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Biogeochemistry of marine dissolved organic matter /

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Biogeochemistry of Marine Dissolved Organic Matter, Third Edition is the most up-to-date revision of this fundamental reference on the biogeochemistry of marine dissolved organic matter. Since its original publication in June 2002, the science, questions, and priorities have advanced, and the editor...

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Bibliographic Details
Corporate Author: ScienceDirect (Online service)
Other Authors: Hansell, Dennis A. (Editor), Carlson, Craig A. (Editor)
Format: eBook
Language:English
Published: London : Academic Press, 2024.
Edition:Third edition
Subjects:
Seawater > Organic compound content.
Chemical oceanography.
Biogeochemistry.
Eau de mer > Teneur en composés organiques.
Océanographie chimique.
Biogéochimie.
Electronic books.
Online Access:Connect to the full text of this electronic book
Table of Contents:
  • Intro
  • Biogeochemistry of Marine Dissolved Organic Matter
  • Copyright
  • Dedication
  • Contents
  • Contributors
  • Preface
  • Chapter 1: Why dissolved organics matter: Take 3-The messiness of nature
  • 1.1. Introduction
  • 1.2. How different are DOC and POC sorption processes, and do these differences affect their biological lability and thus ...
  • 1.3. How important is the physical state of marine organic compounds to their availability to organisms-Who eats what?
  • 1.4. How important are small-scale physical-biological interactions to DOC concentrations and compositions?
  • 1.5. Quantification of DOC input/removal from sediments, submarine volcanoes, hydrothermal vents, and submarine groundwat ...
  • 1.6. Is photochemistry as important as microbial degradation in marine aerosols?
  • 1.7. Is DOC concentration increasing or decreasing with climate change?
  • 1.8. One more thought
  • Acknowledgments
  • References
  • Chapter 2: Chemical characterization and cycling of dissolved organic matter
  • 2.1. Introduction
  • 2.2. Isolation of dissolved organic matter from seawater
  • 2.2.1. Isolation of high molecular weight DOM by ultrafiltration
  • 2.2.2. Isolation of nonpolar, hydrophobic DOM by solid-phase extraction
  • 2.2.3. Reverse osmosis/electrically assisted dialysis
  • 2.3. Biopolymers in HMWDOM
  • 2.3.1. Microbial production of organic matter
  • 2.3.2. The molecular weight of HMWDOM
  • 2.3.3. Acylated polysaccharides in HMWDOM
  • 2.3.3.1. Monosaccharide composition of acylated polysaccharides
  • 2.3.3.2. N-Acetyl amino sugars in acylated polysaccharides
  • 2.3.3.3. Phosphorus in acylated polysaccharides
  • 2.3.3.4. Acylated polysaccharide branching into two- and three-dimensional networks
  • 2.3.3.5. Mass spectral analyses of acylated polysaccharides
  • 2.3.4. Amino acids and proteins in DOM.
  • 2.3.4.1. Concentration and distribution of amino acids and proteins in DOM
  • 2.3.4.2. d- and l-amino acids in DOM
  • 2.3.4.3. Proteomics of HMWDOM
  • 2.3.5. Nucleic acids in HMWDOM
  • 2.4. Humic substances in solid-phase extractable DOM (SPE-DOM)
  • 2.4.1. Nomenclature of SPE-DOM
  • 2.4.2. Characterization of SPE-DOM by high-field nuclear magnetic resonance spectroscopy
  • 2.4.3. Characterization of SPE-DOM by high-resolution mass spectrometry
  • 2.5. Links between DOM composition and cycling
  • 2.5.1. Definitions of DOM lability
  • 2.5.2. Composition and the cycling of labile DOM
  • 2.5.3. Composition and the cycling of semilabile DOM
  • 2.5.4. Composition and the cycling of recalcitrant DOM
  • 2.6. Future research
  • Acknowledgments
  • References
  • Chapter 3: A witches brew: Dissolved metabolites in seawater
  • 3.1. Introduction
  • 3.2. Analytical methods to detect metabolites and small molecules in seawater
  • 3.2.1. Sugars
  • 3.2.2. Amino acids
  • 3.2.3. Vitamins
  • 3.2.4. Small organic acids
  • 3.2.5. Compatible solutes or osmolytes
  • 3.2.6. Organic ligands
  • 3.2.7. Methods to capture broad sets of small, polar metabolites
  • 3.2.8. Ongoing challenges
  • 3.3. Biogeochemical significance of metabolites and small molecules in seawater
  • 3.3.1. Production of metabolites and small molecules by marine primary producers
  • 3.3.2. Overflow metabolism and waste by-products
  • 3.3.3. Heterotrophic activity and transfer of compounds across trophic levels
  • 3.3.4. Small molecules as signaling molecules: Quorum sensing
  • 3.3.5. Role of grazing, predation, and viral lysis in cycling of metabolites and small molecules
  • 3.3.6. Distribution of metabolites and small molecules in marine systems
  • 3.4. Summary
  • Acknowledgments
  • References
  • Chapter 4: Tracing DOM in the ocean with UV-visible spectroscopy
  • 4.1. Introduction.
