DOCSLIB.ORG

Validation of the Publication of New Names and New Combinations Previously Effectively Published Outside the IJSB List No

Total Page：16

File Type：pdf, Size：1020Kb

Download full-text PDF Read full-text
Validation of the Publication of New Names and New Combinations Previously Effectively Published Outside the IJSB List No INTERNATIONALJOURNAL OF SYSTEMATICBACTERIOLOGY, Oct. 1989, p. 495497 Vol. 39, No. 4 0020-7713/89/040495-03$02.OO/O Copyright 0 1989, International Union of Microbiological Societies Validation of the Publication of New Names and New Combinations Previously Effectively Published Outside the IJSB List No. 31t The purpose of this announcement is to effectthe valid publication of the following new names and new combinations under the procedure described previously [Int. J. Syst. Bacteriol. 27(3):iv, 19771. Authors and other individuals wishing to have new names and/or combinations included in future lists should send the pertinent reprint or a photocopy thereof to the WSB (c/o ASM) for confirmation that all of the other requirements for valid publication have been met. It should be noted that the date of valid publication of these new names and combinations is the date of publication of this list, not the date of the original publication of the names and combinations. The authors of the new names and combinations are as given below, and these authors' names will be included in the author index of the present issue and in the volume author index in this issue of the IJSB. Inclusion of a name on these lists validates the name and thereby makes it available in bacteriological nomenclature. The inclusion of a name on this list is not to be construed as taxonomic acceptance of the taxon to which the name is applied. Indeed, some of these names may, in time, be shown to be synonyms, or the organisms may be transferred to another genus, thus necessitating the creation of a new combination. Name Proposed as: Author(s) (reference) Priority" Nomenclatural typeb Actinomadura fiexuosa Revived name Meyer (24) 7 Strain K1132 (= IMET 9552) Aeromonas salmonicida subsp. smithia New subspecies Austin et al. (1) 1 Strain 138 (= CCM 4103) Bacillus thermocloaceae New species Demharter and Hensel (4) 1 Strain S6025 (= DSM 5250) Caulobacter variabilis Revived name Poindexter (26) 8 Strain CB17 (= ATCC 15255) Clostridium methylpentosum New species Himelbloom and Canale-Parola (13) 9 Strain R2 (= ATCC 43829) Cytophaga agarovorans New species Reichenbach (28) 8 ATCC 19043 Cytophaga aprica New species Reichenbach (28) 8 ATCC 23126 Cytophaga aurantiaca Revived name Reichenbach (28) 8 NCIB 8628 (= ATCC 12208) Cytophaga columnaris Revived name Reichenbach (28) 8 NCMB 2248 Cytophaga difluens Revived name Reichenbach (28) 8 NCMB 1402 Cytophaga marina New species Reichenbach (28) 8 NCMB 2153 Cytophaga marinojava Revived name Reichenbach (28) 8 NCMB 397 (= ATCC 19326) Cytophaga pectinovora New species Reichenbach (28) 8 NCIB 9059 (= ATCC 19366) Cytophaga psychrophila New species Reichenbach (28) 8 DSM 3660 (= NCMB 1947) Cytophaga saccharophila Revived name Reichenbach (28) 8 NCIB 2072 Cytophaga succinicans Revived name Reichenbach (28) 8 DSM 4002 Cytophaga uliginosa (basonym: New combination Reichenbach (28) 8 ATCC 14397 Agarbacterium uliginosum) Desulfobacterium macestii New species Gogotova and Vainstein (8) 6 Strain M-9 (= VKM B-1598 = DSM 4194) Desulfovibrio furfuralis New species Folkerts et al. (7) 6 Strain F1 (= DSM 2599) Dichotomicrobium New genus Hirsch and Hoffmann (15) 1 Dichotomicrobium thermo- halophilum Dichotomicrobium thermohalophilum New species Hirsch and Hoffmann (15) 1 Strain IFAM 954 (= DSM 5002) Enterococcus cecorum (basonym: New combination Williams et al. (34) 4 NCDO 2674 Streptococcus cecorum) Flexibacter elegans Revived name Reichenbach (27) 8 ATCC 23112 Flexibacter filiformis New species Reichenbach (27) 8 DSM 527 (= ATCC 29495) Halobacteriales New order Grant and Larsen (12) 8 Halobacteriaceae Gibbons Halobacterium