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11:628:320 Dynamics of Marine Ecosystems 2017













































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































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An overview of the fundamental processes in the marine environment with emphasis on interdisciplinary linkages in the functioning of marine ecosystems. Understanding the dynamics in the physics, chemistry, and biology of the oceans will be emphasized.













































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































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This schedule may change as the semester progresses. Check back here regularly for possible updates, and links to lecture presentations.













































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































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Instructors:













































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































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John Wilkin (physics) 848-932-3366  jwilkin@rutgers.edu













































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































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Liz Sikes (geochemistry) 848-932-3257 sikes@marine.rutgers.edu













































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































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Heidi Fuchs (biology) 848-932-3252 hfuchs@marine.rutgers.edu













































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































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Alex Lopez (TA) 848-932-3365 alopez@marine.rutgers.edu
     Office Hours: By appointment, room 210 (suite 214) in Marine & Coastal Sciences building














































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































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Class meets: Monday-Wednesday-Friday from 2:15 pm to 3:35 pm in FS-109 (Food Science Building, corner College Farm and Dudley Roads)













































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































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Selected chapters are available on reserve in the Chang Library. These are highlighted in the Reading column below. To access them, go to the libraries homepage at http://www.libraries.rutgers.edu. On the left hand column click on Find Reserves and enter the course number 11:628:320 or search by instructor name Sikes. They are also linked through the course Sakai page.














































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































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Lecture Date Day Recitation Topic (links are to lecture notes ppt/pdf*)

* All lecture materials are copyright (c) 2009-2017 by the instructors - permission to use may be granted on request via email to the addresses noted above.
Lecturer Reading

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  Theme 1. Vertical structure of the open ocean: Biology of the mixed layer













































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































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1 6-Sep W No recitation Orientation & Wind-driven mixing at the ocean surface Lopez
Mann and Lazier chapters 3.1, 3.2, 3.3.1, and 3.3.2

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2 8-Sep F
Sources of nutrients, N2 fixation, PO4 |
Homework 1 distributed (click for pdf)
Sikes Libes 2nd ed: Chap 9 pp 221-227 and 232-236; Chap 10 pp 237-246; Chap 24 pp 680-687

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3 11-Sep M

Primary production in the mixed layer Fuchs
Mann and Lazier chapters 3.3.3 to 3.7

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4 13-Sep W Recitation
Seasonal succession and the spring bloom
Fuchs Pomeroy et al. 2007

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5 15-Sep F
Pelagic food webs and the microbial loop
Homework 1 due
Fuchs

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6
18-Sep M

Nitrogen-phytoplankton-zooplankton models | NPZ Visualizer (Wilkin) Wilkin

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Theme 2: Coastal Upwelling     













































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































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7
20-Sep W
No recitation
Coriolis force and Ekman transport
Homework 2 distributed (click for pdf)
Wilkin

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8
22-Sep F

Coastal Upwelling
Wilkin

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9
25-Sep M

Equatorial atmosphere-ocean dynamics | Term Paper Info
Wilkin

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10
27-Sep W
Review for Exam
Upwelling nutrients and tracers | Homework 2 due Sikes
Libes 2nd edition: Chap 16 pp 403-418

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Theme 3: Equatorial Circulation and El Nino













































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































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11 29-Sep M

Equatorial atmosphere-ocean dynamics | Term Paper Info
Wilkin

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Exam 12-OctM

*  *  *  *  *  *   E X A M   1  *  *  *  *  *  * (Themes 1 & 2)


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12 4-Oct
W
No recitation Concepts in biogeochemical cycles | Homework 3 distributed (click for pdf) Sikes
Libes 2nd edition section 1.3 pp4-8 sect 21.6 pp 553-556

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13 6-Oct F

 Geochemical tracers of climate | Term Paper Topic Due Sikes
Libes 1st edition: Chap 29 pp 557-581

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14 9-Oct M

Paleoceanographic record of ENSO Sikes

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15 11-Oct W
Recitation 1 pm Larval transport
Fuchs

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16 13-Oct F

Fisheries: CalCoFI case study
Fuchs
Mann and Lazier chapter 5

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17 16-Oct M

ENSO related variability and fisheries | Homework 3 due Fuchs
Chavez et al. 2003

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18
18-Oct W
No recitation Recitation during class time
TA

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Exam 220-SepF

*  *  *  *  *  *   E X A M   2  *  *  *  *  *  *

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19
23-OctM
Term Paper Info and Tips | Term Paper Outline Due
Sikes
Tips for Good Writing

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Theme 4: Land-Ocean Interactions

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20
25-Oct W

Coastline Processes
Sikes
 Libes 2nd edition: Ch 28 pp 765-778, 782-786, 787-796

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21 27-Oct F

No class


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22 30-Oct
M

Estuarine circulation Wilkin

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23 1-Nov
W
Recitation 1 pm Marine Pollution: Estuaries to the open sea
Sikes

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24 3-Nov
F

Estuarine larval transport
Fuchs

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25 6-Nov
M

Chemistry of estuaries
Sikes

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26 8-Nov
W
Recitation 1 pm Ocean/atmosphere CO2 exchange
Sikes
Libes 2nd edition: Chap 25 pp 724-735 and Wells 2004

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Exam 3 10-Nov F

*  *  *  *  *  *    E X A M   3   *  *  *  *  *  *

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Theme 5: Global climate system

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27 13-Nov
M
Global ocean circulation (1): Wind-driven gyre-scale circulation of the surface ocean and thermocline Wilkin

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28 15-Nov
W No recitation Global ocean circulation (2): Transport, conservation properties
Wilkin

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29
17-Nov
F

Global ocean circulation (3): Water mass properties, polar convection, tracer distributions, global thermohaline circulation Wilkin

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30 20-Nov
M
 IPCC | link to IPCC AR5 reports| Homework 4 distributed (click for pdf) Wilkin

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22-Nov
W No recitation No class


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31 27-Nov
M
CO2 and the carbonate system ocean and sediments
Sikes
Libes 2nd edition: Chap 25 pp 735-758. Chapter 13 pp 213-220 of online book Introduction to Physical Oceanography, by R.H. Stewart

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32
29-Nov
W Recitation 1 pm Carbonates, Paleoclimate, Circulation | Term Paper due Sikes

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33
1-Dec F
Bio-impacts of climate change (1)
Fuchs

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34
4-Dec M
Bio-impacts of climate change (2)
Fuchs

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Theme 6: Acoustics













































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































































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35 6-Dec
W Recitation 1 pm
Ocean acoustics: physics | Homework 4 due
Wilkin

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36 8-Dec
F
Ocean acoustics: biology Fuchs

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37 11-Dec
M
Review for exam
All

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Exam 4 13-Dec
W
*  *  *  *  *  *    E X A M   4   *  *  *  *  *  *