Trichodesmium Spp., the Gldglu Ratio Closely Approximated the Glnlakg Ratio Over the Die1 Cycle
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Nitrogen Fixation by Trichodesmium Spp.: an Important Source of New Nitrogen to the Tropical and Subtropical North Atlantic Ocean Douglas G
GLOBAL BIOGEOCHEMICAL CYCLES, VOL. 19, GB2024, doi:10.1029/2004GB002331, 2005 Nitrogen fixation by Trichodesmium spp.: An important source of new nitrogen to the tropical and subtropical North Atlantic Ocean Douglas G. Capone,1 James A. Burns,1,2 Joseph P. Montoya,3 Ajit Subramaniam,4 Claire Mahaffey,1,5 Troy Gunderson,1 Anthony F. Michaels,1 and Edward J. Carpenter6 Received 6 July 2004; revised 19 January 2005; accepted 9 March 2005; published 8 June 2005. [1] The broad distribution and often high densities of the cyanobacterium Trichodesmium spp. in oligotrophic waters imply a substantial role for this one taxon in the oceanic N cycle of the marine tropics and subtropics. New results from 154 stations on six research cruises in the North Atlantic Ocean show depth-integrated N2 fixation by Trichodesmium spp. at many stations that equalled or exceeded the estimated vertical flux À of NO3 into the euphotic zone by diapycnal mixing. Areal rates are consistent with those derived from several indirect geochemical analyses. Direct measurements of N2 fixation rates by Trichodesmium are also congruent with upper water column N budgets derived from parallel determinations of stable isotope distributions, clearly showing that N2 fixation by Trichodesmium is a major source of new nitrogen in the tropical North Atlantic. We project a conservative estimate of the annual input of new N into the tropical 12 North Atlantic of at least 1.6 Â 10 mol N by Trichodesmium N2 fixation alone. This input can account for a substantial fraction of the N2 fixation in the North Atlantic inferred by several of the geochemical approaches. -
Analysis of Functional Domains on Glutamate Synthase
Turk J Biol 24 (2000) 197–213 © TÜBİTAK Review Article Analysis of Functional Domains on Glutamate Synthase Barbaros NALBANTOĞLU Department of Biochemistry, Faculty of Sciences and Arts, Atatürk University, Erzurum-TURKEY Received: 02.06.1998 Abstract: Glutamate synthases (GOGAT) were analyzed to identify the functional binding domains of the substrate (glutamine) and cofactors (FMN, NAD(P)H, FAD, [3Fe-4S]1+,0 and [4Fe-4S]2+,1+ clusters and ferredoxin) on this enzyme. The published amino acid sequences of six different NAD(P)H- dependent GOGATs (NAD(P)H-GOGAT) and ten different ferredoxin-dependent GOGATs (Fd-GOGAT) were used for this analysis. The amino acid sequences of these sixteen GOGATs were compared with the amino acid sequences of aminotransferases for glutamine, flavoproteins for FMN, flavoproteins and pyridine-nucleotide-dependent enzymes for FAD and NAD(P)H, iron-sulfur proteins for [3Fe- 4S]1+,0 and [4Fe-4S]2+,1+ clusters and ferredoxin-dependent enzymes for ferredoxin. It was determined that Fd-GOGAT has one domain each for glutamine, FMN and [3Fe-4S]1+,0 cluster and two domains each for FAD and ferredoxin; the NADPH-GOGAT α subunit has the same domains as Fd- GOGAT except for the ferredoxin domains, and β subunit has one domain each for NADPH and FAD and two domains for two [4Fe-4S]2+,1+clusters; NADH-GOGAT has the same domains as NADPH- GOGAT. Key Words: Glutamate synthase, glutamine, FMN, FAD, NAD(P)H, iron-sulfur cluster, ferredoxin, binding domain. Glutamat Sentaz Üzerindeki Fonksiyonel Bölgelerin Analizi Özet: Glutamat sentazlar (GOGAT), bu enzim üzerindeki substrat (glutamin) ve kofaktörlerin (FMN, NAD(P)H, FAD, [3Fe-4S]1+,0 ve [4Fe-4S]2+,1+ kümeleri ve ferredoksin) fonksiyonel bağlanma bölgelerini belirlemek için analiz edildi. -
Detection and Study of Blooms of Trichodesmium Erythraeum and Noctiluca Miliaris in NE Arabian Sea S
