2002 Progress Report: Consortium for Estuarine Ecoindicator Research for the Gulf of Mexico (CEER-GOM)

EPA Grant Number: R829458
Center: EAGLES - Consortium for Estuarine Ecoindicator Research for the Gulf of Mexico
Center Director: Brouwer, Marius
Title: Consortium for Estuarine Ecoindicator Research for the Gulf of Mexico (CEER-GOM)
Investigators: Brouwer, Marius , Thomas, Peter , Noble, Peter , Rose, Kenneth A. , Nunez, Brian Scott , Cheek, Ann , Rakocinski, Chet , Grimes, Jay , Lepo, Joe , Proctor, Lita , Han, Luoheng , Denslow, Nancy , Heard, Richard , Snyder, Richard , Yang, Xiaojun
Current Investigators: Brouwer, Marius , Thomas, Peter , Noble, Peter , Rose, Kenneth A. , Cheek, Ann , Rakocinski, Chet , Lepo, Joe , Han, Luoheng , Denslow, Nancy , Snyder, Richard , Yang, Xiaojun
Institution: University of Southern Mississippi , The University of Texas at Austin , University of West Florida , The University of Alabama , University of Washington , Louisiana State University - Baton Rouge , Florida State University
Current Institution: University of Southern Mississippi , Florida State University , Louisiana State University - Baton Rouge , The University of Alabama , The University of Texas at Austin , University of Florida , University of Washington
EPA Project Officer: Packard, Benjamin H
Project Period: December 1, 2001 through November 30, 2005 (Extended to May 20, 2007)
Project Period Covered by this Report: December 1, 2001 through November 30, 2002
Project Amount: $5,906,323
RFA: Environmental Indicators in the Estuarine Environment Research Program (2000) RFA Text |  Recipients Lists
Research Category: Environmental Justice , Water , Aquatic Ecosystems , Ecological Indicators/Assessment/Restoration

Objective:

The main objective of this research project, which works in partnership with the U.S. Environmental Protection Agency’s (EPA) Gulf Ecology Division (GED), is to study, develop, and validate indicators of estuarine condition at four levels of increasing biological complexity: (1) individual; (2) population; (3) community; and (4) ecosystem/watershed, and to integrate the suite of indicator responses into models that can be applied to assess estuarine ecosystem condition. In addition, we will develop sensitive indicators of early stages of ecological change. Our main focus will be on increased nutrient loading and concomitant hypoxic conditions, which are considered to be one of the major factors responsible for declines in habitat quality in the Gulf of Mexico region. The objectives of Year 1 of the project are to conduct laboratory and field pilot studies to facilitate ecoindicator development and sampling protocols. In Years 2-4 of the project, the indicators that are developed and validated in Year 1 will be applied to joint studies of Consortium for Estuarine Ecoindicator Research (CEER)-targeted estuaries.

Progress Summary:

Individual/Population Indicators: Reproductive Function in Estuarine Fishes

The overall objective of this research project is to evaluate biomarkers of reproductive function in two estuarine fish species, Atlantic croaker and Fundulus grandis, as early warning indicators of fish population hazards due to the degradation of estuarine environments. Currently, little is known about the effects of the exposure to moderate hypoxia on reproductive and endocrine functions in estuarine fishes. Therefore, an objective for Year 1 of this project was to determine whether reproductive function was impaired in croaker that is chronically exposed to low dissolved oxygen (DO) levels (2.5 ppm and 3.5 ppm) in a controlled laboratory study. Gonadal growth in males, but not in females, was significantly impaired in croaker exposed to 2.5 ppm for 6 weeks. After 10 weeks of exposure, sperm motility and plasma androgen levels were significantly decreased in males exposed to both of the low DO treatments. An initial spawning trial suggested that fertilization success also is impaired after chronic exposure to low DO. Another objective of Year 1 was to develop additional indicators for subsequent evaluation in field studies during the remainder of the project. The genes for two key steroidogenic enzymes involved in gonadal development at puberty, aromatase (estrogen synthesis), and 11ß hydroxylase (androgen synthesis) have been cloned and almost completely sequenced. Other indicators in croaker and F. grandis have undergone further development and initial evaluation in preliminary field studies. Site differences in several reproductive indicators such as gonadal growth were observed in both species, which were associated with moderate environmental degradation due to low DO or chemical contamination. These initial field trials suggest that some of the reproductive endpoints selected are potentially useful as individual-level indicators of fish population hazards.

