Halophilic Microorganisms Are Responsible for the Rosy Discolouration of Saline Environments in Three Historical Buildings with Mural Paintings
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Desulfuribacillus Alkaliarsenatis Gen. Nov. Sp. Nov., a Deep-Lineage
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by PubMed Central Extremophiles (2012) 16:597–605 DOI 10.1007/s00792-012-0459-7 ORIGINAL PAPER Desulfuribacillus alkaliarsenatis gen. nov. sp. nov., a deep-lineage, obligately anaerobic, dissimilatory sulfur and arsenate-reducing, haloalkaliphilic representative of the order Bacillales from soda lakes D. Y. Sorokin • T. P. Tourova • M. V. Sukhacheva • G. Muyzer Received: 10 February 2012 / Accepted: 3 May 2012 / Published online: 24 May 2012 Ó The Author(s) 2012. This article is published with open access at Springerlink.com Abstract An anaerobic enrichment culture inoculated possible within a pH range from 9 to 10.5 (optimum at pH with a sample of sediments from soda lakes of the Kulunda 10) and a salt concentration at pH 10 from 0.2 to 2 M total Steppe with elemental sulfur as electron acceptor and for- Na? (optimum at 0.6 M). According to the phylogenetic mate as electron donor at pH 10 and moderate salinity analysis, strain AHT28 represents a deep independent inoculated with sediments from soda lakes in Kulunda lineage within the order Bacillales with a maximum of Steppe (Altai, Russia) resulted in the domination of a 90 % 16S rRNA gene similarity to its closest cultured Gram-positive, spore-forming bacterium strain AHT28. representatives. On the basis of its distinct phenotype and The isolate is an obligate anaerobe capable of respiratory phylogeny, the novel haloalkaliphilic anaerobe is suggested growth using elemental sulfur, thiosulfate (incomplete as a new genus and species, Desulfuribacillus alkaliar- T T reduction) and arsenate as electron acceptor with H2, for- senatis (type strain AHT28 = DSM24608 = UNIQEM mate, pyruvate and lactate as electron donor. -
Approcci Colturali
UNIVERSITÀ DEGLI STUDI DELLA TUSCIA DI VITERBO DIPARTIMENTO DI SCIENZE ECOLOGICHE E BIOLOGICHE (DEB) CORSO DI DOTTORATO DI RICERCA IN ECOLOGIA E GESTIONE DELLE RISORSE BIOLOGICHE XXVII CICLO Studio della diversità batterica delle Saline di Tarquinia: approcci colturali e coltura-indipendenti Settore scientifico-disciplinare: BIO/19 Coordinatore: Prof. DANIELE CANESTRELLI Tutor: Prof. MASSIMILIANO FENICE Dottorando: ARIANNA AQUILANTI INDICE 1. INTRODUZIONE………………………………………………………………...1 1.1 GLI AMBIENTI MARINI DI TRANSIZIONE........................................................................1 1.1.1 Caratteristiche chimico-fisiche....................................................................................................2 1.1.2 Caratteristiche ecologiche e biologiche………….……………………………………………..4 1.2 LE SALINE MARINE………………………………………………………………………...6 1.3 I MICRORGANISMI DEGLI AMBIENTI IPERALINI…………………………………...9 1.3.1 Gli eucarioti…………………………………………………………………………………10 1.3.2 I procarioti…………………………………………………………………………………..11 1.3.3 Adattamenti agli ambienti iperalini…………………………………………………………14 1.3.3.1 Strategie osmoregolative e morfostrutturali………………………………………………………14 1.3.3.2 Diversità metabolica dei microrganismi alofili…………………………………………………..18 1.4 TECNICHE DI INDAGINE DELLA DIVERSITÁ MICROBICA……………………….21 1.4.1 Metodi colturali……………………………………………………………………………..21 1.4.2 Metodi coltura-indipendenti………………………………………………………………...25 1.4.2.1 Le tecniche di fingerprinting………………………………………………………………………..25 1.4.2.2 Elettroforesi su gel a gradiente denaturante (DGGE -
Prokaryotic Biodiversity of Halophilic Microorganisms Isolated from Sehline Sebkha Salt Lake (Tunisia)