Detection and study of blooms of Trichodesmium erythraeum and Noctiluca miliaris in NE Arabian Sea S. G. Prabhu Matondkar 1*, R.M. Dwivedi 2, J. I. Goes 3, H.do.R. Gomes 3, S.G. Parab 1and S.M.Pednekar 1 1National Institute of Oceanography, Dona-Paula 403 004, Goa, INDIA 2Space Application Centre, Ahmedabad, Gujarat, INDIA 3Bigelow Laboratory for Ocean Sciences, West Boothbay Harbor, Maine, 04575, USA Abstract The Arabian Sea is subject to semi-annual wind reversals associated with the monsoon cycle that result in two periods of elevated phytoplankton productivity, one during the northeast (NE) monsoon (November-February) and the other during the southwest (SW) monsoon (June- September). Although the seasonality of phytoplankton biomass in these offshore waters is well known, the abundance and composition of phytoplankton associated with this distinct seasonal cycle is poorly understood. Monthly samples were collected from the NE Arabian Sea (offshore) from November to May. Phytoplankton were studied microscopically up to the species level. Phytoplankton counts are supported by Chl a estimations and chemotaxonomic studies using HPLC. Surface phytoplankton cell counts varied from 0.1912 (Mar) to 15.83 cell x104L-1 (Nov). In Nov Trichodesmium thiebautii was the dominant species. It was replaced by diatom and dinoflagellates in the following month. Increased cell counts during Jan were predominantly due to dinoflagellates Gymnodinium breve , Gonyaulax schilleri and Amphidinium carteare . Large blooms of Noctiluca miliaris were observed in Feb a direct consequence of the large populations of G. schilleri upon which N. miliaris is known to graze. In Mar and April, N. miliaris was replaced by blooms of Trichodesmium erythraeum . -
Periodic and Coordinated Gene Expression Between a Diazotroph and Its Diatom Host
The ISME Journal (2019) 13:118–131 https://doi.org/10.1038/s41396-018-0262-2 ARTICLE Periodic and coordinated gene expression between a diazotroph and its diatom host 1 1,2 1 3 4 Matthew J. Harke ● Kyle R. Frischkorn ● Sheean T. Haley ● Frank O. Aylward ● Jonathan P. Zehr ● Sonya T. Dyhrman1,2 Received: 11 April 2018 / Revised: 28 June 2018 / Accepted: 28 July 2018 / Published online: 16 August 2018 © International Society for Microbial Ecology 2018 Abstract In the surface ocean, light fuels photosynthetic carbon fixation of phytoplankton, playing a critical role in ecosystem processes including carbon export to the deep sea. In oligotrophic oceans, diatom–diazotroph associations (DDAs) play a keystone role in ecosystem function because diazotrophs can provide otherwise scarce biologically available nitrogen to the diatom host, fueling growth and subsequent carbon sequestration. Despite their importance, relatively little is known about the nature of these associations in situ. Here we used metatranscriptomic sequencing of surface samples from the North Pacific Subtropical Gyre (NPSG) to reconstruct patterns of gene expression for the diazotrophic symbiont Richelia and we – 1234567890();,: 1234567890();,: examined how these patterns were integrated with those of the diatom host over day night transitions. Richelia exhibited significant diel signals for genes related to photosynthesis, N2 fixation, and resource acquisition, among other processes. N2 fixation genes were significantly co-expressed with host nitrogen uptake and metabolism, as well as potential genes involved in carbon transport, which may underpin the exchange of nitrogen and carbon within this association. Patterns of expression suggested cell division was integrated between the host and symbiont across the diel cycle. -
Bloom of Trichodesmium Erythraeum (Ehr.) and Its Impact on Water Quality and Plankton Community Structure in the Coastal Waters of Southeast Coast of India