Individual/Population Indicators: Molecular Indicators of DO Stress in Crustaceans

The overall objective of this research project is to develop molecular indicators of DO stress (hypoxia and diurnal DO cycles) in blue crabs, penaeid shrimp, and grass shrimp, and to determine if the molecular signals can serve as predictive indicators of reduced fitness (molting and reproduction) in grass shrimp. During Year 1 of the project, we exposedblue crabs and brown shrimp to hypoxia and hypoxia → normoxia cycles under controlled laboratory conditions. The survival of shrimp under hypoxic, and especially under cyclic DO conditions, was significantly reduced, whereas the survival of crabs was not affected. This suggests that increases in frequency, intensity, duration, and extent of hypoxic conditions in estuaries may have serious implications for shrimp fisheries by reducing the availability of suitable habitat. To quantitate the expression of hypoxia-responsive genes in crabs and shrimp, we cloned and sequenced partial coding sequences of blue crab (10), brown shrimp (9), and grass shrimp (9) proteins: Hsp70, CdMT1, CuMT3 (blue crab only), cytosolic sediment oxygen demand (SOD), mitochondrial SOD, hemocyanin, actin, and ribosomal proteins S15, S14, and L23. The first six were selected because their transcription is controlled by the intracellular redox potential; the last four served as internal standards. The cDNAs were used to construct macroarrays, which were hybridized with [ alpha-33P] labeled cDNA prepared from the hepatopancreas of control crabs, hypoxia-treated crabs (2-3 ppm DO, for 5 days), and cyclic DO-treated crabs (3 to 8 ppm DO for 5 days). Significant decreases (P < 0.05) in transcription of mitochondrial MnSOD, hemocyanin, and ribosomal S15 and L23 genes were observed in hypoxia-exposed, but not in cyclic DO-treated crabs. Chronic hypoxia constitutes a greater stress for crabs than conditions that mimic natural diurnal fluctuations of DO. Hypoxia-responsive macroarrays might be useful tools for monitoring effects of hypoxia in estuarine crustacea. To measure changes in the concentrations of hypoxia-inducible proteins in crabs and shrimp in response to DO stress, we tested a large number of commercially available and custom-made antibodies using Western blots. The results obtained to date suggest that hemocyanin and MnSOD may be useful indicators of hypoxia-induced stress. Tissues from field-collected animals still have to be analyzed.

Community Indicators: Microbial Biofilms

The biofilm sampler design has been refined and the necessity to sample at different scales for different parameters is being addressed. Analytical endpoints have been evaluated on the basis of practicality and information content. Collaborations with scientists at the Gulf Breeze EPA /GED laboratory continue. The Proctor laboratory is focusing on the microorganisms key to nitrogen transformations such as nitrogen fixers, denitrifiers and nitrifiers, and the genes that code for specific nitrogen processes. Our hypothesis is that microbial diversity of key microbial functional guilds will be lower in eutrophic estuarine systems and higher in oligotrophic estuaries. Microbial diversity will be evaluated by terminal restriction fragment length polymorphism (T-RFLP) and sequence analysis of microbial biofilm clone libraries. Abundances of specific microbial guilds will be estimated by quantitative real-time polymerase chain reaction (PCR). We have optimized PCR conditions for detecting various bacterial species using genomic DNA from pure cultures as positive controls. Genomic biofilm DNA from an oyster reef and an adjacent sand/mud bottom provided a template to amplify 16S rRNA genes. Unique ribotypes are being sequenced to provide species information and to assign individual peaks in T-RFLP patterns. Diversity also is being assessed monthly over a 1-year period. This will enlarge our own laboratory-generated clone library and provide more sequence data, making T-RFLP peak analysis more precise. T-RFLP data are being analyzed with the help of the RDP database in silico to complement our laboratory-generated diversity data, and both will be used to study biodiversity in planned microcosm experiments. The microcosm experiments, conducted in collaboration with EPA/GED scientists, will elucidate threshold responses of developing biofilms under continuous and pulsed nutrient regimes. Phospholipid and C:N analyses of the biofilms from habitat-specific deployments (intertidal habitats, saltmarsh habitats, open sand flats, seagrass beds, and oyster reefs versus mud and sand bottom) suggest that microbial communities have fidelity to specific habitats. These experiments and observations suggest that biofilms may have utility as indicators of habitat and overall estuarine status.