Vol. 8(4), pp. 355-367, 22 January, 2014 DOI: 10.5897/AJMR12.1087 ISSN 1996-0808 ©2014 Academic Journals African Journal of Microbiology Research http://www.academicjournals.org/AJMR Full Length Research Paper Prokaryotic biodiversity of halophilic microorganisms isolated from Sehline Sebkha Salt Lake (Tunisia) Abdeljabbar HEDI1,2*, Badiaa ESSGHAIER1, Jean-Luc CAYOL2, Marie-Laure FARDEAU2 and Najla SADFI1 1Laboratoire Microorganismes et Biomolécules Actives, Faculté des Sciences de Tunis, Université de Tunis El Manar 2092, Tunisie. 2Laboratoire de Microbiologie et de Biotechnologie des Environnements Chauds UMR180, IRD, Université de Provence et de la Méditerranée, ESIL case 925, 13288 Marseille cedex 9, France. Accepted 7 February, 2013 North of Tunisia consists of numerous ecosystems including extreme hypersaline environments in which the microbial diversity has been poorly studied. The Sehline Sebkha is an important source of salt for food. Due to its economical importance with regards to its salt value, a microbial survey has been conducted. The purpose of this research was to examine the phenotypic features as well as the physiological and biochemical characteristics of the microbial diversity of this extreme ecosystem, with the aim of screening for metabolites of industrial interest. Four samples were obtained from 4 saline sites for physico-chemical and microbiological analyses. All samples studied were hypersaline (NaCl concentration ranging from 150 to 260 g/L). A specific halophilic microbial community was recovered from each site and initial characterization of isolated microorganisms was performed by using both phenotypic and phylogenetic approaches. The 16S rRNA genes from 77 bacterial strains and two archaeal strains were isolated and phylogenetically analyzed and belonged to two phyla Firmicutes and gamma-proteobacteria of the domain Bacteria. -
Table S5. the Information of the Bacteria Annotated in the Soil Community at Species Level
Table S5. The information of the bacteria annotated in the soil community at species level No. Phylum Class Order Family Genus Species The number of contigs Abundance(%) 1 Firmicutes Bacilli Bacillales Bacillaceae Bacillus Bacillus cereus 1749 5.145782459 2 Bacteroidetes Cytophagia Cytophagales Hymenobacteraceae Hymenobacter Hymenobacter sedentarius 1538 4.52499338 3 Gemmatimonadetes Gemmatimonadetes Gemmatimonadales Gemmatimonadaceae Gemmatirosa Gemmatirosa kalamazoonesis 1020 3.000970902 4 Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas indica 797 2.344876284 5 Firmicutes Bacilli Lactobacillales Streptococcaceae Lactococcus Lactococcus piscium 542 1.594633558 6 Actinobacteria Thermoleophilia Solirubrobacterales Conexibacteraceae Conexibacter Conexibacter woesei 471 1.385742446 7 Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas taxi 430 1.265115184 8 Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas wittichii 388 1.141545794 9 Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas sp. FARSPH 298 0.876754244 10 Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sorangium cellulosum 260 0.764953367 11 Proteobacteria Deltaproteobacteria Myxococcales Polyangiaceae Sorangium Sphingomonas sp. Cra20 260 0.764953367 12 Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas panacis 252 0.741416341 -
Marine Rare Actinomycetes: a Promising Source of Structurally Diverse and Unique Novel Natural Products
Review Marine Rare Actinomycetes: A Promising Source of Structurally Diverse and Unique Novel Natural Products Ramesh Subramani 1 and Detmer Sipkema 2,* 1 School of Biological and Chemical Sciences, Faculty of Science, Technology & Environment, The University of the South Pacific, Laucala Campus, Private Mail Bag, Suva, Republic of Fiji; [email protected] 2 Laboratory of Microbiology, Wageningen University & Research, Stippeneng 4, 6708 WE Wageningen, The Netherlands * Correspondence: [email protected]; Tel.: +31-317-483113 Received: 7 March 2019; Accepted: 23 April 2019; Published: 26 April 2019 Abstract: Rare actinomycetes are prolific in the marine environment; however, knowledge about their diversity, distribution and biochemistry is limited. Marine rare actinomycetes represent a rather untapped source of chemically diverse secondary metabolites and novel bioactive compounds. In this review, we aim to summarize the present knowledge on the isolation, diversity, distribution and natural product discovery of marine rare actinomycetes reported from mid-2013 to 2017. A total of 97 new species, representing 9 novel genera and