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Thureborn Et Al 2013
http://www.diva-portal.org This is the published version of a paper published in PLoS ONE. Citation for the original published paper (version of record): Thureborn, P., Lundin, D., Plathan, J., Poole, A., Sjöberg, B. et al. (2013) A Metagenomics Transect into the Deepest Point of the Baltic Sea Reveals Clear Stratification of Microbial Functional Capacities. PLoS ONE, 8(9): e74983 http://dx.doi.org/10.1371/journal.pone.0074983 Access to the published version may require subscription. N.B. When citing this work, cite the original published paper. Permanent link to this version: http://urn.kb.se/resolve?urn=urn:nbn:se:sh:diva-20021 A Metagenomics Transect into the Deepest Point of the Baltic Sea Reveals Clear Stratification of Microbial Functional Capacities Petter Thureborn1,2*., Daniel Lundin1,3,4., Josefin Plathan2., Anthony M. Poole2,5, Britt-Marie Sjo¨ berg2,4, Sara Sjo¨ ling1 1 School of Natural Sciences and Environmental Studies, So¨derto¨rn University, Huddinge, Sweden, 2 Department of Molecular Biology and Functional Genomics, Stockholm University, Stockholm, Sweden, 3 Science for Life Laboratories, Royal Institute of Technology, Solna, Sweden, 4 Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden, 5 School of Biological Sciences, University of Canterbury, Christchurch, New Zealand Abstract The Baltic Sea is characterized by hyposaline surface waters, hypoxic and anoxic deep waters and sediments. These conditions, which in turn lead to a steep oxygen gradient, are particularly evident at Landsort Deep in the Baltic Proper. Given these substantial differences in environmental parameters at Landsort Deep, we performed a metagenomic census spanning surface to sediment to establish whether the microbial communities at this site are as stratified as the physical environment. -
Respiration in the Mesopelagic and Bathypelagic Zones of the Oceans
CHAPTER 10 Respiration in the mesopelagic and bathypelagic zones of the oceans Javier Arístegui1, Susana Agustí2, Jack J. Middelburg3, and Carlos M. Duarte2 1 Facultad de Ciencias del Mar, Universidad de las Palmas de Gran Canaria, Spain 2 IMEDEA (CSIC–UIB), Spain 3 Netherlands Institute of Ecology, The Netherlands Outline In this chapter the mechanisms of transport and remineralization of organic matter in the dark water-column and sediments of the oceans are reviewed. We compare the different approaches to estimate respiration rates, and discuss the discrepancies obtained by the different methodologies. Finally, a respiratory carbon budget is produced for the dark ocean, which includes vertical and lateral fluxes of organic matter. In spite of the uncertainties inherent in the different approaches to estimate carbon fluxes and oxygen consumption in the dark ocean, estimates vary only by a factor of 1.5. Overall, direct measurements of respiration, as well as − indirect approaches, converge to suggest a total dark ocean respiration of 1.5–1.7 Pmol C a 1. Carbon mass − balances in the dark ocean suggest that the dark ocean receives 1.5–1.6 Pmol C a 1, similar to the estimated respiration, of which >70% is in the form of sinking particles. Almost all the organic matter (∼92%) is remineralized in the water column, the burial in sediments accounts for <1%. Mesopelagic (150–1000 m) − − respiration accounts for ∼70% of dark ocean respiration, with average integrated rates of 3–4 mol C m 2 a 1, − − 6–8 times greater than in the bathypelagic zone (∼0.5 mol C m 2 a 1). -
A Dolomitization Event at the Oceanic Chemocline During the Permian-Triassic Transition Mingtao Li1, Haijun Song1*, Thomas J
https://doi.org/10.1130/G45479.1 Manuscript received 11 August 2018 Revised manuscript received 4 October 2018 Manuscript accepted 5 October 2018 © 2018 The Authors. Gold Open Access: This paper is published under the terms of the CC-BY license. Published online 23 October 2018 A dolomitization event at the oceanic chemocline during the Permian-Triassic transition Mingtao Li1, Haijun Song1*, Thomas J. Algeo1,2,3, Paul B. Wignall4, Xu Dai1, and Adam D. Woods5 1State Key Laboratory of Biogeology and Environmental Geology, School of Earth Science, China University of Geosciences, Wuhan 430074, China 2State Key Laboratory of Geological Processes and Mineral Resources, School of Earth Science, China University of Geosciences, Wuhan 430074, China 3Department of