Understanding ecological response to physical characteristics in side channels of a large floodplain-river ecosystem

Side channels in large floodplain rivers serve a variety of important ecological roles, particularly in reaches where habitat conditions have been degraded or diminished. We developed hypotheses regarding side channel ecological structure whereby we expected species richness of young-of-year fishes to generally be higher in shallower, more physically heterogeneous side channels with lower velocities, with differences based on reproductive guild. We also hypothesized species richness of adult fishes to be higher in side channels with greater heterogeneity that could support diverse foraging resources and provide refugia during extreme flow conditions. To test these hypotheses, we used a 28-year fish community dataset from the Upper Mississippi and Illinois Rivers. Across six study reaches, we assessed metrics of side channel physical size, heterogeneity, and connectivity that were hypothesized to explain variance of fish community response, while accounting for site-level factors across 52 side channels using multilevel models. We then used these side channel-level characteristics in a K-means cluster analysis to classify 1126 side channels across 32 reaches of the river system. Our results indicated that the relative explanatory contributions of physical metrics varied by response variable, providing varying evidence in support of our hypotheses, and indicating that different forms of heterogeneity matter in different ways. Side channel-level factors were more explanatory of fish community responses in side channels of upstream reaches compared to downstream reaches and percent wet forest was the most explanatory side channel-level factor of fish community responses across all models. Our classification of side channels indicated strong spatial contrasts in the abundance and diversity of side channels across reaches. Scaling up to understand how the diversity and abundance of different types of side channels contributes to landscape-scale ecological functions and processes would be useful for establishing targets for reach-scale physical heterogeneity.

Total ammonia and coliform concentrations at the end of the Mississippi River from 1900 to 2019

Total ammonia (TA) concentrations (NH_{3 +} NH₄⁺) at four locations at the terminal end of the Mississippi River, the largest river on the North American continent, were assembled to examine trends and relationships with point and non-point loadings from 1980 to 2019 and compared to values in 1900 to 1901. TA concentrations were lowest in 1900 to 1901, highest in 1980 and then declined, and then rose slightly in the last 2 decades. Variations in individual measurements and in situ temperature are indirectly related because of the influence temperature has on ammonia solubility and protein degradation rates. Importantly, the average annual concentrations of TA were directly related to both total coliform and fecal coliform densities. The highest measured average annual TA concentrations in the river (15.5 ± 1.5 SE µmol in 1985) were below the currently recommended toxicity thresholds for freshwater aquatic ecosystems. Sewerage loadings are implicated as controlling factors on TA concentrations, not nitrogen stabilizers added to fertilizers to reduce ammonia conversion to nitrate, nor the fertilizer loadings.

Beneficial use of dredged sediment as a sustainable practice for restoring coastal marsh habitat

Coastal Louisiana (USA) continues to sustain immense land and habitat losses due to subsidence, sea-level rise, and storm events. Approximately 65 million m³ (85 million cubic yards) of sediment is dredged annually from Gulf Coast federal navigation channels to maintain safe waterway passage. The beneficial use of these sediments continues to increase, and now this sediment is recognized as a critical resource in large-scale (estimated multibillion dollar) ecosystem restoration efforts to mitigate land and habitat losses along the US Gulf Coast. However, the documentation of restoration benefits where dredged sediments are the primary resource is lacking, which limits the potential for future applications. Therefore, this study documents the progress to restore marsh habitat and the resultant benefits in West Bay, Louisiana, and investigates how the restoration practices align with principles of the US Army Corps of Engineers (USACE) Engineering with Nature^® (EWN^® ) and UN Sustainable Development Goals (UN SDGs). West Bay, a 4964-ha subdelta adjacent to the Mississippi River, typifies risks of coastal land loss that also threatens the integrity of the adjacent federal navigation channel. To help restore coastal marsh habitat on a large spatial and temporal scale, the USACE constructed an uncontrolled diversionary channel from the Mississippi River and with subsequent direct and strategic placement of dredged sediment. Restoration performance was assessed through remotely sensed methods using data spanning approximately 70 years. To date, placement of dredged sediment in the bay has facilitated the creation of over 800 ha of new land in the formerly open waters of West Bay. The West Bay restoration project aligns with the principles of the EWN initiative, which supports more sustainable practices to deliver economic, environmental, and social benefits through collaborative processes and meaningfully integrates 10 of the UN SDGs designed to achieve a better and more sustainable future. Integr Environ Assess Manag 2022;18:1162-1173. Published 2021. This article is a U.S. Government work and is in the public domain in the USA.