Indian Journal of Marine Science Vol. 39(3), September 2010, pp. 323-333 Bloom of Trichodesmium erythraeum (Ehr.) and its impact on water quality and plankton community structure in the coastal waters of southeast coast of India A K Mohanty 1, K K Satpathy 1, G Sahu 1, K J Hussain 1, M V R Prasad 1 & S K Sarkar 2 1 Indira Gandhi Centre for Atomic Research, Kalpakkam, Tamil Nadu- 603 102 India 2 Department of Marine Science, University of Calcutta, Kolkata- 700 019 India [Email : [email protected]] Received 14 September 2009; revised 11 January 2010 An intense bloom of Trichodesmium erythraeum was observed in the coastal waters (about 600 m away from the shore) of southeast coast of India during the post-northeast monsoon period. The bloom appeared during a relatively high temperature condition with coastal water salinity > 31 psu. A significant reduction in nitrate concentration was noticed during the bloom period, whereas, relatively high concentration of phosphate and total phosphorous was observed. An abrupt increase in ammonia concentration to the tune of 284.36 µmol l -1 was observed which coincided with the highest Trichodesmium density (2.88 × 10 7 cells l -1). Contribution of Trichodesmium to the total phytoplankton density ranged from 7.79% to 97.01%. A distinct variation in phytoplankton species number and phytoplankton diversity indices was noticed. The lowest diversity indices coincided with the observed highest Trichodesmium density. Concentrations of chlorophyll-a (maximum 42.15 mg m -3) and phaeophytin (maximum 46.23 mg m -3) increased abnormally during the bloom. -
Genomic Deletions Disrupt Nitrogen Metabolism Pathways of a Cyanobacterial Diatom Symbiont
ARTICLE Received 16 Oct 2012 | Accepted 15 Mar 2013 | Published 23 Apr 2013 DOI: 10.1038/ncomms2748 OPEN Genomic deletions disrupt nitrogen metabolism pathways of a cyanobacterial diatom symbiont Jason A. Hilton1, Rachel A. Foster1,w, H. James Tripp1,w, Brandon J. Carter1, Jonathan P. Zehr1 & Tracy A. Villareal2 Diatoms with symbiotic N2-fixing cyanobacteria are often abundant in the oligotrophic open ocean gyres. The most abundant cyanobacterial symbionts form heterocysts (specialized cells for N2 fixation) and provide nitrogen (N) to their hosts, but their morphology, cellular locations and abundances differ depending on the host. Here we show that the location of the symbiont and its dependency on the host are linked to the evolution of the symbiont genome. The genome of Richelia (found inside the siliceous frustule of Hemiaulus) is reduced and lacks ammonium transporters, nitrate/nitrite reductases and glutamine:2-oxoglutarate aminotransferase. In contrast, the genome of the closely related Calothrix (found outside the frustule of Chaetoceros) is more similar to those of free-living heterocyst-forming cyanobacteria. The genome of Richelia is an example of metabolic streamlining that has implications for the evolution of N2-fixing symbiosis and potentially for manipulating plant–cyanobacterial interactions. 1 Department of Ocean Sciences, University of California, 1156 High Street, Santa Cruz, California 95064, USA. 2 Marine Science Institute, Department of Marine Science, The University of Texas at Austin, 750 Channel View Drive, Port Aransas, Texas 78373, USA. w Present addresses: Department of Biogeochemistry, Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, 28359 Bremen, Germany (R.A.F.); Department of Energy, Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, California 94598, USA (H.J.T.). -
Light-Independent Nitrogen Assimilation in Plant Leaves: Nitrate Incorporation Into Glutamine, Glutamate, Aspartate, and Asparagine Traced by 15N
