Institute of Food and Agricultural Sciences (IFAS) Biogeochemistry of Wetlands SiScience an dAd App litilications NITROGEN
Wetland Biogeochemistry Laboratory Soil and Water Science Department University of Florida
Instructor : Patrick Inglett [email protected]
6/22/20086/22/2008 P.W.WBL Inglett1 1
Nitrogen
Introduction N Forms, Distribution, Importance Basic processes of N Cycles Examples of current research Examples of applications Key points learned
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1 Nitrogen Learning Objectives
Identify the forms of N in wetlands Understand the importance of N in wetlands/global processes Define the major N processes/transformations Understand the importance of microbial activity in N transformations Understand the potential regulators of N processes See the application of N cycle principles to understanding natural and man-made ecosystems
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Nitrogen Cycling
Plant biomass N
N2 NH3 N2 N2O (g) Litterfall Nitrogen Fixation Volatilization
Mineralization. Water - Nitrification + + NO3 NH4 Organic N NH4 Column
AEROBIC - Plant Peat NO3 + + [NH4 ]s uptake accretion [NH4 ]s Denitrification ANAEROBIC Microbial + Organic N Biomass N Adsorbed NH4
N2, N2O (g)
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2 Forms of Nitrogen
Organic Nitrogen Inorganic Nitrogen + • Proteins • Ammonium (NH4 ) - • Amino Sugars • Nitrate N (NO3 ) - • Nucleic Acids • Nitrite N (NO2 )
• Urea • Nitrous ox ide (N2O)
• Dinitrogen (N2)
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N Transformations
Solid Gaseous Phase: Phase: Particulate N N2 + Bound: NH4 N2O - - NO3 NO2
Aqueous Phase: + NH4 DON - DIN NO3 - Particulate N NO2
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3 Reservoirs of Nitrogen
Lithosphere 163,600 x 1018 g Atmosphere 3,860 x 1018 g Hydrosphere 23 x 1018 g Biosphere 0.28 x 1018 g
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Forms of Nitrogen Total Soil N
Organic Inorganic
+ Protein NH4 + Amino sugars Clay-fixed NH4 Heterocyclic N
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4 Nitrogen Transformations
1. Ammonification/Mineralization 2. Immobilization 3. Nitrification 4. Denitrification 5. Dissimilatory nitrate reduction to ammonia (DNRA) 6. Nitrogen fixation 7. Ammonia volatilization
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Transformation of N Species Organic N 2 1
+ NH4 5 8e- 7 3 NO - 3 3 3 4e- - NH2OH 4 2e - NH3 - 2e NO2 2 e- 4 2e- N2O 6 3e- 4 N2 1e-
0 +1 +2+3 +4 -3 -2 -1 +5 Oxidation Number
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Plant/Algae
+ - Org-N NH4 NO3
N-FixersMicrobialNit rBiomassifi ers DitifiDen it rifiers
N2 N2/N2O
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Productivity
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6 Greenhouse Gas Emissions
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Nitrogen Budget
Biological N2 fixation Dry and wet deposition Non-point sources Wastewaters
Plant biomass Microbial biomass Soil organic N Porewater (DIN, DON) Exchangeable N
Clay fixed NH4-N
Volatilization Outflow Gaseous losses Plant harvest 6/22/2008 P.W. Inglett 14
7 Ammonium Ion Wet Deposition 1985-2003 1985
2003
http://nadp.sws.uiuc.edu/isopleths/ 6/22/2008 P.W. Inglett 15
Nitrate Ion Wet Deposition 1985-2003 1985
2003
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8 Inorganic N Wet Deposition 1985 1985-2003
2003
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Biological Nitrogen Fixation
Plant biomass N
N2 NH3 N2 N2O (g) Litterfall Nitrogen Fixation Volatilization
Mineralization. Water - Nitrification + + NO3 NH4 Organic N NH4 Column
AEROBIC - Plant Peat NO3 + + [NH4 ]s uptake accretion [NH4 ]s Denitrification ANAEROBIC Microbial + Organic N Biomass N Adsorbed NH4
N2, N2O (g)
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9 Nitrogen Fixation
12 -1 Type of fixation N2 fixed (10 g yr ) Non-biological Industrial about 50 Combustion about 20 Lightning about 10 Total about 80 Biological Agricultural land about 90 FtdForest and non-agriltlldicultural land abt50bout 50 Sea about 35 Total about 175
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Biological N2 Fixation
+ - N N + 8H + 8e + 16ATP → 2NH3 + H2 + 16ADP + 16Pi
Nitrogenase
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10 Biological N2 Fixation
Prokaryotes
Aerobic Anaerobic Associated w/ Plants Azotobacter Clostridium Rhizobium Beijerinckia Desulfovibrio Frankia Klebsiella Cyanobacteria Azospirillum Cyanobacteria
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Biological N2 Fixation
Heterocysts (cyanobacteria) Leghaemoglobin (rhizobium) Exopolysaccharides Temporal isolation
http://www.bact.wisc.edu/Microtextbook/ images/book_4/chapter_2/2-53.jpg
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11 Temporal Isolation y
Heterocystous Nitrogenase activit Non-heterocystous
12:00 24:00 12:00 Time (h)
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Biological N2 Fixation Regulators?