Resisting-Accepting-Directing: Ecosystem Management Guided by an Ecological Resilience Assessment

As anthropogenic influences push ecosystems past tipping points and into new regimes, complex management decisions are complicated by rapid ecosystem changes that may be difficult to reverse. For managers who grapple with how to manage ecosystems under novel conditions and heightened uncertainty, advancing our understanding of regime shifts is paramount. As part of an ecological resilience assessment, researchers and managers have collaborated to identify alternate regimes and build an understanding of the thresholds and factors that govern regime shifts in the Upper Mississippi River System. To describe the management implications of our assessment, we integrate our findings with the recently developed resist-accept-direct (RAD) framework that explicitly acknowledges ecosystem regime change and outlines management approaches of resisting change, accepting change, or directing change. More specifically, we developed guidance for using knowledge of desirability of current conditions, distance to thresholds, and general resilience (that is, an ecosystem's capacity to cope with uncertain disturbances) to navigate the RAD framework. We applied this guidance to outline strategies that resist, accept, or direct change in the context of management of aquatic vegetation, floodplain vegetation, and fish communities across nearly 2000 river kilometers. We provide a case study for how knowledge of ecological dynamics can aid in assessing which management approach(es) are likely to be most ecologically feasible in a changing world. Continued learning from management decisions will be critical to advance our understanding of how ecosystems respond and inform the management of ecosystems for desirable and resilient outcomes.

Gene flow influences the genomic architecture of local adaptation in six riverine fish species

Understanding how gene flow influences adaptive divergence is important for predicting adaptive responses. Theoretical studies suggest that when gene flow is high, clustering of adaptive genes in fewer genomic regions would protect adaptive alleles from recombination and thus be selected for, but few studies have tested it with empirical data. Here, we used restriction site-associated sequencing to generate genomic data for six fish species with contrasting life histories from six reaches of the Upper Mississippi River System, USA. We used four differentiation-based outlier tests and three genotype-environment association analyses to define neutral single nucleotide polymorphisms (SNPs) and outlier SNPs that were putatively under selection. We then examined the distribution of outlier SNPs along the genome and investigated whether these SNPs were found in genomic islands of differentiation and inversions. We found that gene flow varied among species, and outlier SNPs were clustered more tightly in species with higher gene flow. The two species with the highest overall F_ST (0.0303-0.0720) and therefore lowest gene flow showed little evidence of clusters of outlier SNPs, with outlier SNPs in these species spreading uniformly across the genome. In contrast, nearly all outlier SNPs in the species with the lowest F_ST (0.0003) were found in a single large putative inversion. Two other species with intermediate gene flow (F_ST  ~ 0.0025-0.0050) also showed clustered genomic architectures, with most islands of differentiation clustered on a few chromosomes. Our results provide important empirical evidence to support the hypothesis that increasingly clustered architecture of local adaptation is associated with high gene flow.

Comparative riverscape genomics of the rainbow darter (Etheostoma caeruleum) in glaciated and unglaciated environments