belonging to 27 families of marine rare actinomycetes have been reported, with the highest numbers of novel isolates from the families Pseudonocardiaceae, Demequinaceae, Micromonosporaceae and Nocardioidaceae. Additionally, this study reviewed 167 new bioactive compounds produced by 58 different rare actinomycete species representing 24 genera. Most of the compounds produced by the marine rare actinomycetes present antibacterial, antifungal, antiparasitic, anticancer or antimalarial activities. The highest numbers of natural products were derived from the genera Nocardiopsis, Micromonospora, Salinispora and Pseudonocardia. Members of the genus Micromonospora were revealed to be the richest source of chemically diverse and unique bioactive natural products. -
Microbial Extremophiles in Aspect of Limits of Life. Elena V. ~Ikuta
Source of Acquisition NASA Marshall Space Flight Centel Microbial extremophiles in aspect of limits of life. Elena V. ~ikuta',Richard B. ~oover*,and Jane an^.^ IT LF " '-~ationalSpace Sciences and Technology CenterINASA, VP-62, 320 Sparkman Dr., Astrobiology Laboratory, Huntsville, AL 35805, USA. 3- Noblis, 3 150 Fairview Park Drive South, Falls Church, VA 22042, USA. Introduction. During Earth's evolution accompanied by geophysical and climatic changes a number of ecosystems have been formed. These ecosystems differ by the broad variety of physicochemical and biological factors composing our environment. Traditionally, pH and salinity are considered as geochemical extremes, as opposed to the temperature, pressure and radiation that are referred to as physical extremes (Van den Burg, 2003). Life inhabits all possible places on Earth interacting with the environment and within itself (cross species relations). In nature it is very rare when an ecotope is inhabited by a single species. As a rule, most ecosystems contain the functionally related and evolutionarily adjusted communities (consortia and populations). In contrast to the multicellular structure of eukaryotes (tissues, organs, systems of organs, whole organism), the highest organized form of prokaryotic life in nature is the benthic colonization in biofilms and microbial mats. In these complex structures all microbial cells of different species are distributed in space and time according to their functions and to physicochemical gradients that allow more effective system support, self- protection, and energy distribution. In vitro, of course, the most primitive organized structure for bacterial and archaeal cultures is the colony, the size, shape, color, consistency, and other characteristics of which could carry varies specifics on species or subspecies levels. -
Caracterización Metagenómica De Genes Asociados a La Síntesis Y Resistencia De Compuestos Antimicrobianos En Suelos De Manglar
Caracterización metagenómica de genes asociados a la síntesis y resistencia de compuestos antimicrobianos en suelos de manglar Alejandro Sepúlveda Correa Universidad Nacional de Colombia Facultad de Ciencias Agrarias, Departamento de Ciencias Forestales Medellín, Colombia 2021 Caracterización metagenómica de genes asociados a la síntesis y resistencia de compuestos antimicrobianos en suelos de manglar Alejandro Sepúlveda Correa Tesis presentada como requisito parcial para optar al título de: Magister en Bosques y Conservación Directores: Profesor titular Jaime Polanía, Dr.rer.nat. Profesor Javier Vanegas Guerrero, Ph.D. Línea de Investigación: Componente físico, biológico, químico y geológico del medio marino e hídrico continental Facultad de Ciencias Agrarias, Departamento de Ciencias Forestales Medellín, Colombia 2021 A mi familia, especialmente a mi papá, Julio Sepúlveda Arango, y mi mamá, Luz Mary Correa Patiño. Agradecimientos Agradezco al profesor Jaime Polanía, de la Universidad Nacional de Colombia, quien no solo es mi director en la presente tesis, también es mi modelo a seguir en mi formación como científico e investigador; y a mi codirector, el profesor Javier Vanegas, de la Universidad Antonio Nariño, quien me abrió las puertas de su investigación. También agradezco a mi familia y a Yennifer por compartir conmigo en medio de la experiencia de escribir esta tesis y hacer más amenos los tiempos de la pandemia. Este trabajo estuvo enmarcado dentro del proyecto “Diversidad funcional de microorganismos asociados al ciclaje de C, N y P en el manglar la Ranchería (La Guajira) mediante un acercamiento de metatranscriptómica”, contrato 529/14, cofinanciado por Colciencias y las universidades Antonio Nariño y Nacional de Colombia Sede Medellín. -
