Sp
International Journal of Systematic Bacteriology (1999), 49, 769-777 Printed in Great Britain Aquabacterium gen. nov., with description of Aquabacterium citratiphilum sp. nov., Aquabacterium parvum sp. nov. and Aquabacterium commune sp. nov., three in situ dominant bacterial species from the Berlin drinking water system Sibylle Kalmbach,’ Werner Manz,’ Jorg Wecke2 and Ulrich Szewzyk’ Author for correspondence : Werner Manz. Tel : + 49 30 3 14 25589. Fax : + 49 30 3 14 7346 1. e-mail : [email protected]. tu-berlin.de 1 Tech nisc he U nive rsit ;it Three bacterial strains isolated from biofilms of the Berlin drinking water Berlin, lnstitut fur system were characterized with respect to their morphological and Tec hn ischen Umweltschutz, Fachgebiet physiological properties and their taxonomic position. Phenotypically, the Okologie der bacteria investigated were motile, Gram-negative rods, oxidase-positive and Mikroorganismen,D-l 0587 catalase-negative, and contained polyalkanoates and polyphosphate as Berlin, Germany storage polymers. They displayed a microaerophilic growth behaviour and 2 Robert Koch-lnstitut, used oxygen and nitrate as electron acceptors, but not nitrite, chlorate, sulfate Nordufer 20, D-13353 Berlin, Germany or ferric iron. The substrates metabolized included a broad range of organic acids but no carbohydrates at all. The three species can be distinguished from each other by their substrate utilization, ability to hydrolyse urea and casein, cellular protein patterns and growth on nutrient-rich media as well as their temperature, pH and NaCl tolerances. Phylogenetic analysis, based on 165 rRNA gene sequence comparison, revealed that the isolates are affiliated to the /I1 -subclass of Proteobacteria. The isolates constitute three new species with internal levels of DNA relatedness ranging from 44.9 to 51*3O/0. -
1 Microbial Transformations of Organic Chemicals in Produced Fluid From
Microbial transformations of organic chemicals in produced fluid from hydraulically fractured natural-gas wells Dissertation Presented in Partial Fulfillment of the Requirements for the Degree Doctor of Philosophy in the Graduate School of The Ohio State University By Morgan V. Evans Graduate Program in Environmental Science The Ohio State University 2019 Dissertation Committee Professor Paula Mouser, Advisor Professor Gil Bohrer, Co-Advisor Professor Matthew Sullivan, Member Professor Ilham El-Monier, Member Professor Natalie Hull, Member 1 Copyrighted by Morgan Volker Evans 2019 2 Abstract Hydraulic fracturing and horizontal drilling technologies have greatly improved the production of oil and natural-gas from previously inaccessible non-permeable rock formations. Fluids comprised of water, chemicals, and proppant (e.g., sand) are injected at high pressures during hydraulic fracturing, and these fluids mix with formation porewaters and return to the surface with the hydrocarbon resource. Despite the addition of biocides during operations and the brine-level salinities of the formation porewaters, microorganisms have been identified in input, flowback (days to weeks after hydraulic fracturing occurs), and produced fluids (months to years after hydraulic fracturing occurs). Microorganisms in the hydraulically fractured system may have deleterious effects on well infrastructure and hydrocarbon recovery efficiency. The reduction of oxidized sulfur compounds (e.g., sulfate, thiosulfate) to sulfide has been associated with both well corrosion and souring of natural-gas, and proliferation of microorganisms during operations may lead to biomass clogging of the newly created fractures in the shale formation culminating in reduced hydrocarbon recovery. Consequently, it is important to elucidate microbial metabolisms in the hydraulically fractured ecosystem. -
Microbial Communities in Placentas from Term Normal Pregnancy Exhibit Spatially Variable Profiles Lindsay A
Washington University School of Medicine Digital Commons@Becker Open Access Publications 2017 Microbial communities in placentas from term normal pregnancy exhibit spatially variable profiles Lindsay A. Parnell Washington University School of Medicine in St. Louis Catherine M. Briggs Washington University School of Medicine in St. Louis Bin Cao Washington University School of Medicine in St. Louis Omar Delannoy-Bruno Washington University School of Medicine in St. Louis Andrew E. Schrieffer Washington University School of Medicine in St. Louis See next page for additional authors Follow this and additional works at: https://digitalcommons.wustl.edu/open_access_pubs Recommended Citation Parnell, Lindsay A.; Briggs, Catherine M.; Cao, Bin; Delannoy-Bruno, Omar; Schrieffer, Andrew E.; and Mysorekar, Indira U., ,"Microbial communities in placentas from term normal pregnancy exhibit spatially variable profiles." Scientific Reports.7,. (2017). https://digitalcommons.wustl.edu/open_access_pubs/6175 This Open Access Publication is brought to you for free and open access by Digital Commons@Becker. It has been accepted for inclusion in Open Access Publications by an authorized administrator of Digital Commons@Becker. For more information, please contact [email protected]. Authors Lindsay A. Parnell, Catherine M. Briggs, Bin Cao, Omar Delannoy-Bruno, Andrew E. Schrieffer, and Indira U. Mysorekar This open access publication is available at Digital Commons@Becker: https://digitalcommons.wustl.edu/open_access_pubs/6175 www.nature.com/scientificreports OPEN Microbial communities in placentas from term normal pregnancy exhibit spatially variable profles Received: 30 January 2017 Lindsay A. Parnell1, Catherine M. Briggs1, Bin Cao1, Omar Delannoy-Bruno1, Andrew E. Accepted: 24 August 2017 Schriefer2 & Indira U. Mysorekar 1,3 Published: xx xx xxxx The placenta is the principal organ nurturing the fetus during pregnancy and was traditionally considered to be sterile. -
Iron Transport Strategies of the Genus Burkholderia
Zurich Open Repository and Archive University of Zurich Main Library Strickhofstrasse 39 CH-8057 Zurich www.zora.uzh.ch Year: 2015 Iron transport strategies of the genus Burkholderia Mathew, Anugraha Posted at the Zurich Open Repository and Archive, University of Zurich ZORA URL: https://doi.org/10.5167/uzh-113412 Dissertation Published Version Originally published at: Mathew, Anugraha. Iron transport strategies of the genus Burkholderia. 2015, University of Zurich, Faculty of Science. Iron transport strategies of the genus Burkholderia Dissertation zur Erlangung der naturwissenschaftlichen Doktorwürde (Dr. sc. nat.) vorgelegt der Mathematisch-naturwissenschaftlichen Fakultät der Universität Zürich von Anugraha Mathew aus Indien Promotionskomitee Prof. Dr. Leo Eberl (Vorsitz) Prof. Dr. Jakob Pernthaler Dr. Aurelien carlier Zürich, 2015 2 Table of Contents Summary .............................................................................................................. 7 Zusammenfassung ................................................................................................ 9 Abbreviations ..................................................................................................... 11 Chapter 1: Introduction ....................................................................................... 14 1.1.Role and properties of iron in bacteria ...................................................................... 14 1.2.Iron transport mechanisms in bacteria .....................................................................