Welcome to Marine Biogeochemistry 2018.
Here you'll find relevant course information, lecture materials, and extra reading, videos, etc. to follow up if you're interested in something we cover. Anything labeled "extra" is not required and is only here if want to learn more.
Be sure to check back here regularly for weekly readings, assignment information, and grades.
If you have questions please ask in class, visit during office hours (T: 2-3 pm, W: 1:30-3:30; STO SCI 141D), or email me ([email protected]).
Here you'll find relevant course information, lecture materials, and extra reading, videos, etc. to follow up if you're interested in something we cover. Anything labeled "extra" is not required and is only here if want to learn more.
Be sure to check back here regularly for weekly readings, assignment information, and grades.
If you have questions please ask in class, visit during office hours (T: 2-3 pm, W: 1:30-3:30; STO SCI 141D), or email me ([email protected]).
(1/23) Lecture 1: Origins and evolution of biogeochemical cycles
Reading:
Lecture ppt slides.
Extra Reading:
Reading:
- Gorham (1991): Biogeochemistry: Its Origins and Development
- Schlesinger (2004): Better Living through Biogeochemistry
Lecture ppt slides.
Extra Reading:
(1/25) Lecture 2: Structure and growth of microbial populations
Reading:
Class Canceled
Reading:
Class Canceled
(1/30) Lecture 3: Thermodynamics and microbial metabolism
Reading:
Lecture slides
Reading:
- Canfield et al. (2005): Thermodynamics and Microbial Metabolism (Sections 6 - 10 are most important)
Lecture slides
(2/1) Lecture 4: Chemical Composition of the Ocean
Reading:
Reading:
(2/8) Lecture 6: In Class Group work - work on assignment due (2/15)
Reading:
Reading:
- Chavez et al. (2011): Marine Primary Production in Relation to Climate Variability and Change (Focus on pages 228-234 and 241-253).
(2/13) Lecture 7: Guest Lecture: Dr. Cedric Fichot, Earth and Environment
Topic: Climate-driven changes in the arctic environment - transport and fate of permafrost carbon in the ocean.
Reading:
Topic: Climate-driven changes in the arctic environment - transport and fate of permafrost carbon in the ocean.
Reading:
(2/15) Lecture 8: Ocean Primary Production - Who, What, How, Why do we care?
In Class Presentations
Primary Producers - Class summaries
Reading:
In Class Presentations
Primary Producers - Class summaries
Reading:
- Chavez et al. (2011): Marine Primary Production in Relation to Climate Variability and Change (Focus on pages 228-234 and 241-253).
(2/20) No Class - Monday Schedule
(2/22) Lecture 9: Spatial and temporal patterns of marine primary productivity.
Reading:
Reading:
-
(2/27) Lecture 10: Limiting Nutrients from N to Z(n)
Reading:
Reading:
(3/1) Exam I - In Class (Journals Due!)
(3/6) Spring Break - No Class
(3/8) Spring Break - No Class
(3/13) Lecture 11: Export Production and the Microbial Loop
Class Canceled - Snow Day
Class Canceled - Snow Day
(3/15) Lecture 12: Export Production/PP recap
Reading:
Reading:
-
(3/20) Lecture 13: Microbial Loop
Reading:
Lecture Slides
Reading:
- Azam et al. (1983) The Ecological Role of Water-Column Microbes in the Sea
- Kirchman (1996) Microbial ferrous wheel
- Jiao et al. (2010) Microbial production of recalcitrant dissolved organic matter: long-term carbon storage in the global ocean.
Lecture Slides
(3/22) Lecture 14: AOU
Reading for fun: Breitburg et al. (2018) - Declining oxygen in the global ocean and coastal waters
Lecture Slides
Reading for fun: Breitburg et al. (2018) - Declining oxygen in the global ocean and coastal waters
Lecture Slides
(3/29) Lecture 16: Sediment Diagenesis II
Lecture Slides
Course updates:
1) The website has been updated - ppts are uploaded. If there is no ppt uploaded it means it was a chalk talk day.