Community Indicators: Macrobenthic Indicators

Two demonstration projects were conducted. The Grand Bay National Estuarine Research Reserves (NERR) Macrobenthic Demonstration Project was envisaged as a pilot study to assess the feasibility of using the macrobenthic size spectrum and other measures of macrobenthic processes as ecoindicators. Transects were established within each of two parallel bayou systems, Bayou Heron (BH) and Bayou Cumbest (BC), starting in the upper portions of the bayous and proceeding downstream into the adjoining bay systems. Five stations were located along each transect and stations were placed at geometrically increasing distances (i.e., 0.5, 1.0, 2.0, and 4 km). BH is in a pristine reserve area with naturally low DO at some stations, whereas BC is in an area thought to be affected by residential wastewater runoff with exacerbated low DO in some areas. The East Pensacola Bay study was envisaged as a spatio-temporal comparison of low DO effects. To document possible macrofaunal recovery processes as reflected by macrobenthic indicators, the East Pensacola Bay study encompassed two sample periods, the first in September immediately following the low DO period, and another later in November, after the dissipation of the DO period. Preliminary results are promising. For example, when the macrofauna was compared between two stations located in the upper portions of BC and BH, total macrofaunal volume was almost twice as high at the BC station, with considerably higher biomass amounts in the 1.0, 1.4, and 2.0 sieve mesh-size fractions. Accordingly, these biomass differences translated into estimated daily production values of 5,846 µg dM-1m-2 dry weight at the BH station versus 9,856 µg dM-1m-2 at the BC station. The annual productivity:biomass ratio based on that daily rate of production was 14.6 at the former station versus 9.2 at the latter station, implying a somewhat slower rate of faunal turnover at the BC station.

Ecosystem/Watershed Indicators: Remote Sensing of Water Quality

Pensacola Bay was studied using satellite, close-range hyperspectral, and water sampling data. The primary objectives are to study the spatial-temporal relationship between remote sensing data and chlorophyll and turbidity. In collaboration with GED, four monthly collections of spectral signature data were obtained over 16 sampling sites. These data were successfully linked with the chlorophyll and other water quality parameters measured by GED. On the satellite data selection and processing, images that match the water sampling cruises were unavailable due to cloud coverage. Satellite images were processed using spectral clustering technique and the spectral clusters were associated with water constituents.

Ecosystem/Watershed Indicators: Geographic Information Systems (GIS) and Terrestrial Remote Sensing

We have completed land use/cover mapping for three different dates and obtained more than 100 measurements of landscape metrics for the Pensacola estuarine drainage area, the study area for Year 1. A comprehensive GIS database has been constructed and data are ready to be delivered through the Internet Map Server. The Web site for the GIS and (terrestrial) Remote Sensing component has been developed (http://uwfgis.evr.uwf.edu/rsgisceergom/index.html Exit ).

Data Management and Analysis

Web development of a secure site for the deposition of meta data, data of CEER-GOM investigators, and for statistical analysis of ecological data has been accomplished. However, CEER-GOM Web sites have not been linked together, nor are the uploading tools (although they are made) hooked up. The final product will be completed by March 2003. Neural network software has been developed for nonlinear statistical analysis (http://noble.ce.washington.edu Exit under “Tools for data analysis”). A more sophisticated neural network software package also has been developed and currently is being beta tested. A manuscript describing the neural network software and providing an example of how this software can be used for ecological assessment also is being prepared.

Joint Studies/Experiments

Microbial Biofilms-GED Collaboration. EPA/GED’s Richard Devereux provides positive control cultures for T-RFLP work on sulfate-reducing bacteria, methanogens, and other archaea. Biofilm samplers have been deployed in seagrass beds with concurrent measurement of sea grass productivity parameters and sediment chemistry by EPA/GED scientists. The CEER Biofilm team, in consultation with EPA/GED’s Rick Greene, Mike Lewis, and Peter Chapman, has secured a site on the GED campus for biofilms microcosm setup and continues to refine experimental design details.

Macrobenthic Ecoindicators-GED Collaboration. John Macauley of EPA/GED assisted the CEER-GOM benthic sampling effort in the East Bay on September 11, and November 14, and GED provided a Monarch boat equipped with a hydraulic winch for benthic sampling.

Remote Sensing-GED Collaboration. Dr. Han (University of Alabama-CEER) has been collecting hyperspectral data over the Pensacola Bay on seven occasions in collaboration with the researchers of the EPA GED. The GED has provided valuable water sampling data including chlorophyll-a for these dates.

GIS-EPA Collaboration. Pete Bourgeois (EPA/U.S. Geological Survey) has supplied Xiaojun Yang (CEER-University of West Florida) with a scene of Landsat TM imagery for 1991.

Future Activities:

We will continue to study, develop, and validate indicators of estuarine condition at four levels of increasing biological complexity: (1) individual; (2) population; (3) community; and (4) ecosystem/watershed, and to integrate the suite of indicator responses into models that can be applied to assess estuarine ecosystem condition.