plants Review Light-Independent Nitrogen Assimilation in Plant Leaves: Nitrate Incorporation into Glutamine, Glutamate, Aspartate, and Asparagine Traced by 15N Tadakatsu Yoneyama 1,* and Akira Suzuki 2,* 1 Department of Applied Biological Chemistry, Graduate School of Agricultural and Life Sciences, University of Tokyo, Yayoi 1-1-1, Bunkyo-ku, Tokyo 113-8657, Japan 2 Institut Jean-Pierre Bourgin, Institut national de recherche pour l’agriculture, l’alimentation et l’environnement (INRAE), UMR1318, RD10, F-78026 Versailles, France * Correspondence: [email protected] (T.Y.); [email protected] (A.S.) Received: 3 September 2020; Accepted: 29 September 2020; Published: 2 October 2020 Abstract: Although the nitrate assimilation into amino acids in photosynthetic leaf tissues is active under the light, the studies during 1950s and 1970s in the dark nitrate assimilation provided fragmental and variable activities, and the mechanism of reductant supply to nitrate assimilation in darkness remained unclear. 15N tracing experiments unraveled the assimilatory mechanism of nitrogen from nitrate into amino acids in the light and in darkness by the reactions of nitrate and nitrite reductases, glutamine synthetase, glutamate synthase, aspartate aminotransferase, and asparagine synthetase. Nitrogen assimilation in illuminated leaves and non-photosynthetic roots occurs either in the redundant way or in the specific manner regarding the isoforms of nitrogen assimilatory enzymes in their cellular compartments. The electron supplying systems necessary to the enzymatic reactions share in part a similar electron donor system at the expense of carbohydrates in both leaves and roots, but also distinct reducing systems regarding the reactions of Fd-nitrite reductase and Fd-glutamate synthase in the photosynthetic and non-photosynthetic organs. -
A Model for the Marine Cyanobacteria, Trichodesmium Robson
20th International Congress on Modelling and Simulation, Adelaide, Australia, 1–6 December 2013 www.mssanz.org.au/modsim2013 A physiological model for the marine cyanobacteria, Trichodesmium Barbara J. Robson1, Mark Baird2 and Karen Wild-Allen2 1CSIRO Land and Water, Black Mountain 2CSIRO Marine and Atmospheric Research, Hobart Email: [email protected] Abstract: Nitrogen fixation by the marine cyanobacterium, Trichodesmium, is believed to form a substantial component of the nitrogen budget of the Great Barrier Reef Lagoon. Here, we present a new, physiologically-based model to predict the distribution and growth of Trichodesmium. The model has been incorporated into a large-scale, process-based, three-dimensional hydrodynamic, sediment dynamic and biogeochemical model of the Great Barrier Reef Lagoon through eReefs, a major collaborative project that is developing near-real-time and forecasting models to inform management of this important environmental asset. The model simulates the growth and respiration of Trichodesmium colonies, along with uptake of nutrients, fixation of atmospheric nitrogen, changes in cellular buoyancy, grazing by zooplankton and death associated with lysis by cyanophages. To facilitate improved simulation of nutrient dynamics as well as changes in carbohydrate ballasting (which affects buoyancy), the model allows variable intracellular C:N:P:Chlorophyll a ratios. Chlorophyll a accumulation and Trichodesmium growth depend on the intracellular availability of nutrients and fixed carbon. Carbon accumulation is a function of the spectrally resolved light environment, so that changes in light quality as well as light intensity may affect growth. As Trichodesmium colonies accumulate carbon, their buoyancy decreases, allowing the vertical movement of Trichodesmium through the water column to be simulated. -
Lake Superior Phototrophic Picoplankton: Nitrate Assimilation