distributus New species Zvyagintseva and Tarasov (36) 3 Strain I-M (= VKM B-1733) Halococcus turkmenicus New species Zvyagintseva and Tarasov (36) 3 Strain 4 (= VKM B-1734) Hyphomicrobium aestuarii New species Hirsch (14) 8 ATCC 27483 Hyphomicrobium coagulans Revived name Hirsch (14) 8 Strain Takada 10-2 Hyphomicrobium facilis New species Hirsch (14) 8 ATCC 27485 Hyphomicrobium facilis subsp. tolerans New subspecies Hirsch (14) 8 ATCC 27489 Hyphomicrobium facilis subsp. New subspecies Hirsch (14) 8 ATCC 27492 ureaphilum Hyphomicrobium hollandicum New species Hirsch (14) 8 ATCC 27498 Hyphomicrobium zavarzinii New species Hirsch (14) 8 IFAM ZV -622 Klebsiella ornithinolytica New species Sakazaki et al. (29) 2 Strain NIH 90-72 (= JCM 6096) Lactobacillus suebicus New species Kleynmans et al. (19) 1 Strain I (= DSM 5007) Leuconostoc amelibiosum New species Schillinger et al. (30) 6 DSM 20188 Continued on following page 495 496 VALIDATION LIST INT.J. SYST.BACTERIOL. Continued ~~~ ~~~~~ ~~~ Name Proposed as: Author(s) (reference) Prioritya Nomenclatural typeb Macromonas bipunctata Revived name Dubinina and Grabovich (6) VKM 1366 Metallosphaera New genus Huber et al. (16) Metallosphaera sedula Metallosphaera sedula New species Huber et al. (16) Strain TH2 (= DSM 5348) Methanolobus siciliae New species Stetter and Konig in Stetter (31) DSM 3028 Methanolobus vulcani New species Stetter, Konig, and Thomm in DSM 3029 Stetter (31) Methanothrix thermoacetophila New species Nozhevnikova and Chudina (25) Not in pure culture Nocardia pinensis New species Blackall et al. (2) UQM 3063 Oscillochloris New genus Gorlenko and Pivovarova (11) Oscillochloris chrysea Oscillochloris chrysea (basonym: New combination Gorlenko and Pivovarova (11) Not in pure culture Oscillatoria coerulescens) Oscillochloris trichoides (basonym: New combination Gorlenko and Korotkov (10) 8 Not in pure culture Oscillatoria trichoides) Polyangium aureum Revived name Brockman (3) Description in Brockman (3) Polyangium cellulosum Revived name Brockman (3) Description in Brockman (3) Polyangium luteum Revived name Brockman (3) Description in Brockman (3) Polyangium parasiticum Revived name Brockman (3) Description in Brockman (3) Polyangium sorediatum Revived name Brockman (3) Description in Brockman (3) Polyangium spumosum Revived name Brockman (3) Description in Brockman (3) Saccharopolyspora hirsuta subsp. Revived name Lacey (20) ATCC 20501 kobensis Saccharopolyspora gregorii New species Goodfellow et al. (9) Strain A85 (= NCIB 12823) Saccharopolyspora hordei New species Goodfellow et al. (9) Strain A54 (= NCIB 12824) Sphaerobacter New genus Demharter et al. (5) Sphaerobacter thermophilus Sphaerobacter thermophilus New species Demharter et al. (5) Strain S 6022 (= DSM 20745) Sp irillospora rubra Revived name Vobis and Kothe (33) CBS 571.75 Streptoverticillium alboverticillatum Revived name Locci and Schofield (23) ATCC 29818 Streptoverticillium morookaense Revived name Locci and Schofield (23) ATCC 19166 Streptoverticillium olivoreticulum Revived name Locci and Schofield (23) ATCC 21632 subsp. cellulophilum Streptoverticillium reticulum subsp. Revived name Locci and Schofield (23) 8 KCC 5-0180 protomy cicum Streptoverticillium sapporonense Revived name Locci and Schofield (23) 8 ATCC 21532 Streptoverticilliurn verticillium subsp. Revived name Locci and Schofield (23) 8 Strain Okami MA-267-A1 quintum Streptoverticillium verticillum subsp. Revived name Locci and Schofield (23) 8 ATCC 21633 tsukushiense Streptoverticillium viridofavum Revived name Locci and Schofield (23) 8 ATCC 12629 Sulfolobales New order Stetter (32) 8 Sulfolobaceae Sulfolobaceae New family Stetter (32) 8 Sulfolobus Thermoactinomyces putidus New species Lacey and Cross (21) 8 NCIB 12324 Thermoactinomyces thalpophilus Revived name Lacey and Cross (21) 8 CBS 319.66 Thermoproteus neutrophilus New species Zillig (35) 8 DSM 2338 Thermosipho New genus Huber et al. (17) 7 Thermosipho africanus Thermosipho africanus New species Huber et al. (17) 7 Strain ob7 (= DSM 5309) Thiobacillus denitrifcans Revived name Kelly and Harrison (18) 8 NCIB 8327 Thiobacterium Revived name La Riviere and Kuenen (22) 8 Thiobacterium bovistum Thiobacterium bovistum Revived name La Riviere and Kuenen (22) 8 Not in pure culture t Lists 1 through 30 were published in the Int. J. Syst. Bacteriol. 