Microbial Taxonomy and Diversity
Total Page:16
File Type:pdf, Size:1020Kb
Load more
Recommended publications
-
Anoxygenic Photosynthesis in Photolithotrophic Sulfur Bacteria and Their Role in Detoxication of Hydrogen Sulfide
antioxidants Review Anoxygenic Photosynthesis in Photolithotrophic Sulfur Bacteria and Their Role in Detoxication of Hydrogen Sulfide Ivan Kushkevych 1,* , Veronika Bosáková 1,2 , Monika Vítˇezová 1 and Simon K.-M. R. Rittmann 3,* 1 Department of Experimental Biology, Faculty of Science, Masaryk University, 62500 Brno, Czech Republic; [email protected] (V.B.); [email protected] (M.V.) 2 Department of Biology, Faculty of Medicine, Masaryk University, 62500 Brno, Czech Republic 3 Archaea Physiology & Biotechnology Group, Department of Functional and Evolutionary Ecology, Universität Wien, 1090 Vienna, Austria * Correspondence: [email protected] (I.K.); [email protected] (S.K.-M.R.R.); Tel.: +420-549-495-315 (I.K.); +431-427-776-513 (S.K.-M.R.R.) Abstract: Hydrogen sulfide is a toxic compound that can affect various groups of water microorgan- isms. Photolithotrophic sulfur bacteria including Chromatiaceae and Chlorobiaceae are able to convert inorganic substrate (hydrogen sulfide and carbon dioxide) into organic matter deriving energy from photosynthesis. This process takes place in the absence of molecular oxygen and is referred to as anoxygenic photosynthesis, in which exogenous electron donors are needed. These donors may be reduced sulfur compounds such as hydrogen sulfide. This paper deals with the description of this metabolic process, representatives of the above-mentioned families, and discusses the possibility using anoxygenic phototrophic microorganisms for the detoxification of toxic hydrogen sulfide. Moreover, their general characteristics, morphology, metabolism, and taxonomy are described as Citation: Kushkevych, I.; Bosáková, well as the conditions for isolation and cultivation of these microorganisms will be presented. V.; Vítˇezová,M.; Rittmann, S.K.-M.R. -
Predatory Prokaryotes: Predation Andprimary Consumption Evolved in Bacteria
Proc. Nati. Acad. Sci. USA Vol. 83, pp. 2138-2142, April 1986 Evolution and Microbiology Predatory prokaryotes: Predation and primary consumption evolved in bacteria (microbial ecology/microbial evolution/Chromalium/Daptobacter/Vampirococcus) RICARDO GUERRERO*, CARLOS PEDR6S-ALI6*, ISABEL ESTEVE*, JORDI MAS*, DAVID CHASEt, AND LYNN MARGULISt *Department of Microbiology and Institute for Fundamental Biology, Autonomous University of Barcelona, Bellaterra (Barcelona), Spain; tCell Biology Laboratory (151iB), Sepulveda Veterans Administration Hospital, Sepulveda, CA 91343; and tDepartment of Biology, Boston University, Boston, MA 02215 Contributed by Lynn Margulis, November 12, 1985 ABSTRACT Two kinds of predatory bacteria have been We report here bacterial scavenging and predation by two observed and characterized by light and electron microscopy in new bacteria, one epibiotic (Vampirococcus) and the other samples from freshwater sulfurous lakes in northeastern Spain. cytoplasmic (Daptobacter). Vampirococcus attacks different The first bacterium, named Vampirococcus, is Gram-negative species of the genus Chromatium, a purple sulfur bacterium and ovoidal (0.6 jam wide). An anaerobic epibiont, it adheres (9). It does not penetrate its prey cells and remains attached to the surface of phototrophic bacteria (Chromatium spp.) by to the Chromatium cell wall. Vampirococcus reproduces specific attachment structures and, as it grows and divides by while "sucking" the innards of its prey in a fashion reminis- fission, destroys its prey. An important -
Nitrogen-Fixing, Photosynthetic, Anaerobic Bacteria Associated with Pelagic Copepods
- AQUATIC MICROBIAL ECOLOGY Vol. 12: 105-113. 1997 Published April 10 , Aquat Microb Ecol Nitrogen-fixing, photosynthetic, anaerobic bacteria associated with pelagic copepods Lita M. Proctor Department of Oceanography, Florida State University, Tallahassee, Florida 32306-3048, USA ABSTRACT: Purple sulfur bacteria are photosynthetic, anaerobic microorganisms that fix carbon di- oxide using hydrogen sulfide as an electron donor; many are also nitrogen fixers. Because of the~r requirements for sulfide or orgamc carbon as electron donors in anoxygenic photosynthesis, these bac- teria are generally thought to be lim~tedto shallow, organic-nch, anoxic environments such as subtidal marine sediments. We report here the discovery of nitrogen-fixing, purple sulfur bactena