Journal Articles: 48 Displayed | Download in RIS Format

Other center views: All 171 publications 54 publications in selected types All 48 journal articles
Type Citation Sub Project Document Sources
Journal Article Breitburg DL, Adamack A, Rose KA, Kolesar SE, Decker MB, Purcell JE, Keister JE, Cowan JH. The pattern and influence of low dissolved oxygen in the Patuxent River, a seasonally hypoxic estuary. Estuaries 2003;26(2A):280-297. R829458C009 (2003)
not available
Journal Article Brouwer M, Larkin P, Brown-Peterson N, King C, et al. Effects of hypoxia on gene and protein expression in the blue crab, Callinectes sapidus. Marine Environmental Research 2004;58(2-5):787-792.
abstract available   full text available
R829458C003 (2003)
R829458C003 (2004)
not available
Journal Article Brouwer M, Brown-Peterson NJ, Larkin P, Patel V, Denslow N, Manning S, Brouwer TH. Molecular and whole animal responses of grass shrimp, Palaemonetes pugio, exposed to chronic hypoxia. Journal of Experimental Marine Biology and Ecology 2007;341(1):16-31.
abstract available   full text available
R829458C003 (2005)
  • Full-text: Science Direct Full Text
    Exit
  • Abstract: Science Direct Abstract
    Exit
  • Journal Article Brown-Peterson NJ, Larkin P, Denslow N, King C, Manning S, Brouwer M. Molecular indicators of hypoxia in the blue crab Callinectes sapidus. Marine Ecology Progress Series 2005;286:203-215.
    abstract available  
    R829458C003 (2004)
    R829458C003 (2005)
  • Abstract: Marine Ecology Progress Series
    Exit
  • Journal Article Popular article featuring Cheek & Thomas projects: Janet Raloff. Choked Up: How dead zones affect fish reproduction. Science News 2004;166(20):309. R829458C005 (2004)
    not available
    Journal Article El Fantroussi S, Urakawa H, Bernhard AE, Kelly JJ, Noble PA, Smidt H, Yershov GM, Stahl DA. Direct profiling of environmental microbial populations by thermal dissociation analysis of native rRNAs hybridized to oligonucleotide microarrays. Applied and Environmental Microbiology 2003;69(4):2377-2382.
    abstract available   full text available
    R829458 (2005)
    R829458C004 (2003)
  • Full-text from PubMed
  • Abstract from PubMed
  • Full-text: NCBI - PDF
  • Abstract: ASM - Abstract
    Exit
  • Other: ASM - Full Text - HTML
    Exit
  • Journal Article Ferguson HJ, Rakocinski CF. Tracking marsh restoration using macrobenthic metrics: implementing a functional approach. Wetlands Ecology and Management 2008;16(4):277-289.
    abstract available   full text available
    R829458 (2005)
  • Full-text: Springer
    Exit
  • Abstract: Springer
    Exit
  • Other: Springer
    Exit
  • Journal Article Fuiman LA, Rose KA, Cowan Jr. JH, Smith EP. Survival skills required for predator evasion by fish larvae and their relation to laboratory measures of performance. Animal Behaviour 2006;71(6):1389-1399.
    abstract available  
    R829458C009 (2005)
  • Abstract: Science Direct Abstract
    Exit
  • Journal Article Gough HL, Dahl AL, Tribou E, Noble PA, Gaillard J-F, Stahl DA. Elevated sulfate reduction in metal-contaminated freshwater lake sediments. Journal of Geophysical Research: Biogeosciences 2008;113(G4):G04037, doi:10.1029/2008JG000738.
    abstract available  
    R829458 (2005)
    R829458C004 (2003)
    R829458C004 (2004)
  • Abstract: Wiley - Abstract
    Exit
  • Journal Article Han LH, Jordan KJ. Estimating and mapping chlorophyll-a concentration in Pensacola Bay, Florida using Landsat ETM+ data. International Journal of Remote Sensing 2005;26(23):5245-5254.
    abstract available   full text available
    R829458C001 (2004)
    R829458C001 (2005)
    not available
    Journal Article Han LH. Estimating chlorophyll-a concentration using first-derivative spectra in coastal water. International Journal of Remote Sensing 2005;26(23):5235-5244
    abstract available   full text available
    R829458C001 (2004)
    R829458C001 (2005)
    not available
    Journal Article Kelly JJ, Siripong S, McCormack J, Janus LR, Urakawa H, El Fantroussi S, Noble PA, Sappelsa L, Rittmann BE, Stahl DA. DNA microarray detection of nitrifying bacterial 16S rRNA in wastewater treatment plant samples. Water Research 2005;39(14):3229-3238.
    abstract available   full text available
    R829458 (2005)
    R829458C004 (2005)
  • Abstract from PubMed
  • Full-text: Science Direct-Full Text HTML
    Exit
  • Abstract: Science Direct-Abstract
    Exit
  • Other: Science Direct-Full Text PDF
    Exit
  • Journal Article Landry CA, Steele SL, Manning S, Cheek AO. Long term hypoxia suppresses reproductive capacity in the estuarine fish, Fundulus grandis. Comparative Biochemistry and Physiology-Part A: Molecular & Integrative Physiology 2007;148(2):317-323.
    abstract available   full text available
    R829458 (2005)
  • Abstract from PubMed
  • Full-text: Science Direct