27:306,1977; 29:79,436,1979; 30:601,676,1980; 31:215,382,1981; 32:266,384, 1982; 33:438, 672, 896, 1983; 34:91, 270, 355, 503, 1984; 39223, 375, 535, 1985; 36:354, 489, 573, 1986; 37:179, 1987; 38:136, 220, 328, 449, 1988; and 39:93, 205, 371, 1989. a Priority number assigned according to the date the documentation and request for validation is received. Abbreviations: ATCC, American Type Culture Collection, Rockville, Md. ; CBS, Centraalbureau voor Schimmelcultures, Baarn, The Netherlands; CCM, Czechoslovak Collection of Microorganisms, Brno, Czechoslovakia; DSM, Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH, Braunschweig, Federal Republic of Germany; IFAM, Institut fur Allgemeine Mikrobiologie, Universitat Kiel, Federal Republic of Germany; IMET, Institut fur Mikrobiologie und Experimentelle Therapie, Deutsche Akademie der Wissenschaften zu Berlin, German Democratic Republic; JCM, Japan Collection of Microorganisms, Riken, Saitama, Japan; KCC, Kaken Chemical Co., Ltd., Tokyo, Japan; NCDO, AFRC Institute of Food Research, National Collection of Food Bacteria, Reading, England; NCIB, National Collection of Industrial and Marine Bacteria, Aberdeen, Scotland; NCMB, National Collection of Industrial and Marine Bacteria, Aberdeen, Scotland; UQM, Culture Collection, University of Queensland, Department of Microbiology, Brisbane, Australia; VKM, All Union Culture Collection of Microorganisms, Institute of Biochemistry and Physiology, USSR Academy of Sciences, Moscow, USSR. LITERATURE CITED Australia. J. Gen. Microbiol. 135:1547-1558.
Load more

Recommended publications
  • Is It Essential to Sequence the Entire 16S Rrna Gene for Bacterial
    » INSTRUMENTATION » Is it Essential to Sequence Introduction Bacterial Identification in the biopharmaceutical industry, especially in the Entire 16S rRNA Gene manufacturing facilities, is very important because an occurrence of a problematic microorganism in the final product could be harmful for the end user and detrimental to a company’s finances and reputation. for Bacterial Identification? Environmental Monitoring (EM) programs are the cornerstone of understanding the microbial ecology in a manufacturing facility and have become a regulatory requirement for most manufacturers. The EM program is a biological surveillance system which enables companies to quickly identify organisms which are transient or resident in their facilities before these organisms have an opportunity to contaminate a product. A properly executed EM program provides an early warning of potential contamination problems due to Sunhee Hong, PhD and equipment failure, inadequate cleaning, or deficiencies in staff hygiene Christine E. Farrance, PhD training, for example, so that problems can be corrected to prevent Charles River adulteration of the end product. The Food and Drug Administration (FDA) has published guidelines for the production of sterile drugs by aseptic processing which includes a section on EM programs, and the USP general information chapter “Microbiological Control and Monitoring of Aseptic Processing Environments” also contains detailed information regarding EM programs1. The EM program is only effective if the organisms recovered from the facility are accurately identified, so the information gathered can be used to understand the microbial control through tracking and trending and dictate appropriate remediation activities. There are several different options available for bacterial identification; however, the use of 16S rRNA gene sequences has been considered the most powerful and accurate tool, while conventional phenotypic methods often show major weaknesses2-5.