Light Concentration of Oxygen Growth limitation Macro nutrients (C, P) Co-factors (Fe, Mo)
Inc. Growth Inc. N
Demand Species Inc. N2 shift Fixation
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12 Nitrogen Mineralization
Plant biomass N
N2 NH3 N2 N2O (g) Litterfall Nitrogen Fixation Volatilization
Mineralization. Water - Nitrification + + NO3 NH4 Organic N NH4 Column
AEROBIC - Plant Peat NO3 + + [NH4 ]s uptake accretion [NH4 ]s Denitrification ANAEROBIC Microbial + Organic N Biomass N Adsorbed NH4
N2, N2O (g)
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Organic Nitrogen
Proteins Amino acids (30-50% of total organic N) Nucleic Acids 2-5 % of total organic N Amino Sugars 3-13% of total organic N Urea
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13 Protein Decomposition
Proteins Peptides AiAmino ac ids
Arg Pro ProteasesPro Peptidases Arg Ala Ala Asp
Phe Phe Asp Lys Pro Lys
Pro
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H R1 O H R2 O H R3 O N -C -C -OH N -C -C -OH N -C -C -OH H H H H H H
-2H2O
H R1 O R2 O R3 O N -C -C - N -C -C - N -C -C - OH H H H HHH
Peptide Bonds
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14 H R1 O H R2 O H R3 O N -C -C -OH N -C -C -OH N -C -C -OH H H H H H H
+ 2H2O
H R1 O R2 O R3 O N -C -C - N -C -C - N -C -C - OH H H H H H H
Peptide Bonds
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Detrital Matter Enzyme Leaching Complex Polymers Hydrolysis Monomers Cellulose, Hemicellulose, Sugars, Amino Acids Proteins, Lipids, Waxes, Lignin Fatty Acids
Uptake
Bacterial Cell
Electron Acceptors: Amino acids - 4+ O2, NO3 , Mn , 3+ 2- Fe , SO4 , CO2
Products: + NH4 CO2, H2O, Energy + 2+ NH4 , Mn , ATP 2+ 2- Fe ,S ,CH4
+ NH4 6/22/2008 P.W. Inglett 30
15 Urea Decomposition
NH2 Urease C = O + H2O CO2 + 2NH3
NH2
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Urea Decomposition
Urease activity (14C Tracer)
[Thorén (2007)] 6/22/2008 P.W. Inglett 32
16 Ammonification [Mineralization] Organic N Ammonium N [Brea kdown of O rgani c M att er]
Immobilization
Inorganic N Organic N
(NH4-N and NO3 -N) [Buildup of Organic Matter]
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Ammonification/NAmmonification/N--MineralizationMineralization
Organic N Ammonium R
- HOOCC NH 2 NH4 + H
NN--ImmobilizationImmobilization
Inorganic N Organic N R NH 4 - + HOOCC NH 2 - NO3 H
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17 Microbial Biomass C & N
[Everglades[Everglades--WCAWCA--2A]2A]
y = 10.7 x + 2.2 25 R2 = 0.78
20
15 ) -1 10
5 (g C kg robial biomass C
c 0
Mi 00.51.0 1.5 2.0
Microbial biomass N (g N kg-1)
White and Reddy, 2000
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Decomposition Microbial Biomass C/N ratio = 10 Effic iency o f car bon ass im ilati on Aerobic = 20-60% Anaerobic = 10% Plant Detritus [100 units] 40% carbon (dry weight basis) = 40 units C Amount of C assimilated during decomposition Aerobic = 16 units [40% efficiency] Anaerobic = 4 units [10% efficiency]
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18 Carbon/Nitrogen Ratio
Nitrogen Demand? Micro bial Biomass C/N ra tio = 10 Aerobic = 1.6 units Anaerobic = 0.4 units Critical Plant Detritus Nitrogen? Aerobic = 1.6 % Anaerobic = 0.4% Critical Carbon/Nitrogen Ratio? Aerobic = [40% C]/[1.6% N] = 25 Anaerobic = [40% C]/[0.4% N] = 100
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Carbon/Nitrogen Ratio
Mineralization [M] vs. Immobilization [I]
Aerobic I > M = C/N ratio > 25 M > I = C/N ratio < 25 Anaerobic I > M = C/N ra tio > 100 M > I = C/N ratio < 100