Complete Genome Sequence of Jiangella Gansuensis Strain YIM 002T (DSM 44835T), the Type Species of the Genus Jiangella and Source of New Antibiotic Compounds
UC Davis UC Davis Previously Published Works Title Complete genome sequence of Jiangella gansuensis strain YIM 002T (DSM 44835T), the type species of the genus Jiangella and source of new antibiotic compounds. Permalink https://escholarship.org/uc/item/34s6p01n Journal Standards in genomic sciences, 12(1) ISSN 1944-3277 Authors Jiao, Jian-Yu Carro, Lorena Liu, Lan et al. Publication Date 2017 DOI 10.1186/s40793-017-0226-6 Peer reviewed eScholarship.org Powered by the California Digital Library University of California Jiao et al. Standards in Genomic Sciences (2017) 12:21 DOI 10.1186/s40793-017-0226-6 SHORTGENOMEREPORT Open Access Complete genome sequence of Jiangella gansuensis strain YIM 002T (DSM 44835T), the type species of the genus Jiangella and source of new antibiotic compounds Jian-Yu Jiao1, Lorena Carro2, Lan Liu1, Xiao-Yang Gao3, Xiao-Tong Zhang1, Wael N. Hozzein4,12, Alla Lapidus5,6, Marcel Huntemann7, T. B. K. Reddy7, Neha Varghese7, Michalis Hadjithomas7, Natalia N. Ivanova7, Markus Göker8, Manoj Pillay9, Jonathan A. Eisen10, Tanja Woyke7, Hans-Peter Klenk2,8*, Nikos C. Kyrpides7,11 and Wen-Jun Li1,13* Abstract Jiangella gansuensis strain YIM 002T is the type strain of the type species of the genus Jiangella, which is at the present time composed of five species, and was isolated from desert soil sample in Gansu Province (China). The five strains of this genus are clustered in a monophyletic group when closer actinobacterial genera are used to infer a 16S rRNA gene sequence phylogeny. The study of this genome is part of the Genomic Encyclopedia of Bacteria and Archaea project, and here we describe the complete genome sequence and annotation of this taxon. -
Jiangella Anatolica Sp. Nov. Isolated from Coastal Lake Soil
[This is a post-peer-review, pre-copyedit version of an article published in Antonie van Leeuwenhoek. The final authenticated version is available online at: http://dx.doi.org/10.1007/s10482-018-01222-y] Jiangella anatolica sp. nov. isolated from coastal lake soil Hilal Ay1*, Imen Nouioui2, Lorena Carro2¥, Hans-Peter Klenk2, Demet Cetin3, José M. Igual4, Nevzat Sahin1, Kamil Isik5 1H. Ay, N. Sahin Department of Molecular Biology and Genetics, Faculty of Science and Arts, Ondokuz Mayis University, Samsun, Turkey *Corresponding author: [email protected], Tel: +90 362 312 1919, Fax: +90 362 457 6081 2I. Nouioui, L. Carro, H.-P. Klenk School of Natural and Environmental Sciences, Newcastle University, Ridley Building 2, Newcastle upon Tyne, NE1 7RU, UK ¥Present address: Dpto. de Microbiología y Genética. Universidad de Salamanca, Salamanca, 37007, Spain. 3D. Cetin Science Teaching Programme, Gazi Faculty of Education, Gazi University, 06500, Ankara, Turkey 4J. M. Igual Instituto de Recursos Naturales y Agrobiologia de Salamanca, Consejo Superior de Investigaciones Cientificas (IRNASA-CSIC), Salamanca, Spain 5K. Isik Department of Biology, Faculty of Science and Arts, Ondokuz Mayis University, Samsun, Turkey Introduction The genus Jiangella was first proposed by Song et al. (2005) within the family Nocardioidaceae. However, Tang et al. (2011) established the family Jiangellaceae to accommodate the genera Jiangella (Song et al. 2005) and Haloactinopolyspora (Tang et al. 2011) mainly based on phylogenetic analysis of phylum Actinobacteria. Currently, the family Jiangellaceae includes the genera Jiangella, Haloactinopolyspora and the recently described Phytoactinopolyspora (Li et al. 2015). The type genus Jiangella encompasses aerobic, Gram-positive, filamentous actinomycetes with substrate mycelium fragmented into short and elongated rods. -