    [Show full text]
  • Arxiv:2105.11503V2 [Physics.Bio-Ph] 26 May 2021 3.1 Geometry and Swimming Speeds of the Cells
    The Bank Of Swimming Organisms at the Micron Scale (BOSO-Micro) Marcos F. Velho Rodrigues1, Maciej Lisicki2, Eric Lauga1,* 1 Department of Applied Mathematics and Theoretical Physics, University of Cambridge, Cambridge CB3 0WA, United Kingdom. 2 Faculty of Physics, University of Warsaw, Warsaw, Poland. *Email: [email protected] Abstract Unicellular microscopic organisms living in aqueous environments outnumber all other creatures on Earth. A large proportion of them are able to self-propel in fluids with a vast diversity of swimming gaits and motility patterns. In this paper we present a biophysical survey of the available experimental data produced to date on the characteristics of motile behaviour in unicellular microswimmers. We assemble from the available literature empirical data on the motility of four broad categories of organisms: bacteria (and archaea), flagellated eukaryotes, spermatozoa and ciliates. Whenever possible, we gather the following biological, morphological, kinematic and dynamical parameters: species, geometry and size of the organisms, swimming speeds, actuation frequencies, actuation amplitudes, number of flagella and properties of the surrounding fluid. We then organise the data using the established fluid mechanics principles for propulsion at low Reynolds number. Specifically, we use theoretical biophysical models for the locomotion of cells within the same taxonomic groups of organisms as a means of rationalising the raw material we have assembled, while demonstrating the variability for organisms of different species within the same group. The material gathered in our work is an attempt to summarise the available experimental data in the field, providing a convenient and practical reference point for future studies. Contents 1 Introduction 2 2 Methods 4 2.1 Propulsion at low Reynolds number .
    [Show full text]
  • Bioflocculation of Wastewater Organic Matter at Short Retention Times
    Bioflocculation of Wastewater Organic Matter at Short Retention Times Lena Faust Thesis committee Promotor Prof. dr. ir. H.H.M. Rijnaarts Professor, Chair Environmental Technology Wageningen University Co-promotor Dr. ir. H. Temmink Assistant professor, Sub-department of Environmental Technology Wageningen University Other members Prof. Dr A.J.M. Stams, Wageningen University Prof. Dr. I. Smets, University of Leuven, Belgium Prof. Dr. B.-M. Wilen, Chalmers University of Technology, Sweden Prof. Dr. D.C. Nijmeijer, University of Twente, The Netherlands This research was conducted under the auspices of the Graduate School SENSE (Socio- Economic and Natural Sciences of the Environment) Bioflocculation of Wastewater Organic Matter at Short Retention Times Lena Faust Thesis submitted in fulfillment of the requirements for the degree of doctor at Wageningen University by the authority of the Rector Magnificus Prof. Dr M.J. Kropff, in the presence of the Thesis Committee appointed by the Academic Board to be defended in public on Wednesday 3rd of December 2014 at 1.30 p.m. in the Aula. Lena Faust Bioflocculation of Wastewater Organic Matter at Short Retention Times, 163 pages. PhD thesis, Wageningen University, Wageningen, NL (2014) With references, with summaries in English and Dutch ISBN 978-94-6257-171-6 ˮDa steh ich nun, ich armer Tor, und bin so klug als wie zuvor.ˮ Dr. Faust (in Faust I written by Johann Wolgang von Goethe) Contents 1 GENERAL INTRODUCTION ....................................................................................................................1
    [Show full text]
  • Hyphal Proteobacteria, Hirschia Baltica Gen. Nov. , Sp. Nov
    INTERNATIONALJOURNAL OF SYSTEMATICBACTERIOLOGY, Oct. 1990, p. 443451 Vol. 40. No. 4 0020-7713/9O/040443-O9$02.00/0 Copyright 0 1990, International Union of Microbiological Societies Taxonomic and Phylogenetic Studies on a New Taxon of Budding, Hyphal Proteobacteria, Hirschia baltica gen. nov. , sp. nov. HEINZ SCHLESNER," CHRISTINA BARTELS, MANUEL SITTIG, MATTHIAS DORSCH, AND ERKO STACKEBRANDTT Institut fur Allgemeine Mikrobiologie, Christian-Albrecht-Universitat, 2300 Kiel, Federal Republic of Germany Four strains of budding, hyphal bacteria, which had very similar chemotaxonomic properties, were isolated from the Baltic Sea. The results of DNA-DNA hybridization experiments, indicated that three of the new isolates were closely related, while the fourth was only moderately related to the other three. Sequence signature and higher-order structural detail analyses of the 16s rRNA of strain IFAM 141gT (T = type strain) indicated that this isolate is related to the alpha subclass of the class Proteobacteriu. Although our isolates resemble members of the genera Hyphomicrobium and Hyphomonas in morphology, assignment to either of these genera was excluded on the basis of their markedly lower DNA guanine-plus-cytosine contents. We propose that these organisms should be placed in a new genus, Hirschiu baltica is the type species of this genus, and the type strain of H. bdtica is strain IFAM 1418 (= DSM 5838). Since the first description of a hyphal, budding bacterium, no1 and formamide were tested at concentrations of 0.02 and Hyphomicrobium vulgare (53), only the following additional 0.1% (vol/vol). Utilization of nitrogen sources was tested in genera having this morphological type have been formally M9 medium containing glucose as the carbon source.