    Exit
  • Other: Science Direct
    Exit
  • Journal Article Lewitus AJ, White DL, Tymowski RG, Geesey ME, Hymel SN, Noble PA. Adapting the CHEMTAX method for assessing phytoplankton taxonomic composition in Southeastern U.S. estuaries. Estuaries 2005;28(1):160-172.
    abstract available  
    R829458 (2005)
    R829458C004 (2004)
    R829458C004 (2005)
  • Abstract: Estuarine Research Federation Abstract
    Exit
  • Journal Article Martinez ML, Landry C, Boehm R, Manning S, Cheek AO, Rees BB. Effects of long-term hypoxia on enzymes of carbohydrate metabolism in the Gulf killifish, Fundulus grandis. Journal of Experimental Biology 2006;209(19):3851-3861.
    abstract available  
    R829458C005 (2005)
  • Abstract from PubMed
  • Journal Article Morris JT, Porter D, Neet M, Noble PA, Schmidt L, Lapine LA, Jensen JR. Integrating LIDAR elevation data, multi-spectral imagery and neural network modelling for marsh characterization. International Journal of Remote Sensing 2005;26(23):5221-5234.
    abstract available   full text available
    R829458 (2005)
    R829458C004 (2003)
    R829458C004 (2005)
    R828677 (Final)
    R828677C003 (2004)
    R828677C003 (Final)
  • Full-text: Washington University - Taylor & Francis Preview
    Exit
  • Abstract: Taylor & Francis - Abstract
    Exit
  • Journal Article Moss JA, Nocker A, Lepo JE, Snyder RA. Stability and change in estuarine biofilm bacterial community diversity. Applied and Environmental Microbiology 2006;72(9):5679-5688.
    abstract available   full text available
    R829458 (2005)
    R829458C002 (2004)
    R829458C002 (2005)
  • Abstract from PubMed
  • Full-text: Applied and Environmental Microbiology-Full Text HTML
    Exit
  • Abstract: Applied and Environmental Microbiology-Abstract
    Exit
  • Other: Applied and Environmental Microbiology-Full Text PDF
    Exit
  • Journal Article Murphy CA, Rose KA, Thomas P. Modeling vitellogenesis in female fish exposed to environmental stressors: predicting the effects of endocrine disturbance due to exposure to a PCB mixture and cadmium. Reproductive Toxicology 2005;19(3):395-409.
    abstract available   full text available
    R829458C005 (2003)
    R829458C009 (2003)
    not available
    Journal Article Murphy CA, Rose KA, Alvarez MC, Fuiman LA. Modeling larval fish behavior:scaling the sublethal effects of methylmercury to population-relevant endpoints. Aquatic Toxicology 2008;86(4):470-484.
    abstract available   full text available
    R829458 (2005)
    R827399 (2001)
  • Abstract from PubMed
  • Full-text: Science Direct
    Exit
  • Abstract: Science Direct
    Exit
  • Other: Science Direct PDF
    Exit
  • Journal Article Niemi G, Wardrop D, Brooks R, Anderson S, Brady V, Paerl H , Rakocinski C, Brouwer M, Levinson B, McDonald M. Rationale for a new generation of indicators for coastal waters. Environmental Health Perspectives 2004;112(9):979-986.
    abstract available   full text available
    R829458C003 (2003)
    R829458C008 (2003)
    R829458C008 (2004)
    R828675 (2004)
    R828675 (Final)
    R828677C001 (Final)
    R828684 (Final)
  • Full-text from PubMed
  • Abstract from PubMed
  • Associated PubMed link
  • Full-text: EHP - Full Text HTML
  • Abstract: EHP
  • Other: EHP - Full Text PDF
  • Journal Article Noble PA, Tymowski RG, Fletcher M, Morris JT, Lewitus AJ. Contrasting patterns of phytoplankton community pigment composition in two salt marsh estuaries in southeastern United States. Applied and Environmental Microbiology 2003;69(7):4129-4143.
    abstract available   full text available
    R829458 (2005)
    R829458C004 (2003)
    R829458C004 (2005)
    R826944 (2000)
    R826944 (Final)
    R828677C003 (2003)
  • Full-text from PubMed
  • Abstract from PubMed
  • Associated PubMed link
  • Full-text: Applied and Environmental Microbiology-Full Text HTML
    Exit
  • Abstract: Applied and Environmental Microbiology-Abstract
    Exit
  • Other: Applied and Environmental Microbiology-Full Text PDF
    Exit
  • Journal Article Noble PA, Tribou EH. Neuroet: an easy-to-use artificial neural network for ecological and biological modeling. Ecological Modelling 2007;203(1-2):87-98.
    abstract available   full text available
    R829458 (2005)
    R829458C004 (2004)
  • Full-text: Science Direct
    Exit
  • Abstract: Science Direct
    Exit
  • Other: Science Direct PDF
    Exit
  • Journal Article Nocker A, Lepo JE, Snyder RA. Influence of an oyster reef on development of the microbial heterotrophic community of an estuarine biofilm. Applied and Environmental Microbiology 2004;70(11):6834-6845.
    abstract available   full text available
    R829458 (2005)
    R829458C002 (2003)
    R829458C002 (2004)
  • Full-text from PubMed
  • Abstract from PubMed
  • Associated PubMed link
  • Full-text: Applied and Environmental Microbiology-Full Text HTML