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19 N Mineralization/Immobilization [Aerobic]
ase C/N = 15 e
C/N = 35
organic N Rel C/N = 100 n I
Decomposition (days)
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N Mineralization/Immobilization [Aerobic] 40 Immobilization Ratio
n 30
20 Mineralization
rbon/Nitroge 10 a
C C/N ratio of soil humus/ microbial biomass 0 0 150 Decomposition Period [days]
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20 Regulators of Ammonification
Substrate quality C/N ratio of the substrate Secondary compounds N forms (soluble vs. structural compounds)
Microbial Activity Extracellular enzyme activity Supply of electron acceptors (Redox) Temperature pH
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Mineralizable Nitrogen [Everglades[Everglades--WCAWCA--2A]2A]
400 y = 0.317 x + 52.4 R2 = 0.76
) 300 -1 d -1 200
(mg N kg 100 ineralization Rate M
0 0 100 200 300 400
+ -1 Extractable NH4 (mg N kg )
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21 Fate of Ammonium
Plant biomass N
N2 NH3 N2 N2O (g) Litterfall Nitrogen Fixation Volatilization
Mineralization. Water - Nitrification + + NO3 NH4 Organic N NH4 Column
AEROBIC - Plant Peat NO3 + + [NH4 ]s uptake accretion [NH4 ]s Denitrification ANAEROBIC Microbial + Organic N Biomass N Adsorbed NH4
N2, N2O (g)
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Nitrogen Uptake by Rice (15N)
TtlNTotal N upt tkake
Added 15N uptake
Nitrogen uptake N-uptak e fr om Soil organic N
Growing season
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22 Ammonium AdsorptionAdsorption-- Aerobic
Ca2+ NH + 4 + 2+ - K Mg - 2+ - - Ca + - - NH4 2+ - Ca K+ - - - + - - K K+ - - Ca2+ NH + - 4 Mg2+ - - - NH + - - Mg2+ 4 - Ca2+ - - - K+ Mg2+ - - Ca2+ K+ K+ Dissolved [Pore water] Adsorbed [Solids]
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Ammonium AdsorptionAdsorption-- Anaerobic
Ca2+ Fe2+ Mn2+ K+ Mg2+ - - Fe2+ - - NH + - - 4 Ca2+ - 2+ K+ - Mn - - - - K+ 2+ 2+ Mn - - + Mn Mg2+ - NH4 - - - Fe2+ + - - Mg2+ NH4 - 2+ Ca Fe2+ - - - K+ Mg2+ -- Ca2+ K+ Dissolved Fe2+ [Pore water] Adsorbed [Solids]
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23 6/22/2008 P.W. Inglett 47
Ammonium Fixation Illite -Clay- Clay Mineral
Ca2+ K+ - - + Si-O layer Mg2+ 2+ NH+4 - + + - Mg - NH- 4 K- NH- 4 + Al-O-OH layer - Ca2+ - K - - --Si-O layer
+ Interlayer Space NH4 - + - NH4 - Mg2+ NH- + - K+ NH + + - 4 - - 4 NH4 - - + - - NH4 Fixed - - Ammonium NH + - Interlayer Space - 4 - + - Mg2+ NH- + K+ + NH + NH4 - 4 - NH4 - 4 - NH + - - - 4 -- 2+ Mg + NH + K 4 Mg2+ K+ Ca2+
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24 Adsorption/Desorption Equilibrium
+ NH4 NH + + 4 NH4
Soil NH + + + 4 NH4 NH4
+ + NH4 NH4 + NH4
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Adsorption/Desorption Equilibrium
Fixed Exchangeable Solution
+ NH4 NH + + 4 NH4 + NH4
NH + + 4 NH4
+ NH4 + + NH4 NH4
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25 S = K × C+ S0 + + + NH4 ads = K ×[NH4 ] + NH4 fixed
(()+) K, Partition Coefficient ) -1
E NH4-C0 (mg N kg monium Adsorbed m A S0
(-) Porewater ammonium (mg N l-1)
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Ammonium Adsorption -Salinity
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26 Increasing salinity
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Ammonia Flux
NH3(g) (Volatilization)
Photosynthesis
O2 + CH2OCO2 + H2O Respiration NH3(g) + 2- 2H + CO3 CO2 + H2O