    [Show full text]
  • Mitigating Biofouling on Reverse Osmosis Membranes Via Greener Preservatives
    Mitigating biofouling on reverse osmosis membranes via greener preservatives by Anna Curtin Biology (BSc), Le Moyne College, 2017 A Thesis Submitted in Partial Fulfillment of the Requirements for the Degree of MASTER OF APPLIED SCIENCE in the Department of Civil Engineering, University of Victoria © Anna Curtin, 2020 University of Victoria All rights reserved. This Thesis may not be reproduced in whole or in part, by photocopy or other means, without the permission of the author. Supervisory Committee Mitigating biofouling on reverse osmosis membranes via greener preservatives by Anna Curtin Biology (BSc), Le Moyne College, 2017 Supervisory Committee Heather Buckley, Department of Civil Engineering Supervisor Caetano Dorea, Department of Civil Engineering, Civil Engineering Departmental Member ii Abstract Water scarcity is an issue faced across the globe that is only expected to worsen in the coming years. We are therefore in need of methods for treating non-traditional sources of water. One promising method is desalination of brackish and seawater via reverse osmosis (RO). RO, however, is limited by biofouling, which is the buildup of organisms at the water-membrane interface. Biofouling causes the RO membrane to clog over time, which increases the energy requirement of the system. Eventually, the RO membrane must be treated, which tends to damage the membrane, reducing its lifespan. Additionally, antifoulant chemicals have the potential to create antimicrobial resistance, especially if they remain undegraded in the concentrate water. Finally, the hazard of chemicals used to treat biofouling must be acknowledged because although unlikely, smaller molecules run the risk of passing through the membrane and negatively impacting humans and the environment.
    [Show full text]
  • Role of NAD+-Dependent Malate Dehydrogenase in the Metabolism of Methylomicrobium Alcaliphilum 20Z and Methylosinus Trichosporium Ob3b
    Microorganisms 2015, 3, 47-59; doi:10.3390/microorganisms3010047 OPEN ACCESS microorganisms ISSN 2076-2607 www.mdpi.com/journal/microorganisms Article Role of NAD+-Dependent Malate Dehydrogenase in the Metabolism of Methylomicrobium alcaliphilum 20Z and Methylosinus trichosporium OB3b Olga N. Rozova 1, Valentina N. Khmelenina 1,*, Ksenia A. Bocharova 2, Ildar I. Mustakhimov 2 and Yuri A. Trotsenko 1,2 1 Laboratory of Methylotrophy, Skryabin Institute of Biochemistry and Physiology of Microorganisms, RAS, Prospect Nauki 5, Pushchino 142290, Russia; E-Mails: [email protected] (O.N.R.); [email protected] (Y.A.T.) 2 Department of Microbiology and Biotechnology, Pushchino State Institute of Natural Sciences, Prospect Nauki 3, Pushchino 142290, Russia; E-Mails: [email protected] (K.A.B.); [email protected] (I.I.M.) * Author to whom correspondence should be addressed; E-Mail: [email protected]; Tel.: +7-4967-318672; Fax: +7-4959-563370. Academic Editors: Marina G. Kalyuzhnaya and Ludmila Chistoserdova Received: 30 December 2014 / Accepted: 5 February 2015 / Published: 27 February 2015 Abstract: We have expressed the L-malate dehydrogenase (MDH) genes from aerobic methanotrophs Methylomicrobium alcaliphilum 20Z and Methylosinus trichosporium OB3b as his-tagged proteins in Escherichia coli. The substrate specificities, enzymatic kinetics and oligomeric states of the MDHs have been characterized. Both MDHs were NAD+-specific and thermostable enzymes not affected by metal ions or various organic metabolites. The MDH from M. alcaliphilum 20Z was a homodimeric (2 × 35 kDa) enzyme displaying nearly equal reductive (malate formation) and oxidative (oxaloacetate formation) activities and higher affinity to malate (Km = 0.11 mM) than to oxaloacetate (Km = 0.34 mM).