associated with pelagic copepods from the Caribbean Sea. Anaerobic incubations of bacteria associated with fuU- gut and voided-gut copepods resulted in enrichments of purple/red-pigmented purple sulfur bacteria while anaerobic incubations of bacteria associated with fecal pellets did not yield any purple sulfur bacteria, suggesting that the photosynthetic anaerobes were specifically associated with copepods. Pigment analysis of the Caribbean Sea copepod-associated bacterial enrichments demonstrated that these bactena possess bacter~ochlorophylla and carotenoids in the okenone series, confirming that these bacteria are purple sulfur bacteria. Increases in acetylene reduction paralleled the growth of pur- ple sulfur bactena in the copepod ennchments, suggesting that the purple sulfur bacteria are active nitrogen fixers. The association of these bacteria with planktonic copepods suggests a previously unrecognized role for photosynthetic anaerobes in the marine S, N and C cycles, even in the aerobic water column of the open ocean. KEY WORDS: Manne purple sulfur bacterla . -
Bile Esculin Agar
BILE ESCULIN AGAR INTENDED USE Remel Bile Esculin Agar is a solid medium recommended for use in qualitative procedures for the presumptive identification of group D streptococci and enterococci. SUMMARY AND EXPLANATION Rochaix first demonstrated the value of esculin hydrolysis for identification of enterococci.1 Meyer et al. found that 61 of 62 strains of enterococci hydrolyzed esculin in a medium containing bile.2 Swan determined that positive results obtained on esculin agar containing 40% bile correlated well with serologically confirmed group D streptococci.3 Using Swan’s formula, Facklam and Moody tested over 700 strains of streptococci and enterococci representing all known serological groups and found all strains to be bile-resistant and esculin-positive. PRINCIPLE Group D streptococci and enterococci hydrolyze esculin in the presence of bile to form esculetin and dextrose. Esculetin reacts with ferric ions supplied by ferric ammonium citrate to form brown-black colonies on Bile Esculin Agar. Oxgall in a concentration of 4% (equivalent to 40% bile) inhibits most strains of streptococci and enterococci other than group D. REAGENTS (CLASSICAL FORMULA)* Oxgall (40% Bile) ............................................................ 40.0 g Esculin...............................................................................1.0 g Gelatin Peptone ................................................................ 5.0 g Ferric Ammonium Citrate...................................................0.5 g Beef Extract....................................................................... 3.0 g Agar.................................................................................15.0 g Demineralized Water...................................................1000.0 ml pH 6.8 ± 0.2 @ 25°C *Adjusted as required to meet performance standards. PRECAUTIONS This product is For Laboratory Use only. It is not intended for use in the diagnosis of disease or other conditions. PREPARATION OF DEHYDRATED CULTURE MEDIUM 1. Suspend 64 g of medium in 1000 ml of demineralized water. -
Evaluating Historical Paradigms of Sterility in Perinatal Microbiology and Ramifications Orf Pregnancy Outcomes
Wayne State University Wayne State University Dissertations January 2020 Evaluating Historical Paradigms Of Sterility In Perinatal Microbiology And Ramifications orF Pregnancy Outcomes Jonathan Greenberg Wayne State University Follow this and additional works at: https://digitalcommons.wayne.edu/oa_dissertations Part of the Microbiology Commons, and the Obstetrics and Gynecology Commons Recommended Citation Greenberg, Jonathan, "Evaluating Historical Paradigms Of Sterility In Perinatal Microbiology And Ramifications orF Pregnancy Outcomes" (2020). Wayne State University Dissertations. 2468. https://digitalcommons.wayne.edu/oa_dissertations/2468 This Open Access Dissertation is brought to you for free and open access by DigitalCommons@WayneState. It has been accepted for inclusion in Wayne State University Dissertations by an authorized administrator of DigitalCommons@WayneState. EVALUATING HISTORICAL PARADIGMS OF STERILITY IN PERINATAL MICROBIOLOGY AND RAMIFICATIONS FOR PREGNANCY OUTCOMES by JONATHAN MURRAY GREENBERG DISSERTATION Submitted to the Graduate School of Wayne State University, Detroit, Michigan in partial fulfillment of the requirements for the degree of DOCTOR OF PHILOSOPHY 2020 MAJOR: BIOCHEMISTRY, MICROBIOLOGY, & IMMUNOLOGY Approved by: Advisor Date DEDICATION This dissertation is dedicated to my parents and sister, who have all been immeasurably supportive over my graduate career and more importantly my entire life. I could not have done this without you. ii ACKNOWLEDGMENTS There is no way for me to express fully my sincere gratitude to all the individuals who have had an impact on my life and throughout my time here at Wayne State. None of it would have been possible without Dr. Kevin Theis. Rotating in his lab was one of the best decisions of my life and quite literally got me to where I am. -