Geology, University of Cincinnati, Cincinnati, Ohio 45221-0013, USA 4School of Earth and Environment, University of Leeds, Leeds LS2 9JT, UK 5Department of Geological Sciences, California State University, Fullerton, California 92834-6850, USA ABSTRACT in dolomite in the uppermost Permian–lowermost Triassic was first noted The Permian-Triassic boundary (PTB) crisis caused major short- by Wignall and Twitchett (2002) and has been attributed to an increased term perturbations in ocean chemistry, as recorded by the precipita- weathering flux of Mg-bearing clays to the ocean (Algeo et al., 2011). tion of anachronistic carbonates. Here, we document for the first time Here, we examine the distribution of dolomite in 22 PTB sections, docu- a global dolomitization event during the Permian-Triassic transition menting a global dolomitization event and identifying additional controls based on Mg/(Mg + Ca) data from 22 sections with a global distri- on its formation during the Permian-Triassic transition. -
Lake Ecology
Fundamentals of Limnology Oxygen, Temperature and Lake Stratification Prereqs: Students should have reviewed the importance of Oxygen and Carbon Dioxide in Aquatic Systems Students should have reviewed the video tape on the calibration and use of a YSI oxygen meter. Students should have a basic knowledge of pH and how to use a pH meter. Safety: This module includes field work in boats on Raystown Lake. On average, there is a death due to drowning on Raystown Lake every two years due to careless boating activities. You will very strongly decrease the risk of accident when you obey the following rules: 1. All participants in this field exercise will wear Coast Guard certified PFDs. (No exceptions for teachers or staff). 2. There is no "horseplay" allowed on boats. This includes throwing objects, splashing others, rocking boats, erratic operation of boats or unnecessary navigational detours. 3. Obey all boating regulations, especially, no wake zone markers 4. No swimming from boats 5. Keep all hands and sampling equipment inside of boats while the boats are moving. 6. Whenever possible, hold sampling equipment inside of the boats rather than over the water. We have no desire to donate sampling gear to the bottom of the lake. 7. The program director has final say as to what is and is not appropriate safety behavior. Failure to comply with the safety guidelines and the program director's requests will result in expulsion from the program and loss of Field Station privileges. I. Introduction to Aquatic Environments Water covers 75% of the Earth's surface. We divide that water into three types based on the salinity, the concentration of dissolved salts in the water. -
Dispersion in the Open Ocean Seasonal Pycnocline at Scales of 1–10Km and 1–6 Days
FEBRUARY 2020 S U N D E R M E Y E R E T A L . 415 Dispersion in the Open Ocean Seasonal Pycnocline at Scales of 1–10km and 1–6 days a MILES A. SUNDERMEYER AND DANIEL A. BIRCH University of Massachusetts Dartmouth, North Dartmouth, Massachusetts JAMES R. LEDWELL Woods Hole Oceanographic Institution, Woods Hole, Massachusetts b MURRAY D. LEVINE, STEPHEN D. PIERCE, AND BRANDY T. KUEBEL CERVANTES Oregon State University, Corvallis, Oregon (Manuscript received 23 January 2019, in final form 14 November 2019) ABSTRACT Results are presented from two dye release experiments conducted in the seasonal thermocline of the 2 2 Sargasso Sea, one in a region of low horizontal strain rate (;10 6 s 1), the second in a region of intermediate 2 2 horizontal strain rate (;10 5 s 1). Both experiments lasted ;6 days, covering spatial scales of 1–10 and 1–50 km for the low and intermediate strain rate regimes, respectively. Diapycnal diffusivities estimated from 26 2 21 2 21 the two experiments were kz 5 (2–5) 3 10 m s , while isopycnal diffusivities were kH 5 (0.2–3) m s , with the range in kH being less a reflection of site-to-site variability, and more due to uncertainties in the background strain rate acting on the patch combined with uncertain time dependence. The Site I (low strain) experiment exhibited minimal stretching, elongating to approximately 10 km over 6 days while maintaining a width of ;5 km, and with a notable vertical tilt in the meridional direction. By contrast, the Site II (inter- mediate strain) experiment exhibited significant stretching, elongating to more than 50 km in length and advecting more than 150 km while still maintaining a width of order 3–5 km. -