+ + NH3(aq) + H NH4 Water
Soil + NH4 (adsorbed)
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27 Diel pH changes in the Water Column
10 System with high photosynthesis 9 pH System with low 8 photosynthesis
7
6 12:00 24:00 12:00 Time (h)
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Ammonia Volatilization (assuming high pH)
Floodwater depth Plant density SAV/Periphyton Density
Temperature Wind speed Soil CEC
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28 Ammonia Volatilization
+ + NH4 =NH= NH3 +H+ H Temperature High floodwater pH Cation exchange High soil pH capacity of soil High algal activity Wind speed Plant density Floodwater depth
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Nitrification
Plant biomass N
N2 NH3 N2 N2O (g) Litterfall Nitrogen Fixation Volatilization
Mineralization. Water - Nitrification + + NO3 NH4 Organic N NH4 Column
AEROBIC - Plant Peat NO3 + + [NH4 ]s uptake accretion [NH4 ]s Denitrification ANAEROBIC Microbial + Organic N Biomass N Adsorbed NH4
N2, N2O (g)
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29 Nitrification
+ - - NH4 → NO2 → NO3
- Obligate aerobes (O2 e acceptor) Common nitrifiers (autotrophs) Methanotrophs HtthHeterotrophs
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Sites of Nitrification
Aerobic Water column
Aerobic Soil/Floodwater Interface
O2 ic Soil b Aero
O2 Aerobic Root Zone Anaerobic Soil
O2
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30 Nitrification
+ - NH4 → NO2 Nitrosomonas (‘Nitroso’ spp.) - - NO2 → NO3 Nitrobacter (‘Nitro’ spp.) - Obligate aerobes (O2 e acceptor) + Energy/e- source: NH4
Carbon source: CO2
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Nitrification
Step I: Nitrosomonas ΔGo = -65 kcal/mole + - - + NH4 + 2H2O → NO2 + 6e + 8H
- + 1½ O2 + 6e + 6H → 3H2O + 1 - + NH4 + 1 /2O2 → NO2 + 3H2O + H
Step II: Nitrobacter ΔGo = -18 kcal/mole
- - - + 2NO2 + 2H2O → 2NO3 + 4e + 4H
- + O2 + 4e + 4H → 2H2O - - 2NO2 + O2 → 2NO3
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31 Heterotrophic Nitrification
BtiBacteria an dfid fungi Poorly studied Only dominant under high C/low N conditions
Many facultative (reduce oxidized N to N2) “Nitrifier denitrification”
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Nitrification
Ammonia
NH3 toxic to nitrifying bacteria pH 7 - 8.5 optimum Sulfide S2- toxic to nitrifying bacteria
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32 Nitrification
Ideal Conditions Inhibited
+ + NH4 NH4 - - NO3 NO2
- NO2 - NO3 C
Time Time
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Nitrification
Hydroxylamine Oxygenases oxidored uct ase - - + 2 e 2 e [NOH] NH4 NH2OH
- Oxygen 2 e Chemical stress 2 e- - - N2O NO2 NO3 Nitrite Nitrite reductase reductase
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33 Inhibited Nitrification
‘Leaky Pipe’
Model: NO NO
+ - NH4 NO3 N2
Nitrifiers Denitrifiers N2O N2O
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Nitrification
Regulators: Ammonia concentration Oxygen availability
Alkalinity and CO2 Temperature Nitrifying population pH CEC
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34 Organic N
Volatilization (to atmosphere) Ammonification
- - + + NH - [NH3 ](g) 4 NH4 - Soluble Adsorbed - - Soil Particle - -
- Uptake [NO3 ] ant/Microbial ant/Microbial Pl Live Organic N
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Anaerobic Ammonium Oxidation: Anammox
6/22/2008 P.W. Inglett 70 Kuypers et al. 2003. Nature 422:608–611.
