Imaging Coral I: Imaging Coral Habitats with the SeaBED AUV

The SeaBED autonomous underwater vehicle (AUV) is a new imaging platform designed for high resolution optical and acoustic sensing. This low cost vehicle has been specifically designed for use in waters up to 2000 m to carry out video transects, bathymetric and side-scan sonar surveys. In this paper we detail the systems issues associated with navigation, control, and imaging that led us to our particular hardware and software design choices so as to allow us to operate in shallow, shelf and ocean basin environments. We illustrate the strengths of our design with data obtained during two research cruises associated with mapping coral reefs off Puerto Rico and Bermuda. In both these cases, SeaBED was deployed in extremely challenging terrain associated off the shelf edge and was successful in returning high quality color imagery of deep coral habitats.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/86034/1/hsingh-34.pd

Sea surface temperature patterns on the West Florida Shelf using growing hierarchical self-organizing maps

Author Posting. © American Meteorological Society 2006. This article is posted here by permission of American Meteorological Society for personal use, not for redistribution. The definitive version was published in Journal of Atmospheric and Oceanic Technology 23 (2006): 325–338, doi:10.1175/JTECH1848.1.Neural network analyses based on the self-organizing map (SOM) and the growing hierarchical self-organizing map (GHSOM) are used to examine patterns of the sea surface temperature (SST) variability on the West Florida Shelf from time series of daily SST maps from 1998 to 2002. Four characteristic SST patterns are extracted in the first-layer GHSOM array: winter and summer season patterns, and two transitional patterns. Three of them are further expanded in the second layer, yielding more detailed structures in these seasons. The winter pattern is one of low SST, with isotherms aligned approximately along isobaths. The summer pattern is one of high SST distributed in a horizontally uniform manner. The spring transition includes a midshelf cold tongue. Similar analyses performed on SST anomaly data provide further details of these seasonally varying patterns. It is demonstrated that the GHSOM analysis is more effective in extracting the inherent SST patterns than the widely used EOF method. The underlying patterns in a dataset can be visualized in the SOM array in the same form as the original data, while they can only be expressed in anomaly form in the EOF analysis. Some important features, such as asymmetric SST anomaly patterns of winter/summer and cold/warm tongues, can be revealed by the SOM array but cannot be identified in the lowest mode EOF patterns. Also, unlike the EOF or SOM techniques, the hierarchical structure in the input data can be extracted by the GHSOM analysis.Support was provided by the Office of Naval Research under Grant N00014-98-1-0158 for observations and modeling of the west Florida continental shelf circulation and Grant N00014-02-1-0972 for the Southeast Atlantic Coastal Ocean Observing System

Phytoplankton Response to Intrusions of Slope Water on the West Florida Shelf: Models and Observations

Previous hypotheses had suggested that upwelled intrusions of nutrient-rich Gulf of Mexico slope water onto the West Florida Shelf (WFS) led to formation of red tides of Karenia brevis. However, coupled biophysical models of (1) wind- and buoyancy-driven circulation, (2) three phytoplankton groups (diatoms, K. brevis, and microflagellates), (3) these slope water supplies of nitrate and silicate, and (4) selective grazing stress by copepods and protozoans found that diatoms won in one 1998 case of no light limitation by colored dissolved organic matter (CDOM). The diatoms lost to K. brevis during another CDOM case of the models. In the real world, field data confirmed that diatoms were indeed the dominant phytoplankton after massive upwelling in 1998, when only a small red tide of K. brevis was observed. Over a 7-month period of the CDOM-free scenario the simulated total primary production of the phytoplankton community was ∼1.8 g C m−2 d−1 along the 40-m isobath of the northern WFS, with the largest accumulation of biomass on the Florida Middle Ground (FMG). Despite such photosynthesis, these models of the WFS yielded a net source of CO2 to the atmosphere during spring and summer and suggested a small sink in the fall. With diatom losses of 90% of their daily carbon fixation to herbivores the simulation supported earlier impressions of a short, diatom-based food web on the FMG, where organic carbon content of the surficial sediments is tenfold those of the surrounding seabeds. Farther south, the simulated near-bottom pools of ammonium were highest in summer, when silicon regeneration was minimal, leading to temporary Si limitation of the diatoms. Termination of these upwelled pulses of production by diatoms and nonsiliceous microflagellates mainly resulted from nitrate exhaustion in the model, however, mimicking most del15PON observations in the field. Yet, the CDOM-free case of the models failed to replicate the observed small red tide in December 1998, tagged with the del15N signature of nitrogen fixation. A large red tide of K. brevis did form in the CDOM-rich case, when estuarine supplies of CDOM favored the growth of the shade-adapted, ungrazed dinoflagellates. The usual formation of large harmful algal blooms of \u3e1 ug chl L−1 (105 cells L−1) in the southern part of the WFS, between Tampa Bay and Charlotte Harbor, must instead depend upon local aeolian and estuarine supplies of nutrients and CDOM sun screen, not those from the shelf break. In the absence of slope water supplies, local upwelling instead focuses nitrate-poor innocula of co-occurring K. brevis and nitrogen fixers at coastal fronts for both aggregation and transfer of nutrients between these phytoplankton groups