Direct Observations of Along-Isopycnal Upwelling and Diapycnal Velocity at a Shelfbreak Front John A
University of Rhode Island DigitalCommons@URI Graduate School of Oceanography Faculty Graduate School of Oceanography Publications 2004 Direct Observations of Along-Isopycnal Upwelling and Diapycnal Velocity at a Shelfbreak Front John A. Barth Dave Hebert University of Rhode Island See next page for additional authors Follow this and additional works at: https://digitalcommons.uri.edu/gsofacpubs Citation/Publisher Attribution Barth, J.A., D. Hebert, A.C. Dale, and D.S. Ullman, 2004: Direct Observations of Along-Isopycnal Upwelling and Diapycnal Velocity at a Shelfbreak Front. J. Phys. Oceanogr., 34, 543–565. doi: 10.1175/2514.1 Available at: https://doi.org/10.1175/2514.1 This Article is brought to you for free and open access by the Graduate School of Oceanography at DigitalCommons@URI. It has been accepted for inclusion in Graduate School of Oceanography Faculty Publications by an authorized administrator of DigitalCommons@URI. For more information, please contact [email protected]. Authors John A. Barth, Dave Hebert, Andrew C. Dale, and David S. Ullman This article is available at DigitalCommons@URI: https://digitalcommons.uri.edu/gsofacpubs/337 MARCH 2004 BARTH ET AL. 543 Direct Observations of Along-Isopycnal Upwelling and Diapycnal Velocity at a Shelfbreak Front* JOHN A. BARTH College of Oceanic and Atmospheric Sciences, Oregon State University, Corvallis, Oregon DAVE HEBERT Graduate School of Oceanography, University of Rhode Island, Narragansett, Rhode Island ANDREW C. DALE College of Oceanic and Atmospheric Sciences, Oregon State University, Corvallis, Oregon DAVID S. ULLMAN Graduate School of Oceanography, University of Rhode Island, Narragansett, Rhode Island (Manuscript received 18 November 2002, in ®nal form 2 September 2003) ABSTRACT By mapping the three-dimensional density ®eld while simultaneously tracking a subsurface, isopycnal ¯oat, direct observations of upwelling along a shelfbreak front were made on the southern ¯ank of Georges Bank. -
A Lake and Pond Classification System for the Northeast and Mid-Atlantic States
A Lake and Pond Classification System for the Northeast and Mid-Atlantic States November 2014 Mark Anderson, Arlene Olivero Sheldon, Alex Jospe The Nature Conservancy Eastern Regional Office Call Outline • Goal • Process • Key Variables – Trophic Level – Alkalinity – Temperature – Depth • Integration of Variables into Types • Distributable Information • Web Mapping Service Goal: A classification and map of waterbodies in the Northeast Product is not intended to override existing state or regional classifications, but is meant to complement and build upon existing classifications to create a seemless eastern U.S. aquatic classification that will provide a means for looking at patterns across the region. Counterpart to the NE Aquatic Habitat Classification Streams and • Lakes and Ponds Rivers Olivero, A, and M.G. Anderson. 2008. The Northeast Aquatic Habitat Classification. The Nature Conservancy, Eastern Conservation Science. 90 pp. http://www.rcngrants.org/spatialData Steering Committee State/Federal Name Agency EPA Jeff Hollister Environmental Protection Agency ME Dave Halliwell Department of Environmental Protection Develop Douglas Suitor Department of Environmental Protection frame- Linda Bacon Department of Environmental Protection Dave Coutemanch The Nature Conservancy work NH Matt Carpenter Division of Fish and Game VT Kellie Merrell Department of Environmental Conservation MA Richard Hartley Department of Fish and Game Share Mark Mattson Department of Environmental Protection CT Brian Eltz DEEP Inland Fisheries Division data NY -
A Primer on Limnology, Second Edition