    Exit
  • Abstract: Applied and Environmental Microbiology-Abstract
    Exit
  • Other: Applied and Environmental Microbiology-Full Text PDF
    Exit
  • Journal Article Nocker A, Lepo JE, Martin LL, Snyder RA. Response of estuarine biofilm microbial community development to changes in dissolved oxygen and nutrient concentrations. Microbial Ecology 2007;54(3):532-542.
    abstract available  
    R829458 (2005)
    R829458C002 (2004)
  • Abstract from PubMed
  • Abstract:
    Exit
  • Journal Article Pozhitkov AE, Bailey KD, Noble PA. Development of a statistically robust quantification method for microorganisms in mixtures using oligonucleotide microarrays. Journal of Microbiological Methods 2007;70(2):292-300.
    abstract available   full text available
    R829458 (2005)
  • Abstract from PubMed
  • Full-text: Science Direct
    Exit
  • Other: Science Direct PDF
    Exit
  • Journal Article Pozhitkov AE, Tautz D, Noble PA. Oligonucleotide microarrays: widely applied—poorly understood. Briefings in Functional Genomics and Proteomics 2007;6(2):141-148.
    abstract available   full text available
    R829458 (2005)
  • Abstract from PubMed
  • Full-text: Oxford Journals
    Exit
  • Other: Oxford Journals
    Exit
  • Journal Article Pozhitkov AE, Stedtfeld RD, Hashsham SA, Noble PA. Revision of the nonequilibrium thermal dissociation and stringent washing approaches for identification of mixed nucleic acid targets by microarrays. Nucleic Acids Research 2007;35(9):e70.
    abstract available   full text available
    R829458 (2005)
  • Full-text from PubMed
  • Abstract from PubMed
  • Full-text: Oxford Journals
    Exit
  • Other: Oxford Journals PDF
    Exit
  • Journal Article Pozhitkov A, Chernov B, Yershov G, Noble PA. Evaluation of gel-pad oligonucleotide microarray technology by using artificial neural networks. Applied and Environmental Microbiology 2005;71(12):8663-8676.
    abstract available   full text available
    R829458 (2005)
    R829458C004 (2004)
    R829458C004 (2005)
  • Full-text from PubMed
  • Abstract from PubMed
  • Associated PubMed link
  • Full-text: Applied and Environmental Microbiology-Full Text HTML
    Exit
  • Abstract: Applied and Environmental Microbiology-Abstract
    Exit
  • Other: Applied and Environmental Microbiology-Full Text PDF
    Exit
  • Journal Article Pozhitkov A, Noble PA, Domazet-Loso T, Nolte AW, Sonnenberg R, Staehler P, Beier M, Tautz D. Tests of rRNA hybridization to microarrays suggest that hybridization characteristics of oligonucleotide probes for species discrimination cannot be predicted. Nucleic Acids Research 2006;34(9):e66.
    abstract available   full text available
    R829458 (2005)
    R829458C004 (2005)
  • Full-text from PubMed
  • Abstract from PubMed
  • Associated PubMed link
  • Full-text: Oxford Journals-Full Text HTML
    Exit
  • Abstract: Oxford Journals-Abstract
    Exit
  • Other: Oxford Journals-Full Text PDF
    Exit
  • Journal Article Rahman MS, Thomas P. Molecular cloning, characterization and expression of two hypoxia-inducible factor alpha subunits, HIF-1α and HIF-2α, in a hypoxia-tolerant marine teleost, Atlantic croaker (Micropogonias undulatus). Gene 2007;396(2):273-282.
    abstract available   full text available
    R829458 (2005)
  • Abstract from PubMed
  • Full-text: Science Direct
    Exit
  • Other: Science Direct PDF
    Exit
  • Journal Article Rakocinski CF. Linking allometric macrobenthic processes to hypoxia using the Peters mass balance model. Journal of Experimental Marine Biology and Ecology 2009;381(Suppl 1):S13-S20.
    abstract available   full text available
    R829458 (2005)
  • Full-text: Science Direct
    Exit
  • Abstract: Science Direct
    Exit
  • Other: Science Direct PDF
    Exit
  • Journal Article Richmond CE, Breitburg DL, Rose KA. The role of environmental generalist species in ecosystem function. Ecological Modelling 2005;188(2-4):279-295.
    abstract available   full text available
    R829458 (2005)
  • Full-text: Science Direct
    Exit
  • Abstract: Science Direct
    Exit
  • Other: Science Direct PDF
    Exit
  • Journal Article Richmond CE, Breitburg DL, Rose KA. The effect of stress tolerance on the relationship between species richness and system function. Ecological Modelling. R829458C009 (2004)
    not available
    Journal Article Rose KA, Murphy CA, Diamond SL, Fuiman LA, Thomas P. Using nested models and laboratory data for predicting population effects of contaminants on fish: a step towards a bottom-up approach for establishing causality in field studies. Human and Ecological Risk Assessment 2003;9(1):231-257.
    abstract available   full text available
    R829458C009 (2003)
    not available
