CARTHE Blog

Measure.
Model.
Mitigate.

Measure.
Model.
Mitigate.

Measure.
Model.
Mitigate.

Measure.
Model.
Mitigate.

nova lab

The Nova/CARTHE team studying bacteria during SCOPE

By on August 4, 2014

While assisting the SCOPE team conduct experiments on the research vessel, our group was also collecting bacterial samples directly from the sea surface and subsurface water about 20 cm deep. We are especially interested in bacteria that are known to produce and degrade surfactants (compounds that lower the surface tension between two liquids) as well as those that degrade oil in the environment. Surfactants are produced by bacteria for a number of reasons, such as to help break up food materials during feeding or for aggregation purposes. When these surfactants accumulate on the sea surface under low wind speed conditions, they can suppress gravity-capillary waves and form sea slicks. These slicks are visible to the naked eye and can even be seen in satellite imagery. We look to compare the abundance levels of surfactant associated bacteria at the sea surface as well as from subsurface water in slick and non slick conditions to see how the communities differ.

nova labThis is accomplished by sampling bacteria in the field using techniques designed to minimize contamination. Once the samples are collected, we then analyze the DNA that we extract from those samples back at the lab and perform PCR and Next Generation Sequencing techniques, which tells us what types of bacteria are present.

Real time PCR techniques are used when there is a very small amount of DNA being analyzed from a sample. This process creates many copies of a region of DNA if it is present, such as a region only found in types of surfactant associated bacteria. This amplification makes it easier for researchers to determine if a certain type of bacteria is present in a sample.

Using Next Generation Sequencing, we were able to read the base pair order of the DNA found in each sample. Once we obtained these reads, we could then compare them to sequence libraries in the scientific community to determine the types of bacteria that were present in each sample. This method makes it possible to obtain a picture of the whole community found in a sample, rather than the presence or absence of just one type of organism.

Certain types of marine bacteria are known to degrade oil in their environment and use it as an energy source. If there is dissolved oil in the water column that may not be visible on the sea surface, bacteria that are degrading these hydrocarbons and producing surfactants may give us a better idea of what organic materials are in that subsurface water. We are looking to link these bacteria to sea surface features that can be seen in satellite imagery.

nova sat

Post by Bryan Hamilton, PhD candidate at Nova Southeastern University under Dr. Alexandre Soloviev

Intern Nate Murry – Entry 1

By on July 8, 2014

Intern Nathan M. Murry – senior Oceanography major at Millersville University, working under Drs. Bruce Lipphardt and Helga Huntly at the University of Delaware. Entry 2: I am a senior student in Millersville University’s Physical Oceanography program. I have experience with environmental data analysis and

shane 1

Intern Shane Hinton – Entry 2

By on July 3, 2014

Intern Shane Hinton – senior Meteorology major with minors in Mathematics and Electronic Media working under Dr. Shuyi Chen at the University of Miami’s Rosenstiel School. Entry 2: July has just started but I am already submerged in my research with

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Intern Reed McDonough – Entry 2

By on June 26, 2014

Intern Reed C McDonough – freshman Meteorology and Broadcast Journalism major working under Dr. Shuyi Chen at the University of Miami’s Rosenstiel School. Entry 2: It is now late June, and I am about halfway through my summer project. For the

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Intern Jonathan Zikos – Entry 1

By on June 24, 2014

Intern Jonathan Zikos – Senior Environmental Chemistry major working under  Dr. Darek Bogucki at Texas A&M University – Corpus Christi’s Harte Research Institute. Entry 1 This summer, I will be analyzing and categorizing data from Dr. Bogucki’s Optical Turbulence Sensor

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Intern Shane Hinton – Entry 1

By on June 19, 2014

Intern Shane Hinton – senior Meteorology major with minors in Mathematics and Electronic Media working under Dr. Shuyi Chen at the University of Miami’s Rosenstiel School. Entry 1: Over the course of the next few weeks, I will be analyzing

CARTHE drifters following the Gulf of Mexico currents

Intern Joshua Doolan – Entry 1

By on June 17, 2014

Intern Joshua Doolan: Sixth year student at the University of Western Australia working under CARTHE director Tamay Ozgokmen. Entry 1: My name is Joshua Doolan. I am a final year student at the University of Western Australia completing a Bachelor

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Intern Reed McDonough – Entry 1

By on June 17, 2014

Intern Reed C McDonough – freshman Meteorology and Broadcast Journalism major working under Dr. Shuyi Chen at the University of Miami’s Rosenstiel School. Entry 1: Throughout the summer, I’ll be collecting and organizing wind speed forecasting data from the UMCM-WMH

MH 370: Why is the search for drifting objects in the ocean so challenging?

By on April 29, 2014

Written by Dr. Arthur Mariano and Laura Bracken The Mayalsian Airlines plane that went missing on March 8, 2014 highlights the difficultly in finding objects drifting on the surface of the ocean.  The difficulty in finding objects or people lost

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Explore CARTHE’s Award-Winning Website

By on March 11, 2014

Originally posted on the University of Miami Rosenstiel School blog, March 10, 2014. “The University of Miami was awarded two Outstanding Achievement awards by the Interactive Media Council for excellence in the design, development and implementation of the CARTHE website.  The CARTHE website launched in