BIOLOGICAL PHYSICAL lake zones formation food webs variability primary producers light chlorophyll density stratification algal succession watersheds consumers and decomposers CHEMICAL general lake chemistry trophic status eutrophication dissolved oxygen nutrients ecoregions biological differences The following overview is taken from LAKE ECOLOGY OVERVIEW (Chapter 1, Horne, A.J. and C.R. Goldman. 1994. Limnology. 2nd edition. McGraw-Hill Co., New York, New York, USA.) Limnology is the study of fresh or saline waters contained within continental boundaries. Limnology and the closely related science of oceanography together cover all aquatic ecosystems. Although many limnologists are freshwater ecologists, physical, chemical, and engineering limnologists all participate in this branch of science. Limnology covers lakes, ponds, reservoirs, streams, rivers, wetlands, and estuaries, while oceanography covers the open sea. Limnology evolved into a distinct science only in the past two centuries, when improvements in microscopes, the invention of the silk plankton net, and improvements in the thermometer combined to show that lakes are complex ecological systems with distinct structures. Today, limnology plays a major role in water use and distribution as well as in wildlife habitat protection. Limnologists work on lake and reservoir management, water pollution control, and stream and river protection, artificial wetland construction, and fish and wildlife enhancement. An important goal of education in limnology is to increase the number of people who, although not full-time limnologists, can understand and apply its general concepts to a broad range of related disciplines. A primary goal of Water on the Web is to use these beautiful aquatic ecosystems to assist in the teaching of core physical, chemical, biological, and mathematical principles, as well as modern computer technology, while also improving our students' general understanding of water - the most fundamental substance necessary for sustaining life on our planet. -
Diurnal and Seasonal Variations of Thermal Stratification and Vertical
Journal of Meteorological Research 1 Yang, Y. C., Y. W. Wang, Z. Zhang, et al., 2018: Diurnal and seasonal variations of 2 thermal stratification and vertical mixing in a shallow fresh water lake. J. Meteor. 3 Res., 32(x), XXX-XXX, doi: 10.1007/s13351-018-7099-5.(in press) 4 5 Diurnal and Seasonal Variations of Thermal 6 Stratification and Vertical Mixing in a Shallow 7 Fresh Water Lake 8 9 Yichen YANG 1, 2, Yongwei WANG 1, 3*, Zhen ZHANG 1, 4, Wei WANG 1, 4, Xia REN 1, 3, 10 Yaqi GAO 1, 3, Shoudong LIU 1, 4, and Xuhui LEE 1, 5 11 1 Yale-NUIST Center on Atmospheric Environment, Nanjing University of Information, 12 Science and Technology, Nanjing 210044, China 13 2 School of Environmental Science and Engineering, Nanjing University of Information, 14 Science and Technology, Nanjing 210044, China 15 3 School of Atmospheric Physics, Nanjing University of Information, Science and Technology, 16 Nanjing 210044, China 17 4 School of Applied Meteorology, Nanjing University of Information, Science and 18 Technology, Nanjing 210044, China 19 5 School of Forestry and Environmental Studies, Yale University, New Haven, CT 06511, 20 USA 21 (Received June 21, 2017; in final form November 18, 2017) 22 23 Supported by the National Natural Science Foundation of China (41275024, 41575147, Journal of Meteorological Research 24 41505005, and 41475141), the Natural Science Foundation of Jiangsu Province, China 25 (BK20150900), the Startup Foundation for Introducing Talent of Nanjing University of 26 Information Science and Technology (2014r046), the Ministry of Education of China under 27 grant PCSIRT and the Priority Academic Program Development of Jiangsu Higher Education 28 Institutions. -
Chapter 5 Lecture
ChapterChapter 1 5 Clickers Lecture Essentials of Oceanography Eleventh Edition Water and Seawater Alan P. Trujillo Harold V. Thurman © 2014 Pearson Education, Inc. Chapter Overview • Water has many unique thermal and dissolving properties. • Seawater is mostly water molecules but has dissolved substances. • Ocean water salinity, temperature, and density vary with depth. © 2014 Pearson Education, Inc. Water on Earth • Presence of water on Earth makes life possible. • Organisms are mostly water. © 2014 Pearson Education, Inc. Atomic Structure • Atoms – building blocks of all matter • Subatomic particles – Protons – Neutrons – Electrons • Number of protons distinguishes chemical elements © 2014 Pearson Education, Inc. Molecules • Molecule – Two or more atoms held together by shared electrons – Smallest form of a substance © 2014 Pearson Education, Inc. Water molecule • Strong covalent bonds between one hydrogen (H) and two oxygen (O) atoms • Both H atoms on same side of O atom – Bent molecule shape gives water its unique properties • Dipolar © 2014 Pearson Education, Inc. Hydrogen Bonding • Polarity means small negative charge at O end • Small positive charge at H end • Attraction between positive