    [Show full text]
  • Phylogeny and Polyphasic Taxonomy of Caulobacter Species. Proposal of Maricaulis Gen
    International Journal of Systematic Bacteriology (1 999), 49, 1053-1 073 Printed in Great Britain Phylogeny and polyphasic taxonomy of Caulobacter species. Proposal of Maricaulis gen. nov. with Maricaulis maris (Poindexter) comb. nov. as the type species, and emended description of the genera Brevundirnonas and Caulobacter Wolf-Rainer Abraham,' Carsten StrOmpl,l Holger Meyer, Sabine Lindholst,l Edward R. B. Moore,' Ruprecht Christ,' Marc Vancanneyt,' B. J. Tindali,3 Antonio Bennasar,' John Smit4 and Michael Tesar' Author for correspondence: Wolf-Rainer Abraham. Tel: +49 531 6181 419. Fax: +49 531 6181 41 1. e-mail : [email protected] Gesellschaft fur The genus Caulobacter is composed of prosthecate bacteria often specialized Biotechnologische for oligotrophic environments. The taxonomy of Caulobacter has relied Forschung mbH, primarily upon morphological criteria: a strain that visually appeared to be a Mascheroder Weg 1, D- 38124 Braunschweig, member of the Caulobacter has generally been called one without Germany challenge. A polyphasic approach, comprising 165 rDNA sequencing, profiling Laboratorium voor restriction fragments of 165-235 rDNA interspacer regions, lipid analysis, Microbiologie, Universiteit immunological profiling and salt tolerance characterizations, was used Gent, Gent, Belgium to clarify the taxonomy of 76 strains of the genera Caulobacter, Deutsche Sammlung von Brevundimonas, Hyphomonas and Mycoplana. The described species of the Mikroorganismen und genus Caulobacter formed a paraphyletic group with Caulobacter henricii, Zellkulturen, Caulobacter fusiformis, Caulobacter vibrioides and Mycoplana segnis Braunschweig, Germany (Caulobacter segnis comb. nov.) belonging to Caulobacter sensu stricto. Dept of Microbiology and Caulobacter bacteroides (Brevundimonas bacteroides comb. nov.), C. henricii Immunology, University of subsp. aurantiacus (Brevundimonas aurantiaca comb. nov.), Caulobacter British Columbia, intermedius (Brevundimonas intermedia comb.
    [Show full text]
  • Étude Du Potentiel Biotechnologique De Halomonas Sp. SF2003 : Application À La Production De Polyhydroxyalcanoates (PHA)
    THESE DE DOCTORAT DE L’UNIVERSITE BRETAGNE SUD COMUE UNIVERSITE BRETAGNE LOIRE ECOLE DOCTORALE N° 602 Sciences pour l'Ingénieur Spécialité : Génie des procédés et Bioprocédés Par Tatiana THOMAS Étude du potentiel biotechnologique de Halomonas sp. SF2003 : Application à la production de PolyHydroxyAlcanoates (PHA). Thèse présentée et soutenue à Lorient, le 17 Décembre 2019 Unité de recherche : Institut de Recherche Dupuy de Lôme Thèse N° : 542 Rapporteurs avant soutenance : Sandra DOMENEK Maître de Conférences HDR, AgroParisTech Etienne PAUL Professeur des Universités, Institut National des Sciences Appliquées de Toulouse Composition du Jury : Président : Mohamed JEBBAR Professeur des Universités, Université de Bretagne Occidentale Examinateur : Jean-François GHIGLIONE Directeur de Recherche, CNRS Dir. de thèse : Stéphane BRUZAUD Professeur des Universités, Université de Bretagne Sud Co-dir. de thèse : Alexis BAZIRE Maître de Conférences HDR, Université de Bretagne Sud Co-dir. de thèse : Anne ELAIN Maître de Conférences, Université de Bretagne Sud Étude du potentiel biotechnologique de Halomonas sp. SF2003 : application à la production de polyhydroxyalcanoates (PHA) Tatiana Thomas 2019 « Failure is only the opportunity to begin again more intelligently. » Henry Ford « I dettagli fanno la perfezione e la perfezione non è un dettaglio. » Leonardo Da Vinci Étude du potentiel biotechnologique de Halomonas sp. SF2003 : application à la production de polyhydroxyalcanoates (PHA) Tatiana Thomas 2019 Étude du potentiel biotechnologique de Halomonas sp. SF2003 : application à la production de polyhydroxyalcanoates (PHA) Tatiana Thomas 2019 Remerciements Pour commencer, mes remerciements s’adressent à l’Université de Bretagne Sud et Pontivy Communauté qui ont permi le financement et la réalisation de cette thèse entre l’Institut de Recherche Dupuy de Lôme et le Laboratoire de Biotechnologies et Chimie Marines.