Zootaxa, Type Specimens, Samples of Live Individuals and the Galapagos
Zootaxa 2201: 12–20 (2009) ISSN 1175-5326 (print edition) www.mapress.com/zootaxa/ Editorial ZOOTAXA Copyright © 2009 · Magnolia Press ISSN 1175-5334 (online edition) Type specimens, samples of live individuals and the Galapagos Pink Land Iguana THOMAS M. DONEGAN 1 1 Fundación ProAves, 33 Blenheim Road, Caversham, Reading, RG4 7RT, UK [email protected] or [email protected] Abstract The nomenclatural implications of Gentile & Snell (2009)'s innovations in the designation of a type specimen - that is sampled and tagged but not killed - are discussed. The paper also responds to Nemésio (2009)'s criticism of Donegan (2008), where I argued that descriptions based on samples of live individuals are valid. I also discuss whether recent descriptions of such a nature involve a different degree of scientific rigour to other descriptions. Key words: Nomenclatural availability, vouchers, collecting, specimen, type specimen, sample, ethics, framework, Code, Commission, Conolophus marthae. Introduction In this issue of Zootaxa, Gentile & Snell (2009) describe a critically endangered new species of land iguana from the Gálapagos islands, named Conolophus marthae. Aside from being an important discovery, this description includes noteworthy innovations in the designation of a type specimen based on a live individual. In a recent exchange of papers in Zootaxa, the validity of descriptions based on a holotype which is not a full, dead specimen (such as this) have been discussed (Dubois & Nemésio 2007, Donegan 2008, Nemésio 2009). Dubois and Nemésio have expressed the viewpoint that descriptions based on live individuals are not valid nomenclatural acts. I have expressed the contrary view. Other recent descriptions based on holotypes which are not killed have relied solely upon photographs and, in some instances, samples taken from live individuals (see discussion in Donegan 2008). -
Bile Esculin Agar Intended Use Bile Esculin Agar Is A
Bile Esculin Agar Intended Use Bile Esculin Agar is a differential medium used for isolation and presumptive identification of group D Streptococci / Enterococci from food samples. Summary Swan formulated Bile Esculin Agar for the isolation and identification of group D Streptococci from foods. Originally, Bile Esculin Test was used for the identification of Enterococci. However, since group D Streptococci share the test with Enterococci, it is advisable that other tests such as salt tolerance be performed while identifying Enterococci. Meyer and Schonfeld showed that majority of Enterococci were able to grow in esculin and split it, while other Streptococci could not. This medium is used to differentiate Enterococci and Streptococcus bovis from other Streptococci. Principle Oxgall inhibits gram-positive bacteria other than group D Streptococci / Enterococci. Ferric citrate is an indicator of esculin hydrolysis and resulting esculetin formation. Enterococci / group D Streptococci hydrolyze the glycoside esculin to esculetin and dextrose. Esculetin reacts with ferric citrate producing brownish black complex. This medium is also shown to aid differentiation of genus Klebsiella-Enterobacter-Serratia from other Enterobacteriaceae on the basis of esculin hydrolysis. Formula* Ingredients g/L Pancreatic Digest of Gelatin 5.0 Beef Extract 3.0 Oxgall 40.0 Ferric Citrate 0.5 Esculin 1.0 Agar 15.0 Final pH (at 25°C) 6.6 ± 0.2 *Adjusted to suit performance parameters Storage and Stability Store dehydrated medium below 30°C in tightly closed container and the prepared medium at 2ºC-8°C. Avoid freezing and overheating. Use before expiry date on the label. Once opened keep powdered medium closed to avoid hydration. -
Proteome Cold-Shock Response in the Extremely Acidophilic Archaeon, Cuniculiplasma Divulgatum