2) Tuesday we will be doing in-class work. Please be sure to go over your notes and the lecture slides from last week.
3) You will get your take home exam on Tuesday (4/3). It will still be due Thursday, 4/12.
4) Journals - you will get them back by Thursday, 4/12. You do not need to complete any journal readings until I return the journals. Then you will need to complete a total of 6 more by the last day of class.
Lecture Slides
Course updates:
1) The website has been updated - ppts are uploaded. If there is no ppt uploaded it means it was a chalk talk day.
2) Tuesday we will be doing in-class work. Please be sure to go over your notes and the lecture slides from last week.
3) You will get your take home exam on Tuesday (4/3). It will still be due Thursday, 4/12.
4) Journals - you will get them back by Thursday, 4/12. You do not need to complete any journal readings until I return the journals. Then you will need to complete a total of 6 more by the last day of class.
(4/3) Lecture 17: In Class work
(4/5) Lecture 18: Human Impacts on Coastal Ecosystems
I am giving an invited seminar at the Graduate School of Oceanography at the University of Rhode Island.
You can watch this seminar online live - or after - as they are planning on archiving it.
You will be responsible for the material that is covered.
I will post the link to view online @ 3:30 when I have it.
Here's the link: So many Estuaries So Little Time
You might need to search my name and/or the title of the seminar to find it: "So many estuaries - so little time"
https://ci.uri.edu/2018/03/07/6th-annual-scott-w-nixon-lecture-so-many-estuaries-so-little-time-narragansett-bay-as-a-model-for-coastal-systems-under-change/
I am giving an invited seminar at the Graduate School of Oceanography at the University of Rhode Island.
You can watch this seminar online live - or after - as they are planning on archiving it.
You will be responsible for the material that is covered.
I will post the link to view online @ 3:30 when I have it.
Here's the link: So many Estuaries So Little Time
You might need to search my name and/or the title of the seminar to find it: "So many estuaries - so little time"
https://ci.uri.edu/2018/03/07/6th-annual-scott-w-nixon-lecture-so-many-estuaries-so-little-time-narragansett-bay-as-a-model-for-coastal-systems-under-change/
(4/10) Lecture 19: Guest Lecture: Dr. Jeffrey Marlow, Harvard University
Reading:
Lecture slides
Reading:
- Knittel and Bouetius (2009): Anaerobic Oxidation of Methane: Progress with an Unknown Process.
- Seuss (2014): Marine cold seeps and their manifestations: geological control, biogeochemical criteria and environmental conditions.
Lecture slides
(4/12) Lecture 20: Nitrogen Cycling (Exam II due)
Read me first: http://cmore.soest.hawaii.edu/cruises/biolincs/nitrogen.htm
Reading:
Lecture slides
Read me first: http://cmore.soest.hawaii.edu/cruises/biolincs/nitrogen.htm
Reading:
- Gruber (2009) The Marine Nitrogen Cycle: Overview and Challenges
- Galloway et al. (2003) The Nitrogen Cascade
Lecture slides
(4/19) Lecture 22: Ocean Acidification - Fact/Fiction, Myth/Reality
Read me first: http://ocean.si.edu/ocean-acidification
Reading:
For fun if interested:
Lecture slides
Read me first: http://ocean.si.edu/ocean-acidification
Reading:
- Doney et al. (2009) Ocean Acidification: The Other CO2 problem.
- Duarte et al. (2013) Is Ocean Acidification an an Open Ocean Syndrome?
For fun if interested:
Lecture slides
(4/26) Graduate Student Presentations
Marine Biogeochemical Models
LIS Benthic Fluxes
CH4 in vegetated marine sediments
Marine Biogeochemical Models
LIS Benthic Fluxes
CH4 in vegetated marine sediments