LAKE SUPERIOR PHOTOTROPHIC PICOPLANKTON: NITRATE ASSIMILATION MEASURED WITH A CYANOBACTERIAL NITRATE-RESPONSIVE BIOREPORTER AND GENETIC DIVERSITY OF THE NATURAL COMMUNITY Natalia Valeryevna Ivanikova A Dissertation Submitted to the Graduate College of Bowling Green State University in partial fulfillment of the requirements for the degree of DOCTOR OF PHILOSOPHY May 2006 Committee: George S. Bullerjahn, Advisor Robert M. McKay Scott O. Rogers Paul F. Morris Robert K. Vincent Graduate College representative ii ABSTRACT George S. Bullerjahn, Advisor Cyanobacteria of the picoplankton size range (picocyanobacteria) Synechococcus and Prochlorococcus contribute significantly to total phytoplankton biomass and primary production in marine and freshwater oligotrophic environments. Despite their importance, little is known about the biodiversity and physiology of freshwater picocyanobacteria. Lake Superior is an ultra- oligotrophic system with light and temperature conditions unfavorable for photosynthesis. Synechococcus-like picocyanobacteria are an important component of phytoplankton in Lake Superior. The concentration of nitrate, the major form of combined nitrogen in the lake, has been increasing continuously in these waters over the last 100 years, while other nutrients remained largely unchanged. Decreased biological demand for nitrate caused by low availabilities of phosphorus and iron, as well as low light and temperature was hypothesized to be one of the reasons for the nitrate build-up. One way to get insight into the microbiological processes that contribute to the accumulation of nitrate in this ecosystem is to employ a cyanobacterial bioreporter capable of assessing the nitrate assimilation capacity of phytoplankton. In this study, a nitrate-responsive biorepoter AND100 was constructed by fusing the promoter of the Synechocystis PCC 6803 nitrate responsive gene nirA, encoding nitrite reductase to the Vibrio fischeri luxAB genes, which encode the bacterial luciferase, and genetically transforming the resulting construct into Synechocystis. -
The Pleiotropic Effects of the Glutamate Dehydrogenase (GDH) Pathway In
Mara et al. Microb Cell Fact (2018) 17:170 https://doi.org/10.1186/s12934-018-1018-4 Microbial Cell Factories REVIEW Open Access The pleiotropic efects of the glutamate dehydrogenase (GDH) pathway in Saccharomyces cerevisiae P. Mara1,4* , G. S. Fragiadakis3, F. Gkountromichos2,5 and D. Alexandraki2,3 Abstract Ammonium assimilation is linked to fundamental cellular processes that include the synthesis of non-essential amino acids like glutamate and glutamine. In Saccharomyces cerevisiae glutamate can be synthesized from α-ketoglutarate and ammonium through the action of NADP-dependent glutamate dehydrogenases Gdh1 and Gdh3. Gdh1 and Gdh3 are evolutionarily adapted isoforms and cover the anabolic role of the GDH-pathway. Here, we review the role and function of the GDH pathway in glutamate metabolism and we discuss the additional contributions of the pathway in chromatin regulation, nitrogen catabolite repression, ROS-mediated apoptosis, iron defciency and sphingolipid-dependent actin cytoskeleton modulation in S.cerevisiae. The pleiotropic efects of GDH pathway in yeast biology highlight the importance of glutamate homeostasis in vital cellular processes and reveal new features for conserved enzymes that were primarily characterized for their metabolic capacity. These newly described features constitute insights that can be utilized for challenges regarding genetic engineering of glutamate homeostasis and maintenance of redox balances, biosynthesis of important metabolites and production of organic substrates. We also conclude that the discussed pleiotropic features intersect with basic metabolism and set a new background for further glutamate-dependent applied research of biotechnological interest. Keywords: Glutamate dehydrogenase, GDH1, GDH2, GDH3, Ammonium assimilation, GABA shunt, ROS-mediated apoptosis, Chromatin regulation, Nitrogen catabolite repression, S. -
