SMS 598: Instrumentation Seminar

Syllabus- Fall 2012


Meeting times: Mondays: 9:00-12:00

Meeting dates: 9/17, 10/22, 11/5, 12/3

Instructors:  Emmanuel Boss,, and various SMS faculty and stuff.

Office hours: by appointment. Don't hesitate to come by during class time if we can help.

Course goal: Introduce graduate students to issues associated with sensing of the oceans, current instrumentation and platforms used to sample the oceans.

Student responsibilities: attend classes, participate actively in discussions, be on time, read reading material.

Assignments: assignment consist of participating in the instruction of one of the topics.


Participation in class: 70% {points taken off for: 1. Not coming to class (w/o prior notice). 2. Comming late to class}

Participation in instruction: 20%.

Reading:  Reading material will be provided as needed to fill in knowledge gaps needed for deeper understanding of concepts and to expand our understanding of the larger issues associated with the technologies discussed.

H1N1: In the event of disruption of normal classroom activities due to an H1N1 swine flu outbreak, the format for this course may be modified to enable completion of the course.  In that event, you will be provided an addendum to this syllabus that will supersede this version.

Syllabus, subject to change, (last updated November 30, 2012):




Assignment/ additional material


Sep 17

Instrumentation to measure hydrographic parameters (pressure, temperature and salinity), velocity and platforms used to measure these parameter - Neil Pettigrew's facilities@Orono.


1. p. 1-127 in: Emery W. J. and R. E. Thomson, Data analysis methods in physical oceanography.

Suggested additional reading:

The Art of Oceanographic Instrumentation by Albert J. Williams 3rd [PDF], a preprint of a book in progress.

Guide to Specifying a CTD, application note 82 by SBE [PDF]

Broadband ADCP primer by RDI [PDF]


Oct 22

Chlorophyll Fluorescence - Mary-Jane Perry's lab @DMC.

Outline of activities [PDF]

Class presentation and activities [zip]


Reading list [PDF], Readings are - here


Data collected [spreadsheet]


Nov 5

In-situ optical instrumentation to sense marine dissolved and particulate materials - Emmanuel Boss's lab @Orono.

Beer-Lambert's law, calibration, & measurements of samples.

writeups [Beer's law], [ac-S], [backscattering],[LISSTs]

Worksheets [Beer's law]

Reading: Roesler, C.S. and E. Boss, 2008. In situ measurement of the inherent optical properties (IOPs) and potential for harmful algal bloom detection and coastal ecosystem observations. In: Real-Time Coastal Observing Systems for Ecosystem Dynamics and Harmful Algal Bloom, M. Babin, C.S. Roesler and J.J. Cullen, eds. UNESCO Publishing,Paris,France. [PDF]

Supplamental reading [PDF]


Dec 3

BioGeoChemical analitical techniques and instrumentation - Larry Mayer's lab @DMC.


1.Stedmon1 and Markager (2005) Tracing the production and degradation of autochthonous fractions of dissolved organic matter by fluorescence analysis. Limnol. Oceanogr., 50(5), 1415–1426 [PDF]

2. Murray, A.P. et al. (1986) Determination of chlorophyll in marine waters: Intercomparison of a rapid HPLC method with full HPLC, spectrophotometric and fluorometric methods. Marine Chemistry  19:211-227 [PDF]



Emery W. J. and R. E. Thomson, 2003. Data analysis methods in physical oceanography.

Education (and some science) links to instrumentation:

WHOI general public website on oceanic instrumentation:

Sensor for ecology: a recent book (~300pp) about sensors use in ecology, including biological oceanography:

Boss, 2012
This page was last edited on November 30, 2012