    [Show full text]
  • Physiological and Genomic Features of Highly Alkaliphilic Hydrogen-Utilizing Betaproteobacteria from a Continental Serpentinizing Site
    ARTICLE Received 17 Dec 2013 | Accepted 16 Apr 2014 | Published 21 May 2014 DOI: 10.1038/ncomms4900 OPEN Physiological and genomic features of highly alkaliphilic hydrogen-utilizing Betaproteobacteria from a continental serpentinizing site Shino Suzuki1, J. Gijs Kuenen2,3, Kira Schipper1,3, Suzanne van der Velde2,3, Shun’ichi Ishii1, Angela Wu1, Dimitry Y. Sorokin3,4, Aaron Tenney1, XianYing Meng5, Penny L. Morrill6, Yoichi Kamagata5, Gerard Muyzer3,7 & Kenneth H. Nealson1,2 Serpentinization, or the aqueous alteration of ultramafic rocks, results in challenging environments for life in continental sites due to the combination of extremely high pH, low salinity and lack of obvious electron acceptors and carbon sources. Nevertheless, certain Betaproteobacteria have been frequently observed in such environments. Here we describe physiological and genomic features of three related Betaproteobacterial strains isolated from highly alkaline (pH 11.6) serpentinizing springs at The Cedars, California. All three strains are obligate alkaliphiles with an optimum for growth at pH 11 and are capable of autotrophic growth with hydrogen, calcium carbonate and oxygen. The three strains exhibit differences, however, regarding the utilization of organic carbon and electron acceptors. Their global distribution and physiological, genomic and transcriptomic characteristics indicate that the strains are adapted to the alkaline and calcium-rich environments represented by the terrestrial serpentinizing ecosystems. We propose placing these strains in a new genus ‘Serpentinomonas’. 1 J. Craig Venter Institute, 4120 Torrey Pines Road, La Jolla, California 92037, USA. 2 University of Southern California, 835 W. 37th St. SHS 560, Los Angeles, California 90089, USA. 3 Delft University of Technology, Julianalaan 67, Delft, 2628BC, The Netherlands.
    [Show full text]
  • Niche Differentiation of Bacterial Communities at a Millimeter Scale In
    www.nature.com/scientificreports OPEN Niche differentiation of bacterial communities at a millimeter scale in Shark Bay microbial mats Received: 05 June 2015 1,3 1,3 2,3 1,3 Accepted: 28 September 2015 Hon Lun Wong , Daniela-Lee Smith , Pieter T. Visscher & Brendan P. Burns Published: 26 October 2015 Modern microbial mats can provide key insights into early Earth ecosystems, and Shark Bay, Australia, holds one of the best examples of these systems. Identifying the spatial distribution of microorganisms with mat depth facilitates a greater understanding of specific niches and potentially novel microbial interactions. High throughput sequencing coupled with elemental analyses and biogeochemical measurements of two distinct mat types (smooth and pustular) at a millimeter scale were undertaken in the present study. A total of 8,263,982 16S rRNA gene sequences were obtained, which were affiliated to 58 bacterial and candidate phyla. The surface of both mats were dominated by Cyanobacteria, accompanied with known or putative members of Alphaproteobacteria and Bacteroidetes. The deeper anoxic layers of smooth mats were dominated by Chloroflexi, while Alphaproteobacteria dominated the lower layers of pustular mats. In situ microelectrode measurements revealed smooth mats have a steeper profile of 2O and H2S concentrations, as well as higher oxygen production, consumption, and sulfate reduction rates. Specific elements (Mo, Mg, Mn, Fe, V, P) could be correlated with specific mat types and putative phylogenetic groups. Models are proposed for these systems suggesting putative surface anoxic niches, differential nitrogen fixing niches, and those coupled with methane metabolism. Stromatolites are believed to represent one of the first microbial ecosystems, and may have had major impacts on past global biogeochemical cycles, particularly oxygen, nitrogen, hydrogen and sulfur1.