Marine Biodiversity in the Caribbean: Regional Estimates and Distribution Patterns

This paper provides an analysis of the distribution patterns of marine biodiversity and summarizes the major activities of the Census of Marine Life program in the Caribbean region. The coastal Caribbean region is a large marine ecosystem (LME) characterized by coral reefs, mangroves, and seagrasses, but including other environments, such as sandy beaches and rocky shores. These tropical ecosystems incorporate a high diversity of associated flora and fauna, and the nations that border the Caribbean collectively encompass a major global marine biodiversity hot spot. We analyze the state of knowledge of marine biodiversity based on the geographic distribution of georeferenced species records and regional taxonomic lists. A total of 12,046 marine species are reported in this paper for the Caribbean region. These include representatives from 31 animal phyla, two plant phyla, one group of Chromista, and three groups of Protoctista. Sampling effort has been greatest in shallow, nearshore waters, where there is relatively good coverage of species records; offshore and deep environments have been less studied. Additionally, we found that the currently accepted classification of marine ecoregions of the Caribbean did not apply for the benthic distributions of five relatively well known taxonomic groups. Coastal species richness tends to concentrate along the Antillean arc (Cuba to the southernmost Antilles) and the northern coast of South America (Venezuela – Colombia), while no pattern can be observed in the deep sea with the available data. Several factors make it impossible to determine the extent to which these distribution patterns accurately reflect the true situation for marine biodiversity in general: (1) highly localized concentrations of collecting effort and a lack of collecting in many areas and ecosystems, (2) high variability among collecting methods, (3) limited taxonomic expertise for many groups, and (4) differing levels of activity in the study of different taxa

Phytoplankton dynamics in the eastern Caribbean Sea as detected with space remote sensing

The Space Information Laboratory (SIL) of the Tropical Center for Earth and Space Studies of the University of Puerto Rico at Mayagu¨ ez (UPRM) has been collecting and processing satellite data since December of 1996. Satellite imagery from the Advanced Very High Resolution Radiometer (AVHRR) and the Sea viewing Wide Field of view Sensor (SeaWiFS) provides us with a new understanding of phytoplankton dynamics in the Caribbean region. SeaWiFS shows the intrusion of waters into the eastern Caribbean Sea from the Orinoco River during fall and from the Amazon River during spring–summer. Strong coastal upwelling in Venezuela produced by the trade winds during winter– spring is detected with the AVHRR. The satellite data suggest that these seasonal events may play an important role in phytoplankton fertilization of the eastern Caribbean Sea. SeaWiFS and hydrological data are also combined to evaluate the impact of hurricanes on phytoplankton distribution. The development of models for estimation of ocean primary productivity using SeaWiFS and AVHRR data is now in progress

New Evidence for the West Florida Shelf Plume

The occurrence of an episodic chlorophyll plume detected on the West Florida Shelf between 1979 and 1986 was confirmed in March 1995 with shipboard data and in March 1998 with new ocean color data from the SeaWiFS sensor. New evidence is presented to support the hypothesis that diatom blooms off Apalachicola Bay are the precursor of the seasonal West Florida Shelf plume, and that the nutrient requirements for such blooms, especially silicate, can be supported by river discharge. The observations indicate that the impact of rivers is maximal over the middle shelf and decreases over the outer shelf. Salinity and discharge measurements support the concept that the Apalachicola River had a major impact at distances exceeding 100 km from the coast and that it plays an important role in the formation of offshore blooms. Preliminary analyses suggest that successional processes lead to cryptophytes dominating in the offshore blooms

On the Dispersal of Riverine Colored Dissolved Organic Matter Over the West Florida Shelf

We investigated the optical properties of surface water in areas of the West Florida Shelf influenced by riverine discharge and by the occurrence of a phytoplankton plume. Results of absorption and fluorescence spectroscopy analyses and determination of dissolved organic carbon (DOC) concentration showed that the injection of riverine colored dissolved organic matter (CDOM) strongly affected the optical properties and DOC concentrations over the shelf. Riverborne nutrients contributed to an increase in primary productivity. However, during the study period, the increase in primary productivity did not result in the production of significant amounts of CDOM. Fluorescence spectroscopy results showed that optical properties of riverine CDOM were lost close to the mouth of the rivers. A simple mathematical model describing mixing between riverine and marine end-members demonstrated that most of the observed changes in optical properties of CDOM along salinity gradients can be explained by mixing. Laboratory mixing experiments between riverine water and seawater indicated that flocculation of organic matter during estuarine mixing did not affect the optical properties of CDOM