    Journal Article Rose KA. Lack of relationship between simulated fish population responses and their life history traits: inadequate models, incorrect analysis, or site-specific factors?. Canadian Journal of Fisheries and Aquatic Sciences 2005;62(4):886-902 R829458C009 (2003)
    R829458C009 (2004)
    not available
    Journal Article Thomas P, Rahman MS, Kummer JA, Lawson S. Reproductive endocrine dysfunction in Atlantic croaker exposed to hypoxia. Marine Environmental Research 2006;62(Suppl 1):S249-S252.
    abstract available   full text available
    R829458C005 (2005)
    R826130 (1999)
  • Abstract from PubMed
  • Full-text: Science Direct - Full Text HTML
    Exit
  • Abstract: Science Direct
    Exit
  • Other: Science Direct - Full Text PDF
    Exit
  • Journal Article Thomas P, Rahman MS, Khan IA, Kummer JA. Widespread endocrine disruption and reproductive impairment in an estuarine fish population exposed to seasonal hypoxia. Proceedings of The Royal Society B: Biological Sciences 2007;274(1626):2693-2701.
    abstract available   full text available
    R829458 (2005)
  • Abstract from PubMed
  • Full-text: Royal Society Publishing
    Exit
  • Other: Royal Society Publishing PDF
    Exit
  • Journal Article Thomas P, Rahman MS. Biomarkers of hypoxia exposure and reproductive function in Atlantic croaker: a review with some preliminary findings from the northern Gulf of Mexico hypoxic zone. Journal of Experimental Marine Biology and Ecology 2009;381(Suppl 1):S38-S50.
    abstract available   full text available
    R829458 (2005)
  • Full-text: Science Direct
    Exit
  • Abstract: Science Direct
    Exit
  • Other: Science Direct
    Exit
  • Journal Article Thomas P, Rahman MS. Chronic hypoxia impairs gamete maturation in Atlantic croaker induced by progestins through nongenomic mechanisms resulting in reduced reproductive success. Environmental Science & Technology 2009;43(11):4175-4180.
    abstract available  
    R829458 (2005)
  • Abstract from PubMed
  • Abstract: ES&T
    Exit
  • Journal Article Urakawa H, El Fantroussi S, Smidt H, Smoot JC, Tribou EH, Kelly JJ, Noble PA, Stahl DA. Optimization of single-base-pair mismatch discrimination in oligonucleotide microarrays. Applied and Environmental Microbiology 2003;69(5):2848-2856.
    abstract available   full text available
    R829458 (2005)
    R829458C004 (2003)
    R829458C004 (2005)
  • Full-text from PubMed
  • Abstract from PubMed
  • Associated PubMed link
  • Full-text: Applied and Environmental Microbiology-Full Text HTML
    Exit
  • Abstract: Applied and Environmental Microbiology-Abstract
    Exit
  • Other: Applied and Environmental Microbiology-Full Text PDF
    Exit
  • Journal Article Yang X, Liu Z. Quantifying landscape pattern and its change in an estuarine watershed using satellite imagery and landscape metrics. International Journal of Remote Sensing 2005;26(23):5297-5323.
    abstract available   full text available
    R829458C007 (2004)
    R829458C007 (2005)
  • Abstract: Informa World Abstract
    Exit
  • Journal Article Yang XJ. Remote sensing and GIS applications for estuarine ecosystem analysis:an overview. International Journal of Remote Sensing 2005;26(23):5347-5356.
    abstract available   full text available
    R829458C007 (2004)
    R829458C007 (2005)
  • Abstract: Ingenta Connect Abstract
    Exit
  • Journal Article Yang X. Estimating landscape imperviousness with remotely sensed imagery. IEEE Geoscience and Remote Sensing Letters 2006;3(1):6-9.
    abstract available   full text available
    R829458C007 (2004)
    R829458C007 (2005)
  • Abstract: IEEE Abstract
    Exit
  • Journal Article Yang X, Lo CP. Using a time series of satellite imagery to detect land use and land cover changes in the Atlanta, Georgia metropolitan area. International Journal of Remote Sensing 2002;23(9):1775-1798 R829458C007 (2003)
    not available
    Journal Article Yang X. Geospatial technologies for coastal and estuarine ecosystem analysis: status and research priorities. Journal of Coastal Research R829458C007 (2004)
    not available
    Journal Article Yang X, Liu Z. Use of satellite-derived landscape imperviousness index to characterize urban spatial growth. Computers, Environment and Urban Systems 2005; 29(5):524-540.
    abstract available   full text available
    R829458C007 (2003)
    R829458C007 (2004)
    R829458C007 (2005)
  • Abstract: Science Direct Abstract
    Exit
  • Journal Article Yang X, Liu Z. Using satellite imagery and GIS for land-use and land-cover change mapping in an estuarine watershed. International Journal of Remote Sensing 2005;26(23):5275-5296.
    abstract available   full text available
    R829458C007 (2005)
  • Abstract: Informa World Abstract
    Exit
  • Journal Article Yang X, Liu Z. Use of remote sensing and landscape metrics to analyze estuarine landscape changing dynamics. International Journal of Remote Sensing . R829458C007 (2003)
    R829458C007 (2004)
    not available