microorganisms Article Proteome Cold-Shock Response in the Extremely Acidophilic Archaeon, Cuniculiplasma divulgatum Rafael Bargiela 1 , Karin Lanthaler 1,2, Colin M. Potter 1,2 , Manuel Ferrer 3 , Alexander F. Yakunin 1,2, Bela Paizs 1,2, Peter N. Golyshin 1,2 and Olga V. Golyshina 1,2,* 1 School of Natural Sciences, Bangor University, Deiniol Rd, Bangor LL57 2UW, UK; [email protected] (R.B.); [email protected] (K.L.); [email protected] (C.M.P.); [email protected] (A.F.Y.); [email protected] (B.P.); [email protected] (P.N.G.) 2 Centre for Environmental Biotechnology, Bangor University, Deiniol Rd, Bangor LL57 2UW, UK 3 Systems Biotechnology Group, Department of Applied Biocatalysis, CSIC—Institute of Catalysis, Marie Curie 2, 28049 Madrid, Spain; [email protected] * Correspondence: [email protected]; Tel.: +44-1248-388607; Fax: +44-1248-382569 Received: 27 April 2020; Accepted: 15 May 2020; Published: 19 May 2020 Abstract: The archaeon Cuniculiplasma divulgatum is ubiquitous in acidic environments with low-to-moderate temperatures. However, molecular mechanisms underlying its ability to thrive at lower temperatures remain unexplored. Using mass spectrometry (MS)-based proteomics, we analysed the effect of short-term (3 h) exposure to cold. The C. divulgatum genome encodes 2016 protein-coding genes, from which 819 proteins were identified in the cells grown under optimal conditions. In line with the peptidolytic lifestyle of C. divulgatum, its intracellular proteome revealed the abundance of proteases, ABC transporters and cytochrome C oxidase. From 747 quantifiable polypeptides, the levels of 582 proteins showed no change after the cold shock, whereas 104 proteins were upregulated suggesting that they might be contributing to cold adaptation. -
Biofilm Forming Purple Sulfur Bacteria Enrichment from Trunk River
Different biofilm-forming purple sulfur bacteria enriched from Trunk River Xiaolei Liu Abstract Three different types of biofilm were developed on the bottles of purple sulfur bacteria enrichments. The original inoculum is a piece of sea grass covered with purple biofilm that collected from Trunk River during the course. Microscopy imaging showed that two of the three biofilms were apparently composed of two major species. MonoFISH probing supports the recognition of purple sulfur bacteria as Chromatium in the class of gammaproteobacteria which grow together with a deltaproteobacteria species. Such a combination of Chromatium colonize with deltaproteobacteria species is also originally present in the purple biofilm on sea grass. Further work is needed to investigate the potential interactions between these two species. Introduction Purple sulfur bacteria are photosynthetic anearobes in the phylum of Proteobacteria (Fowler et al., 1984), which is capable of fixing carbon dioxide with sulfide other than water as the electron donors. Since oxygen is not produced during their photosynthesis these purple sulfur bacteria are also known as anoxygenic photoautotrophs. Most purple sulfur bacteria synthesize bacteriochlorophyll and carotenoids as their light-harvesting pigment complex (Iba et al., 1988). Because their photosynthesis reQuires anoxic condition and sulfide, these purple sulfur bacteria are often found in organic rich aquatic environments where sulfate reducing heterotrophic bacteria thrive. Both planktonic and benthic species of purple sulfur bacteria exist in different sulfidic environments. In the habitat of stratified meromictic lakes with external sulfate input, such as Green Lake, Mahoney Lake and Lake Cadagno, the phototrophic chemocline microbial communities are often dominated by planktonic purple sulfur bacteria living on sulfide diffused up from organic rich sediment (e.g. -
Note on the Sauropod and Theropod Dinosaurs from the Upper Cretaceous of Madagascar*
EXTRACT FROM THE BULLETIN DE LA SOCIÉTÉ GÉOLOGIQUE DE FRANCE 3rd series, volume XXIV, page 176, 1896. NOTE ON THE SAUROPOD AND THEROPOD DINOSAURS FROM THE UPPER CRETACEOUS OF MADAGASCAR* by Charles DEPÉRET. (PLATE VI). Translated by Matthew Carrano Department of Anatomical Sciences SUNY at Stony Brook, September 1999 The bones of large dinosaurian reptiles described in this work were brought to me by my good friend, Mr. Dr. Félix Salètes, primary physician for the Madagascar expedition, from the environs of Maevarana, where he was charged with installing a provisional hospital. This locality is situated on the right bank of the eastern arm of the Betsiboka, 46 kilometers south of Majunga, on the northwest coast of