Great Barrier Reef Lagoon: Status Report 1, 1993-1995
RESEARCH PUBLICATION No. 55 long-term Chlorophyll Monitoring in the Great Barrier Reef lagoon: Status Report 1, 1993-1995 ADL Steven, F Pantus, D Brooks Great Barrier Reef Marine Park Authority L Trott Australian Institute of Marine Science A REPORT TO THE GREAT BAR-IUER REEF MARINE PARK AUTHORITY © Great Barrier Reef Marine Park Authority 1998 lSSN 1037-1508 ISBN 0 642 23056 0 Published October 1998 by the Great Barrier Reef Marine ParkAuthority The opinions expressed in this docwnent are not necesarily those of the Great Barrier Reef Marine Park Authority. National Library of Australia CataIoguing-in-Publication data: Long-term chlorophyll monitoring in the Great Barrier Reef Lagoon: status report 1,199:>-1995. Bibliography. ISBN 0 642 23056 O. L Chlorophyll - Queensland. Great Barrier Reef - Analysis. 2. Water - Sampling - Queensland - Great Barrier Reef. 3. Environmental monitoring - Queensland - Great Barrier Reef. I. Steven, A. D. L. (Andrew David Leslie), 1962-. II. Great Barrier Reef Marine Park Authority (Australia). (Series: Research publication (Great Barrier Reef Marine Park Authority (Australia» ; no. 55). 363.73940943 GREAT BARRIER REEF MARINE PARI< Atri'HORITY PO 80x 1379 Townsville QId 4810 Telephone (07) 4750 0700 CONTENTS SUMMARY 1 1. INTRODUCTION " , ", 3 1.1 PrograIll Overview 3 1.2 Report Scope 3 PART ONE: DESIGN CRITERIA AND SAMPLING PROTOCOLS FOR THE GREAT BARRIER REEF NUTRIENT STATUS MONITORING NETWORK 5 2. NETWORK DEFlNITION 7 2.1 Rationale: Is the Great Barrier Reef at Risk? __ 7 2.1.1 ResponSibilities. agreements -
Compartmentalized Cyanophycin Metabolism in the Diazotrophic Filaments of a Heterocyst- Forming Cyanobacterium
Compartmentalized cyanophycin metabolism in the diazotrophic filaments of a heterocyst- forming cyanobacterium Mireia Burnat, Antonia Herrero, and Enrique Flores1 Instituto de Bioquímica Vegetal y Fotosíntesis, Consejo Superior de Investigaciones Científicas and Universidad de Sevilla, E-41092 Seville, Spain Edited by Robert Haselkorn, University of Chicago, Chicago, IL, and approved January 24, 2014 (received for review October 2, 2013) Heterocyst-forming cyanobacteria are multicellular organisms in cyanobacterial filament (4, 6). Indeed, when incubated under which growth requires the activity of two metabolically interde- proper conditions, isolated heterocysts can produce glutamine pendent cell types, the vegetative cells that perform oxygenic that is released to the surrounding medium (6). In addition to photosynthesis and the dinitrogen-fixing heterocysts. Vegetative glutamate, two compounds that can be transferred from vege- cells provide the heterocysts with reduced carbon, and heterocysts tative cells to heterocysts are alanine and sucrose (8). Alanine provide the vegetative cells with fixed nitrogen. Heterocysts con- can be an immediate source of reducing power in the heterocyst, spicuously accumulate polar granules made of cyanophycin [multi- where it is metabolized by catabolic alanine dehydrogenase, the L-arginyl-poly (L-aspartic acid)], which is synthesized by cyano- product of ald (9). Sucrose, a universal vehicle of reduced carbon phycin synthetase and degraded by the concerted action of in plants, appears to have a similar role within the diazotrophic cyanophycinase (that releases β-aspartyl-arginine) and isoaspartyl cyanobacterial filament, because diazotrophic growth requires dipeptidase (that produces aspartate and arginine). Cyanophycin that sucrose is produced in vegetative cells and hydrolyzed by a synthetase and cyanophycinase are present at high levels in the specific invertase, InvB, in the heterocysts (10–13).