35 Anaerobic Ammonium Oxidation (ANAMMOX)
+ - + 5NH4 + 3NO3 → 4N2 + 9H2O + 2H
+ - NH4 +NO+ NO2 → N2 +2H+ 2H2O
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ANAMMOX
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36 Denitrification
Plant biomass N
N2 NH3 N2 N2O (g) Litterfall Nitrogen Fixation Volatilization
Mineralization. Water - Nitrification + + NO3 NH4 Organic N NH4 Column
AEROBIC - Plant Peat NO3 + + [NH4 ]s uptake accretion [NH4 ]s Denitrification ANAEROBIC Microbial + Organic N Biomass N Adsorbed NH4
N2, N2O (g)
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Pasteur, L. 1859. Sur la fermentation nitreuse. Bull. Sot. Chim. Fr. 1:21.
“Nitrates, which the juice of beetroot naturally includes, decompose, and great quantities of nitrous vapor form at the surface of the vats”
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37 Dehérain and Maquenne, 1882. Sur la reduction des nitrates dans la terre arable. C. R. Acad. Sci. 95: 691-693
“From experience”: Nitrate is reduced under certain conditions in arable land releasing nitrogen gas Nitrate reduction occurs in arable soil which contains a higggh organic matter We have observed that this reduction occurs when the soil atmosphere is completely stripped of oxygen
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Nitrate Reduction
Denitrification 5 e- NO3 → N2 Dissimilatory nitrate reduction to ammonia (DNRA) - - 8 e + NO3 → NH4 Assimilatory nitrate reduction to ammonia - + NO3 → NH4 → Proteins
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38 Nitrate Reduction
Assimilatory Dissimilatory + NH4 uptake for Functions as an electron growth - biosynthesis acceptor + NH4 concentration- Oxygen concentration main regulator main regulator Growth linked Linked to catabolic Occurs mainly in reactions aerobic soils Occurs in anaerobic soils Insensitive to O2 Sensitive to O2
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Nitrate Reduction
Denitrification DNRA - - - + NO3 /NO2 → N2 NO3 → NH4 5 e- transferred 8 e- transferred Low electron High electron pressure pressure Eh = 200 – 300 mV Eh = < 0 mV
O2 transient Lake sediments or conditions permanenttldt wetlands Facultative Obligate anaerobes anaerobes
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39 Regulators of Denitrification
Low O 2 content - Low Eh Presence of Electron Acceptor- N Oxides Facultative Anaerobes - Enzymes Electron Donor - Carbon Source Organic carbon compounds Reduced sulfur compounds Temperature Nitrate diffusion/flux to anaerobic zones Plant root density
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Sites of Nitrification/Denitrification
Aerobic Water column
Aerobic Soil/Floodwater Interface
O2 ic Soil b Aero
O2 Aerobic Root Zone Anaerobic Soil
O2
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40 Dissimilatory Nitrate Reduction
- - NO3 NO2 [HNO] [H2N2O2]
Biological NH2OH N2O
[HNO] = Nitroxyl
[H2N2O2]]yp = Hyponitrite NH OH = Hydroxylamine + 2 NH4 N2
DNRA Denitrification
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Abiotic Nitrate Reduction (‘Chemo(‘Chemo--denitrification’)denitrification’)
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41 Abiotic Nitrate Reduction
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Lithotrophic Nitrate Reduction
Other potential e- donors: 2- S , H2
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42 N.R. Coupled to Fe(II) Oxidation: Paddy Soils
- w/ added NO3
w/ added - w/o added NO3 - NO3
w/o added - NO3
Fe(II) Fe(III) Ratering and Schnell. 2001. Env. Microbiol. 3(2), 100-109.