  • 4.2. UV-visible spectroscopy of DOM
  • 4.2.1. Absorption properties of CDOM
  • 4.2.2. Fluorescence properties of FDOM
  • 4.2.3. Apparent quantum yield of fluorescence
  • 4.2.4. Origin of CDOM's optical properties
  • 4.3. Sources and sinks
  • 4.3.1. Source material
  • 4.3.2. Formation of a ubiquitous CDOM signature
  • 4.3.3. Autochthonous production
  • 4.3.4. Terrestrial source
  • 4.3.5. Sediments as a source
  • 4.3.6. Other sources
  • 4.3.7. Microbial removal
  • 4.3.8. Photochemical removal
  • 4.4. Ocean distributions
  • 4.5. Conclusions and future research needs
  • Acknowledgments
  • References
  • Chapter 5: DOM production, removal, and transformation processes in marine systems
  • 5.1. Introduction
  • 5.2. DOM production processes
  • 5.2.1. Extracellular phytoplankton production
  • 5.2.1.1. Extracellular release models
  • 5.2.1.1.1. Passive diffusion
  • 5.2.1.1.2. Active release models
  • 5.2.1.1.2.1. Carbon overflow
  • 5.2.1.1.2.2. Active exudation
  • 5.2.1.1.3. Model comparison
  • 5.2.1.2. Experimental and field observations of net DOC production
  • 5.2.1.2.1. Using radioisotopic tracers
  • 5.2.1.2.2. Microcosm, mesocosm, and field observations
  • 5.2.1.2.2.1. Case study of seasonally accumulated DOM and changes in its bioavailability
  • 5.2.2. Extracellular macroalgal production
  • 5.2.2.1. Macroalgal DOC release
  • 5.2.2.2. Composition
  • 5.2.2.3. Ecological significance
  • 5.2.2.4. Potential production of recalcitrant DOC
  • 5.2.3. Grazer-induced DOM production
  • 5.2.3.1. Mesozooplankton
  • 5.2.3.1.1. Herbivory
  • 5.2.3.1.2. Omnivory and carnivory
  • 5.2.3.1.2.1. Ecological significance
  • 5.2.3.1.2.2. Biogeochemical significance
  • 5.2.3.2. Microzooplankton
  • 5.2.3.2.1. Herbivory
  • 5.2.3.2.2. Bacterivory
  • 5.2.4. DOM production via cell lysis
  • 5.2.4.1. Allelopathy
  • 5.2.4.2. Bacteria-induced lysis.