    [Show full text]
  • Bibliography
    Bibliography Aa, K. and R.A. Olsen. 1996. The use of various substrates and substrate caulis Poindexter by a polyphasic analysis. Int. J. Syst. Evol. Microbiol. concentrations by a Hyphomicrobium sp. isolated from soil: effect on 51: 27–34. growth rate and growth yield. Microb. Ecol. 31: 67–76. Abram, D., J. Castro e Melo and D. Chou. 1974. Penetration of Bdellovibrio Aalen, R.B. and W.B. Gundersen. 1985. Polypeptides encoded by cryptic bacteriovorus into host cells. J. Bacteriol. 118: 663–680. plasmids from Neisseria gonorrhoeae. Plasmid 14: 209–216. Abramochkina, F.N., L.V. Bezrukova, A.V. Koshelev, V.F. Gal’chenko and Aamand, J., T. Ahl and E. Spieck. 1996. Monoclonal antibodies recog- M.V. Ivanov. 1987. Microbial methane oxidation in a fresh-water res- nizing nitrite oxidoreductase of Nitrobacter hamburgensis, N. winograd- ervoir. Mikrobiologiya 56: 464–471. skyi, and N. vulgaris. Appl. Environ. Microbiol. 62: 2352–2355. Achenbach, L.A., U. Michaelidou, R.A. Bruce, J. Fryman and J.D. Coates. Aarestrup, F.M., E.M. Nielsen, M. Madsen and J. Engberg. 1997. Anti- 2001. Dechloromonas agitata gen. nov., sp. nov. and Dechlorosoma suillum microbial susceptibility patterns of thermophilic Campylobacter spp. gen. nov., sp. nov., two novel environmentally dominant from humans, pigs, cattle, and broilers in Denmark. Antimicrob. (per)chlorate-reducing bacteria and their phylogenetic position. Int. Agents Chemother. 41: 2244–2250. J. Syst. Evol. Microbiol. 51: 527–533. Abadie, M. 1967. Formations intracytoplasmique du type “me´some” chez Achouak, W., R. Christen, M. Barakat, M.H. Martel and T. Heulin. 1999. Chondromyces crocatus Berkeley et Curtis.
    [Show full text]
  • Apiro, Italy September 25-30, 2017
    250 Million Years of Earth History in Central Italy Celebrating 25 Years of the Geological Observatory of Coldigioco Apiro, Italy September 25-30, 2017 A Penrose Conference sponsored by Comune di Apiro 250 Million Years of Earth History in Central Italy: Celebrating 25 years of the Geological Observatory of Coldigioco September 25-29, 2017 Apiro, Marche Region, Italy Conveners: Alessandro Montanari Osservatorio Geologico di Coldigioco, I-62020 Frontale di Apiro (MC), Italy; [email protected] Christian Koeberl Department of Lithospheric Research, University of Vienna, Althanstrasse 14, A-1090 Vienna, Austria, and Natural History Museum, Burgring 7, A-1010 Vienna, Austria; [email protected] Sponsored by: GSA Foundation, Barringer Crater Company, Associazione Le Montagne di San Francesco Description and Objectives: Central Italy has been a cradle of geology for centuries. Since the beginning of the last century, the Triassic to Miocene carbonate succession exposed along the valleys of the Umbria and Marche (U-M) Apennines of Italy, has been a fertile playground for generations of Earth scientists, particularly paleontologists, sedimentologists, stratigraphers, geophysicists, and structural geologists, from all over the world. It is in this geological theater that pioneering studies in the most disparate disciplines of Earth sciences have led to the understanding of novel principles and natural phenomena of the past, the development of new methodologies and experimental research approaches, and ultimately to discontinuities in scientific thinking, with the birth of concepts such as Event Stratigraphy, Integrated Stratigraphy, and Cyclostratigraphy applied to astronomical tuning, let alone Quaternary Geology, Neotectonics and Speleogeology. The Umbria-Marche Apennines of northeastern Italy are a foreland fold-and-thrust belt, which was formed in the latest phase of the Alpine–Himalayan orogenesis.
    [Show full text]