Thermolongibacillus Cihan Et Al
Genus Firmicutes/Bacilli/Bacillales/Bacillaceae/ Thermolongibacillus Cihan et al. (2014)VP .......................................................................................................................................................................................... Arzu Coleri Cihan, Department of Biology, Faculty of Science, Ankara University, Ankara, Turkey Kivanc Bilecen and Cumhur Cokmus, Department of Molecular Biology & Genetics, Faculty of Agriculture & Natural Sciences, Konya Food & Agriculture University, Konya, Turkey Ther.mo.lon.gi.ba.cil’lus. Gr. adj. thermos hot; L. adj. Type species: Thermolongibacillus altinsuensis E265T, longus long; L. dim. n. bacillus small rod; N.L. masc. n. DSM 24979T, NCIMB 14850T Cihan et al. (2014)VP. .................................................................................. Thermolongibacillus long thermophilic rod. Thermolongibacillus is a genus in the phylum Fir- Gram-positive, motile rods, occurring singly, in pairs, or micutes,classBacilli, order Bacillales, and the family in long straight or slightly curved chains. Moderate alka- Bacillaceae. There are two species in the genus Thermo- lophile, growing in a pH range of 5.0–11.0; thermophile, longibacillus, T. altinsuensis and T. kozakliensis, isolated growing in a temperature range of 40–70∘C; halophile, from sediment and soil samples in different ther- tolerating up to 5.0% (w/v) NaCl. Catalase-weakly positive, mal hot springs, respectively. Members of this genus chemoorganotroph, grow aerobically, but not under anaer- are thermophilic (40–70∘C), halophilic (0–5.0% obic conditions. Young cells are 0.6–1.1 μm in width and NaCl), alkalophilic (pH 5.0–11.0), endospore form- 3.0–8.0 μm in length; cells in stationary and death phases ing, Gram-positive, aerobic, motile, straight rods. are 0.6–1.2 μm in width and 9.0–35.0 μm in length. -
Halophilic Adaptation of Marinococcus in a Natural Magnesium
Edinburgh Research Explorer Building a Geochemical View of Microbial Salt Tolerance: Halophilic Adaptation of Marinococcus in a Natural Magnesium Sulfate Brine Citation for published version: Fox-powell, MG & Cockell, CS 2018, 'Building a Geochemical View of Microbial Salt Tolerance: Halophilic Adaptation of Marinococcus in a Natural Magnesium Sulfate Brine', Frontiers in Microbiology, vol. 9. https://doi.org/10.3389/fmicb.2018.00739 Digital Object Identifier (DOI): 10.3389/fmicb.2018.00739 Link: Link to publication record in Edinburgh Research Explorer Document Version: Publisher's PDF, also known as Version of record Published In: Frontiers in Microbiology General rights Copyright for the publications made accessible via the Edinburgh Research Explorer is retained by the author(s) and / or other copyright owners and it is a condition of accessing these publications that users recognise and abide by the legal requirements associated with these rights. Take down policy The University of Edinburgh has made every reasonable effort to ensure that Edinburgh Research Explorer content complies with UK legislation. If you believe that the public display of this file breaches copyright please contact [email protected] providing details, and we will remove access to the work immediately and investigate your claim. Download date: 27. Sep. 2021 fmicb-09-00739 April 16, 2018 Time: 11:46 # 1 ORIGINAL RESEARCH published: 16 April 2018 doi: 10.3389/fmicb.2018.00739 Building a Geochemical View of Microbial Salt Tolerance: Halophilic Adaptation of Marinococcus in a Natural Magnesium Sulfate Brine Mark G. Fox-Powell1,2* and Charles S. Cockell1 1 UK Centre for Astrobiology, School of Physics and Astronomy, The University of Edinburgh, Edinburgh, United Kingdom, 2 School of Earth and Environmental Sciences, University of St Andrews, St Andrews, United Kingdom Current knowledge of life in hypersaline habitats is mostly limited to sodium and chloride- dominated environments. -
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.