  • 5.2.4.3. Viral lysis and the viral shunt
  • 5.2.4.3.1. Biogeochemical significance of vDOM
  • 5.2.5. Solubilization of particles
  • 5.2.5.1. Prokaryotic solubilization
  • 5.2.5.1.1. Biogeochemical implications
  • 5.2.5.2. Fungal shunt
  • 5.2.6. Prokaryote production of DOM
  • 5.2.6.1. Chemoautotrophy
  • 5.2.6.2. Chemoheterotrophic DOM production
  • 5.2.6.2.1. Energy dissipation and microenvironmental stability
  • 5.2.6.2.2. DOM released by bacterioplankton for mutualistic benefit
  • 5.2.6.2.3. DOM released by bacteria for antagonistic function
  • 5.2.6.2.4. Release of hydrolytic enzymes for extracellular digestion
  • 5.2.7. DOC production summary
  • 5.3. DOM removal processes
  • 5.3.1. Biotic consumption of DOM
  • 5.3.1.1. Prokaryotes
  • 5.3.1.1.1. Bacterioplankton
  • 5.3.1.1.1.1. Selfish, sharing, and scavenging bacterioplankton
  • 5.3.1.1.1.2. The flux of labile DOM through bacterioplankton
  • 5.3.1.1.1.3. Bacterial growth efficiency (BGE)
  • 5.3.1.1.1.3.1. Temperature
  • 5.3.1.1.1.3.2. pH
  • 5.3.1.1.1.3.3. Hydrostatic pressure
  • 5.3.1.1.1.3.4. Viral infection
  • 5.3.1.1.1.3.5. DOM composition
  • 5.3.1.1.1.3.6. Oxygen stress
  • 5.3.1.1.1.4. Bacterial carbon demand
  • 5.3.1.1.1.5. DOM removal by copiotroph vs oligotroph
  • 5.3.1.1.2. Mixotrophy and photoheterotrophy
  • 5.3.1.1.2.1. AAnP bacteria
  • 5.3.1.1.2.2. Proteorhodopsin and photoheterotrophy
  • 5.3.1.1.2.3. Prokaryotic mixotrophs
  • 5.3.1.1.3. Heterotrophic archaeoplankton
  • 5.3.1.2. Viral sweep
  • 5.3.1.3. Eukaryotes
  • 5.3.1.3.1. Protists
  • 5.3.1.3.2. Mycoplankton
  • 5.3.1.3.3. Metazoan
  • 5.3.2. Abiotic removal processes
  • 5.3.2.1. Photochemical transformation
  • 5.3.2.2. Sorption onto particles
  • 5.3.2.3. Transformation of DOM to microgels
  • 5.3.2.4. Reactive oxygen species and interactions with DOM
  • 5.3.2.5. Bubble scavenging of DOM
  • 5.3.2.6. Hydrothermal circulation.
  • 5.4. DOM transformation and accumulation
  • 5.4.1. Abiotic formation of biologically recalcitrant DOM
  • 5.4.1.1. Photochemical transformation
  • 5.4.1.2. Sulfurization
  • 5.4.2. Biotic formation of recalcitrant DOM
  • 5.4.2.1. Microbial carbon pump
  • 5.4.2.1.1. Direct source via the microbial carbon pump
  • 5.4.2.1.2. Microbial transformation
  • 5.4.2.1.3. Residual products from microbial utilization of labile DOM
  • 5.4.2.1.4. Microbial carbon pump production rate
  • 5.4.2.2. Microbial nitrogen pump
  • 5.4.2.3. Limitation of microbial growth
  • 5.4.2.4. Molecular inhibition of DOC respiration
  • 5.4.2.5. Biogeochemical implications of organic matter partitioning into recalcitrant DOM
  • 5.5. The priming effect
  • 5.6. Microbial community structure and DOM utilization
  • 5.6.1. Sargasso Sea case study
  • 5.6.2. Experimental examples
  • 5.7. Summary and challenges
  • Acknowledgments
  • References
  • Chapter 6: Sediment pore waters
  • 6.1. Preface
  • 6.2. Introduction
  • 6.2.1. General considerations
  • 6.2.2. DOM in sediment pore waters: General observations
  • 6.2.3. DOM cycling in permeable sediments and in coastal systems subject to submarine groundwater discharge
  • 6.3. Composition and dynamics of bulk pore water DOM
  • 6.3.1. Molecular weight distributions
  • 6.3.2. Optical properties
  • 6.3.3. Carbon isotopes (13C and 14C)
  • 6.3.4. Ultrahigh resolution mass spectrometry (UHR-MS)
  • 6.3.5. Nuclear magnetic resonance spectroscopy (NMR)
  • 6.3.6. DON and the C/N ratio of pore water DOM
  • 6.3.7. Dissolved organic sulfur (DOS)
  • 6.4. Composition and dynamics of DOM at the compound and compound-class levels
  • 6.4.1. Short-chain organic acids (SCOAs)
  • 6.4.2. Carbohydrates
  • 6.4.3. Amino acids
  • 6.5. Modeling DOM cycling in marine sediments
  • 6.5.1. Production of refractory DOC: General observations
  • 6.5.2. The multi-G+DOC (MGD) model.