Analyzing and comparing complex environmental time series using a cumulative sums approach.

Cumulative sums (Cusums) are a simple, efficient statistical method developed for process control and increasingly used to determine underlying features of time series. Here, two useful applications of Cusums to environmental time series are presented: Cusums in the time domain and plotting Cusum-transformed variables against non-transformed variables to extract meaning in the context of driver-response relationships. These statistical analyses are simple to conduct and provide valuable information about trends, patterns and thresholds of time-series over time and in relation to potential driver variables. In addition, this work investigates the robustness of the Cusum transform to various characteristics of environmental time series that challenge conventional statistical methods. In summary, this work presents: •Cusum methods to derive meaning from complex environmental time series.•Effects of common time series issues on the Cusums method.•Application to real-world datasets.

Changes in sediment bacterial community in response to long-term nutrient enrichment in a subtropical seagrass-dominated estuary.

Florida Bay exhibits a natural gradient of strong P limitation in the east which shifts to weak P or even N limitation at the western boundary. This nutrient gradient greatly affects seagrass abundance and productivity across the bay. We assessed the effects of N and P additions on sediment bacterial community structure in relation to the existing nutrient gradient in Florida Bay. Sediment samples from 24 permanent 0.25 m(2) plots in each of six sites across Florida Bay were fertilized with granular N and P in a factorial design for 26 months. Sediment bacterial community structure was analyzed using PCR-denaturing gradient gel electrophoresis (DGGE) analysis of 16S ribosomal RNA (rRNA) genes and a cloning strategy from DGGE bands. The phylogenetic positions of 16S rRNA sequences mostly fell into common members found in marine sediments such as sulfate-reducing Deltaproteobacteria, Gammaproteobacteria, Spirochaetes, and Bacteriodetes. Twenty-eight common DGGE bands were found in all sediment samples; however, some DGGE bands were only found or were better represented in eastern sites. Bacterial community diversity (Shannon-Weiner index) showed similar values throughout all sediment samples. The N treatment had no effect on the bacterial community structures across the bay. Conversely, the addition of P significantly influenced the bacterial community structure at all but the most western site, where P is least limiting due to inputs from the Gulf of Mexico. P additions enhanced DGGE band sequences related to Cytophagales, Ectothiorhodospiraceae, and Desulfobulbaceae, suggesting a shift toward bacterial communities with increased capability to degrade polymeric organic matter. In addition, a band related to Deferribacteres was enhanced in eastern sites. Thus, indigenous environmental conditions were the primary determining factors controlling the bacterial communities, while the addition of P was a secondary determining factor. This P-induced change in community composition tended to be proportional to the amount of P limitation obviated by the nutrient additions.

Biogeochemical classification of South Florida's estuarine and coastal waters.

South Florida's watersheds have endured a century of urban and agricultural development and disruption of their hydrology. Spatial characterization of South Florida's estuarine and coastal waters is important to Everglades' restoration programs. We applied Factor Analysis and Hierarchical Clustering of water quality data in tandem to characterize and spatially subdivide South Florida's coastal and estuarine waters. Segmentation rendered forty-four biogeochemically distinct water bodies whose spatial distribution is closely linked to geomorphology, circulation, benthic community pattern, and to water management. This segmentation has been adopted with minor changes by federal and state environmental agencies to derive numeric nutrient criteria.

The EBM-DPSER conceptual model: integrating ecosystem services into the DPSIR framework.

There is a pressing need to integrate biophysical and human dimensions science to better inform holistic ecosystem management supporting the transition from single species or single-sector management to multi-sector ecosystem-based management. Ecosystem-based management should focus upon ecosystem services, since they reflect societal goals, values, desires, and benefits. The inclusion of ecosystem services into holistic management strategies improves management by better capturing the diversity of positive and negative human-natural interactions and making explicit the benefits to society. To facilitate this inclusion, we propose a conceptual model that merges the broadly applied Driver, Pressure, State, Impact, and Response (DPSIR) conceptual model with ecosystem services yielding a Driver, Pressure, State, Ecosystem service, and Response (EBM-DPSER) conceptual model. The impact module in traditional DPSIR models focuses attention upon negative anthropomorphic impacts on the ecosystem; by replacing impacts with ecosystem services the EBM-DPSER model incorporates not only negative, but also positive changes in the ecosystem. Responses occur as a result of changes in ecosystem services and include inter alia management actions directed at proactively altering human population or individual behavior and infrastructure to meet societal goals. The EBM-DPSER conceptual model was applied to the Florida Keys and Dry Tortugas marine ecosystem as a case study to illustrate how it can inform management decisions. This case study captures our system-level understanding and results in a more holistic representation of ecosystem and human society interactions, thus improving our ability to identify trade-offs. The EBM-DPSER model should be a useful operational tool for implementing EBM, in that it fully integrates our knowledge of all ecosystem components while focusing management attention upon those aspects of the ecosystem most important to human society and does so within a framework already familiar to resource managers.

Epiphyte loads on seagrasses and microphytobenthos abundance are not reliable indicators of nutrient availability in oligotrophic coastal ecosystems.