the island of Madagascar. Not having the time to occupy himself with paleontological studies, Dr. Salètes charged one of his auxiliary agents, Mr. Landillon, company sergeant-major of the marines, with researching the fossils in the environs of the Maevarana post. Thanks to the zeal and activity of Mr. Landillon, who was not afraid to gravely expose his health in these researches, I have been able to receive the precious bones of terrestrial reptiles that are the object of this note, along with an important series of fossil marine shells. I eagerly seize the opportunity here to thank Mr. Landillon for his important shipment and for the very precise geological data which he communicated to me concerning the environs of Maevarana, and of which I will now give a short sketch. 1st. Geology of Maevarana and placement of the localities. * Original reference: Depéret, C. -
Picrophilus Oshimae and Picrophilus Tomdus Fam. Nov., Gen. Nov., Sp. Nov
INTERNATIONALJOURNAL OF SYSTEMATICBACTERIOLOGY, July 1996, p. 814-816 Vol. 46, No. 3 0020-77 13/96/$04.00+0 Copyright 0 1996, International Union of Microbiological Societies Picrophilus oshimae and Picrophilus tomdus fam. nov., gen. nov., sp. nov., Two Species of Hyperacidophilic, Thermophilic, Heterotrophic, Aerobic Archaea CHRISTA SCHLEPER, GABRIELA PUHLER, HANS- PETER KLENK, AND WOLFRAM ZILLIG* Max Plank Institut fur Biochemie, 0-82152 Martinsried, Germany We describe two species of hyperacidophilic, thermophilic, heterotrophic, aerobic archaea that were isolated from solfataric hydrothermal areas in Hokkaido, Japan. These organisms, Picrophilus oshimae and Picrophilus torridus, represent a novel genus and a novel family, the Picrophilaceae, in the kingdom Euryarchaeota and the order Thermoplasmales. Both of these bacteria are more acidophilic than the genus Thermoplasma since they are able to grow at about pH 0. The moderately thermophilic, hyperacidophilic, aerobic ar- which comprises acid-loving (i.e., hyperacidophilic) organisms. chaea (archaebacteria) (7) Picrophilus oshimae and Picrophilus Separation of these taxa is justified by their phylogenetic dis- rorridus, which have been described previously (4, 5), were tance, (9.5% difference in the 16s rRNA sequences of mem- isolated from moderately hot hydrothermal areas in solfataric bers of the Picrophilaceae and T. acidophilum), by the lack of fields in Hokkaido, Japan. One of the sources of isolation was immunochemical cross-reactions in Ouchterlony immunodif- a solfataric spring which had a temperature of 53°C and a pH fusion assays between the RNA polymerases of P. oshimae and of 2.2, and the other was a rather dry hot soil which had a pH T. acidophilum, which also do not occur between members of of <OS. -
Get Consistent and Reliable Results
Need help selecting? M Microbiology Free Tech Support 800-323-4340 Cole-Parmer® Dehydrated Culture Media Get consistent and reliable results – Use when ready or dehydrated culture extends shelf life – Individually numbered with certificate of compliance expiration date, and shelf-life guarantee – Quick dissolve for faster processing – For laboratory use only Media, Dehydrated Media, Media Description Size (g) Catalog number Price Agar, bacteriological This clear gel agar is high grade and manufactured using the ice method 500 GH-14200-10 Azide dextrose broth Use for detection of fecal Streptococci in water and sewage 500 GH-14202-00 Baird parker agar Use for the selective isolation of coagulase positive Staphylococci in food 500 GH-14202-01 Blood agar base with low pH Use to cultivate a wide variety of bacteria 500 GH-14202-02 This is used as a differential medium in the isolation and presumptive identification of Bile Esculin agar 500 GH-14202-03 enterococci/group D streptococci Brain heart infusion agar Use to cultivate a wide spectrum of bacteria, yeasts, and molds 500 GH-14200-12 Brain heart infusion broth Use to cultivate fastidious aerobic and anaerobic bacteria 500 GH-14202-05 Brilliant green bile broth A standard methods medium for confirmed and completed tests for coliforms in water 500 GH-14200-14 Buffered peptone water Helps in the recovery of Salmonella from foods after preservation techniques 500 GH-14202-08 Cetrimide agar Use for the selective isolation of Pseudomonas aeruginosa 500 GH-14200-52 This broth is especially suited for environmental sampling where neutralization of the chemical D/E neutralizing Broth 500 GH-14202-11 is important to determining the bactericidal activity Use to isolate E.