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N.R. Coupled to Fe(II) Oxidation
- - NO3 + Fe(II) → NO2 → Fe(III) + N2
- NO3 -control
Fe(III)-culture
- NO3 -culture
Fe(III)-control
Straub, et al. 2007. Appl. Env. Microbiol. 62: 1458-1460. 6/22/2008 P.W. Inglett 86
43 N2
3+ + O2/Fe NH4 - NO2 - NO3
CH4?
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44 Regulators of Denitrification
Low O2 content - Low Eh Presence of Nitrogenous Oxides Heterotrophs: Carbon Source Organic carbon compounds, DOC Lithotrophs: Electron Source
Reduced Fe, Mn, S compounds, H2 Temperature Nitrate diffusion/flux to anaerobic zones Plant root density
Nitrate uptake, O2 loss
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Denitrification
Wetland Denitrification Rate
Houghton Lake Wetland (mg N kg-1 day-1) Inflow Zone 74 Interior Zone 11 Orange County ESAWT Inflow Zone 9 Interior Zone 1 Everglades-WCA-2a Inflow Zone 6 Interior Zone 1
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45 Coupled Nitrification-Nitrification- Denitrification
Nitrification rate depends on: Ammonification rate Ammonium flux into aerobic zone Denitrification rate depends on: Nitrification rate Nitrate flux into anaerobic zones Nitrification-denitrification occurs in: Flooded soil-water column with aerobic-anaerobic interfaces Aerobic-anaerobic interfaces in the root zone Water-table fluctuations/ alternate flooding and draining
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Coupled NitrificationNitrification--DenitrificationDenitrification
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46 Everglades –WCA-2A
Nitrate source/ Nitrate source/ High C/Low Eh Nitrate depleted/ Low C,P/Low Eh High C/Low Eh
10
8 ) -1
hr 6 -1
4 With Glucose
N kg Without Glucose trification Rate g
(m 2 Deni
0 0 2 4 6 8 10 Distance (km)
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Denitrification Walls: (Schipper et al. 2003)
47 ANAMMOX vs. Denitrification
- Suppl y of NO2 - - Low NO2 favors Denitrification, High NO2 (>10mM) inhibits ANNAMOX
Organic matter availability
Higher DOC favors Denitrification
Temperature
ANNAMOX dominant @ low Temp.
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48 Denitrification vs. DNRA
- Supply of NO3 - Low NO3 favors DNRA Organic matter availability High DOC favors DNRA
Hydropattern Denitrifiers are largely facultative
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15 - (Of added NO3 )
ON
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49 6/22/2008 P.W. Inglett 99
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50 Potential Fate Low Organic - Matter NO3 (Low C:EA)
- + NO2 H + NH4 NO N2O
N2O N2 Dissimil N2 N2 a tory N2
+ NH4 High Organic Matter Permanently Anaerobic Aerobic (High C:EA) Anaerobic 6/22/2008 P.W. Inglett 101
Potential Fate
Burgin and Hamilton. 2007. Front Ecol Environ 5(2): 89–96.
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51 Nitrogen Cycling
Plant biomass N
N2 NH3 N2 N2O (g) Litterfall Nitrogen Fixation Volatilization
Mineralization. Water - Nitrification + + NO3 NH4 Organic N NH4 Column
AEROBIC - Plant Peat NO3 + + [NH4 ]s uptake accretion [NH4 ]s Denitrification ANAEROBIC Microbial + Organic N Biomass N Adsorbed NH4
N2, N2O (g)
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52