Despite marked gradients in nutrient availability that control the abundance and species composition of seagrasses in south Florida, and the importance of nutrient availability in controlling abundance and composition of epiphytes on seagrasses in other locations, we did not find that epiphyte load on the dominant seagrass, Thalassia testudinum, or that the relative contribution of algal epiphytes to the epiphyte community, was positively correlated with nutrient availability in the water column or the sediment in oligotrophic seagrass beds. Further, the abundance of microphytobenthos, as indicated by Chlorophyll-a concentration in the sediments, was not directly correlated with concentrations of nutrients in the sediments. Our results suggest that epiphyte and microphytobenthos abundance are not unambiguous indicators of nutrient availability in relatively pristine seagrass environments, and therefore would make poor candidates for indicators of the status and trends of seagrass ecosystems in relatively low-nutrient environments like the Florida Keys.

Changes in community structure of sediment bacteria along the Florida coastal everglades marsh-mangrove-seagrass salinity gradient.

Community structure of sediment bacteria in the Everglades freshwater marsh, fringing mangrove forest, and Florida Bay seagrass meadows were described based on polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE) patterns of 16S rRNA gene fragments and by sequencing analysis of DGGE bands. The DGGE patterns were correlated with the environmental variables by means of canonical correspondence analysis. There was no significant trend in the Shannon-Weiner index among the sediment samples along the salinity gradient. However, cluster analysis based on DGGE patterns revealed that the bacterial community structure differed according to sites. Not only were these salinity/vegetation regions distinct but the sediment bacteria communities were consistently different along the gradient from freshwater marsh, mangrove forest, eastern-central Florida Bay, and western Florida Bay. Actinobacteria- and Bacteroidetes/Chlorobi-like DNA sequences were amplified throughout all sampling sites. More Chloroflexi and members of candidate division WS3 were found in freshwater marsh and mangrove forest sites than in seagrass sites. The appearance of candidate division OP8-like DNA sequences in mangrove sites distinguished these communities from those of freshwater marsh. The seagrass sites were characterized by reduced presence of bands belonging to Chloroflexi with increased presence of those bands related to Cyanobacteria, gamma-Proteobacteria, Spirochetes, and Planctomycetes. This included the sulfate-reducing bacteria, which are prevalent in marine environments. Clearly, bacterial communities in the sediment were different along the gradient, which can be explained mainly by the differences in salinity and total phosphorus.

A nutrient loading budget for Biscayne Bay, Florida.

The water quality in Biscayne Bay has been significantly affected by past and continuing coastal and watershed development. The nutrient concentrations in the Bay have been dramatically changed by the conversion of natural creeks and sheet flow freshwater inputs to rapid and episodic canal inputs from the large and rapidly expanding Miami metropolitan area. This study is an evaluation of nutrient loadings to Biscayne Bay for 1994-2002 from canal, atmospheric, and groundwater sources. Dissolved inorganic nitrogen (DIN, as nitrate, nitrite, and ammonium) and total phosphorus (TP) loadings by the canals were influenced by their geographic locations relative to discharge amount, watershed land use, stormwater runoff, and proximity to landfills. Annual budgets showed that canals contributed the bulk of N loading to the bay as 1687.2 metric ton N yr(-1) (88% total load). Direct atmospheric DIN load for Biscayne Bay was only 231.7 ton N yr(-1), based on surface area. Of the canal DIN load, nitrate+nitrite (NO(x)(-)) loading (1294.5 ton N yr(-1)) made up a much greater proportion than that of ammonium (NH(4)(+), 392.6 ton N yr(-1)). In the urbanized north and central Bay, canal DIN load was evenly split between NO(x)(-) and NH(4)(+). However, in the south, 95% of the DIN load was in the form of NO(x)(-), reflecting the more agricultural land use. Contrary to N, canals contributed the only 66% of P load to the bay (27.5 ton P yr(-1)). Atmospheric TP load was 14 ton Pyr(-1). In the north, canal P load dominated the budget while in the south, atmospheric load was almost double canal load. Groundwater inputs, estimated only for the south Bay, represented an important source of N and P in this zone. Groundwater input of N (141 ton N yr(-1)) was about equal to atmospheric load, while P load (5.9 ton P yr(-1)) was about equal to canal load.

Spatial patterning of water quality in Biscayne Bay, Florida as a function of land use and water management.

An objective classification analysis was performed on a water quality data set from 25 sites collected monthly during 1994-2003. The water quality parameters measured included: TN, TON, DIN, NH4+, NO3-, NO2-, TP, SRP, TN:TP ratio, TOC, DO, CHL A, turbidity, salinity and temperature. Based on this spatial analysis, Biscayne Bay was divided into five zones having similar water quality characteristics. A robust nutrient gradient, driven mostly by dissolved inorganic nitrogen, from alongshore to offshore in the main Bay, was a large determinant in the spatial clustering. Two of these zones (Alongshore and Inshore) were heavily influenced by freshwater input from four canals which drain the South Dade agricultural area, Black Point Landfill, and sewage treatment plant. The North Bay zone, with high turbidity, phytoplankton biomass, total phosphorus, and low DO, was affected by runoff from five canals, the Munisport Landfill, and the urban landscape. The South Bay zone, an embayment surrounded by mangrove wetlands with little urban development, was high in dissolved organic constituents but low in inorganic nutrients. The Main Bay was the area most influenced by water exchange with the Atlantic Ocean and showed the lowest nutrient concentrations. The water quality in Biscayne Bay is therefore highly dependent of the land use and influence from the watershed.