and negative ends of water molecules to each other or other ions © 2014 Pearson Education, Inc. Hydrogen Bonding • Hydrogen bonds are weaker than covalent bonds but still strong enough to contribute to – Cohesion – molecules sticking together – High water surface tension – High solubility of chemical compounds in water – Unusual thermal properties of water – Unusual density of water © 2014 Pearson Education, Inc. Water as Solvent • Water molecules stick to other polar molecules. • Electrostatic attraction produces ionic bond . • Water can dissolve almost anything – universal solvent © 2014 Pearson Education, Inc. Water’s Thermal Properties • Water is solid, liquid, and gas at Earth’s surface. -
Dark Aerobic Sulfide Oxidation by Anoxygenic Phototrophs in the Anoxic Waters 2 of Lake Cadagno 3 4 Jasmine S
bioRxiv preprint doi: https://doi.org/10.1101/487272; this version posted December 6, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 1 Dark aerobic sulfide oxidation by anoxygenic phototrophs in the anoxic waters 2 of Lake Cadagno 3 4 Jasmine S. Berg1,2*, Petra Pjevac3, Tobias Sommer4, Caroline R.T. Buckner1, Miriam Philippi1, Philipp F. 5 Hach1, Manuel Liebeke5, Moritz Holtappels6, Francesco Danza7,8, Mauro Tonolla7,8, Anupam Sengupta9, , 6 Carsten J. Schubert4, Jana Milucka1, Marcel M.M. Kuypers1 7 8 1Department of Biogeochemistry, Max Planck Institute for Marine Microbiology, 28359 Bremen, Germany 9 2Institut de Minéralogie, Physique des Matériaux et Cosmochimie, Université Pierre et Marie Curie, CNRS UMR 10 7590, 4 Place Jussieu, 75252 Paris Cedex 05, France 11 3Division of Microbial Ecology, Department of Microbiology and Ecosystem Science, University of Vienna, 1090 12 Vienna, Austria 13 4Eawag, Swiss Federal Institute of Aquatic Science and Technology, Kastanienbaum, Switzerland 14 5Department of Symbiosis, Max Planck Institute for Marine Microbiology, 28359 Bremen, Germany 15 6Alfred-Wegener-Institut, Helmholtz-Zentrum für Polar- und Meeresforschung, Am Alten Hafen 26, 27568 16 Bremerhaven, Germany 17 7Laboratory of Applied Microbiology (LMA), Department for Environmental Constructions and Design (DACD), 18 University of Applied Sciences and Arts of Southern Switzerland (SUPSI), via Mirasole 22a, 6500 Bellinzona, 19 Switzerland 20 8Microbiology Unit, Department of Botany and Plant Biology, University of Geneva, 1211 Geneva, Switzerland 21 9Institute for Environmental Engineering, Department of Civil, Environmental and Geomatic Engineering, ETH 22 Zurich, 8093 Zurich, Switzerland. -
Diurnal and Seasonal Variations of Thermal Stratification and Vertical Mixing in a Shallow Fresh Water Lake
Volume 32 APRIL 2018 Diurnal and Seasonal Variations of Thermal Stratification and Vertical Mixing in a Shallow Fresh Water Lake Yichen YANG1,2, Yongwei WANG1,3*, Zhen ZHANG1,4, Wei WANG1,4, Xia REN1,3, Yaqi GAO1,3, Shoudong LIU1,4, and Xuhui LEE1,5 1 Yale–NUIST Center on Atmospheric Environment, Nanjing University of Information Science & Technology, Nanjing 210044, China 2 School of Environmental Science and Engineering, Nanjing University of Information Science & Technology, Nanjing 210044, China 3 School of Atmospheric Physics, Nanjing University of Information Science & Technology, Nanjing 210044, China 4 School of Applied Meteorology, Nanjing University of Information Science & Technology, Nanjing 210044, China 5 School of Forestry and Environmental Studies, Yale University, New Haven, CT 06511, USA (Received June 21, 2017; in final form November 18, 2017) ABSTRACT Among several influential factors, the geographical position and depth of a lake determine its thermal structure. In temperate zones, shallow lakes show significant differences in thermal stratification compared to deep lakes. Here, the variation in thermal stratification in Lake Taihu, a shallow fresh water lake, is studied systematically. Lake Taihu is a warm polymictic lake whose thermal stratification varies in short cycles of one day to a few days. The thermal stratification in Lake Taihu has shallow depths in the upper region and a large amplitude in the temperature gradient, the maximum of which exceeds 5°C m–1. The water temperature in the entire layer changes in a relatively consistent manner. Therefore, compared to a deep lake at similar latitude, the thermal stratification in Lake Taihu exhibits small seasonal differences, but the wide variation in the short term becomes important.