    Supplemental Keywords:

    population, community, ecosystem, watersheds, estuary, Gulf of Mexico, nutrients, hypoxia, innovative technology, ecoindicators, biomarkers, water quality, remote sensing, geographic information systems, GIS, integrated assessment, risk assessment, fisheries, conservation, restoration., RFA, Scientific Discipline, Geographic Area, Ecosystem Protection/Environmental Exposure & Risk, Aquatic Ecosystems & Estuarine Research, Ecosystem/Assessment/Indicators, Aquatic Ecosystem, Monitoring/Modeling, Environmental Monitoring, Ecological Risk Assessment, Ecology and Ecosystems, Biology, Gulf of Mexico, Ecological Indicators, monitoring, ecoindicator, ecological exposure, estuaries, estuarine integrity, Mobile Bay, ecosystem monitoring, Galveston Bay, Apalachicola Bay, estuarine ecoindicator, benthic indicators, environmental indicators, environmental stress, water quality

    Relevant Websites:

    http://uwfgis.evr.uwf.edu/rsgisceergom/index.html Exit
    http://noble.ce.washington.edu Exit

    Progress and Final Reports:

    Original Abstract
  • 2003 Progress Report
  • 2004 Progress Report
  • 2005 Progress Report
  • 2006
  • Final
  • Subprojects under this Center: (EPA does not fund or establish subprojects; EPA awards and manages the overall grant for this center).
    R829458C001 Remote Sensing of Water Quality
    R829458C002 Microbial Biofilms as Indicators of Estuarine Ecosystem Condition
    R829458C003 Individual Level Indicators: Molecular Indicators of Dissolved Oxygen Stress in Crustaceans
    R829458C004 Data Management and Analysis
    R829458C005 Individual Level Indicators: Reproductive Function in Estuarine Fishes
    R829458C006 Collaborative Efforts Between CEER-GOM and U.S. Environmental Protection Agency (EPA)-Gulf Ecology Division (GED)
    R829458C007 GIS and Terrestrial Remote Sensing
    R829458C008 Macrobenthic Process Indicators of Estuarine Condition for the Northern Gulf of Mexico
    R829458C009 Modeling and Integration