Periodic glaciation during the Quaternary period shaped the contemporary riverscape and distribution of freshwater fishes in the Mississippi River drainage of central North America. The rainbow darter (Etheostoma caeruleum) is a member of this ichthyofauna and has a disjunct distribution in glaciated and unglaciated environments west of the Mississippi River. Based on glacial history of the region, there are different expectations on the observed spatial genetic structure of populations in these environments. The aim of this study was to utilize genome-wide SNP data to compare the population genomic structure of the rainbow darter in river networks with disparate glacial histories; the Volga River in the glaciated upper Mississippi River basin and the Meramec River in the unglaciated Ozark Plateau. Individuals were sampled from localities within each river system at distances dictated by the organismal life history and habitat preferences. Riverscape analyses were performed on three datasets: total combined localities of both rivers and one for each river independently. The results revealed a lasting influence of historic glaciation on the population genomic structure of rainbow darter populations. There was evidence of population expansion into the glaciated northern region following glacial retreat. The population genetic signature within the Volga River did not fit expectations of the stream hierarchy model, but revealed a pattern of repeated colonization and extirpation due to cyclic glaciation. The population within the unglaciated Meramec River adhered to the stream hierarchy model, with a directional order of genetic diversity based on the life history and habitat preferences of the species. These results demonstrate the importance of considering the geologic and climatic history of a region as well as the life history of an organism when interpreting spatial genetic patterns.

Declining bacteria, lead, and sulphate, and rising pH and oxygen in the lower Mississippi River

Various air and water pollution issues in the US were confronted in the last 60 years using national policy legislation, notably the Clean Water Act and the Clean Air Act. I examine changes in the concentrations of bacteria, oxygen, lead, and sulphate at the terminus of the Mississippi River before and after these pollution abatement efforts. Microbial concentrations increased or were stable from 1909 to 1980 but decreased about 3 orders of magnitude after the 1970s, while the average oxygen content increased. A large decline in lead concentration occurred after the 1960s, along with a less dramatic decline in sulphate concentrations. The pH of the river dropped to a low of 5.8 in 1965 as sulfur dioxide emissions peaked and averaged 8.2 in 2019 after emissions declined. Decades of efforts at a national scale created water quality improvements and are an example for addressing new and existing water quality challenges.

Characterization of common phytoplankton on the Louisiana shelf

Phytoplankton and accompanying environmental data (temperature, salinity, secchi depth, stratification, and inorganic nutrients) were analyzed from 672 surface water samples (0 to 1.5 m depth) collected from 95 stations located on the Louisiana shelf between April 1990 and August 2011. Phytoplankton were identified to the lowest practical taxonomic unit from glutaraldehyde-preserved samples using epifluorescent microscopy and reported as cells L^-1. Twenty-six phytoplankton taxa (primarily diatoms) that were > 8 μm in size, identified to genus-level resolution and ranked in the top 20 in at least one of three separate categories (average abundance; frequency of occurrence; and bloom frequency) were used in subsequent analyses. Temperature, stratification, and secchi depth constituted the environmental variable combination best related to the phytoplankton community composition patterns across the 672 samples (r = 0.288; p < 0.01) according to BEST analysis (PRIMER 7). The environmental optima of the 26 taxa were calculated using the weighted-averaging algorithm in the C2 program and then used to group the taxa into common phytoplankton clusters (i.e., niches) using PRIMER 7 CLUSTER. The phytoplankton clustered into three groups: Group A (summer assemblage), Group B (winter assemblage), and Group C (spring bloom assemblage). The results demonstrate that the composition of the phytoplankton community is most related to seasonality and physical variables, whereas nutrients appear to play a larger role in driving overall phytoplankton biomass. This study provides a platform to examine phytoplankton responses to future environmental perturbations in the region.

Patterns and Trends of Polybrominated Diphenyl Ethers in Bald Eagle Nestlings in Minnesota and Wisconsin, USA

We measured concentrations of up to 17 polybrominated diphenyl ethers (PBDEs) in plasma of 492 bald eagle (Haliaeetus leucocephalus) nestlings between 1995 and 2017 from 12 study areas in Wisconsin and Minnesota, USA. Geometric mean concentrations of the sum of 9 PBDE congeners (∑PBDE) measured across all years ranged from 2.88 to 10.8 µg/L, and nestlings in urban areas had higher concentrations than those in remote locations. Region-wide from 2006 through 2017, we found that ∑PBDEs declined by 3.8% annually and congeners BDE-47, -99, and -100 declined by 5.6 to 6.5%, whereas BDE-153 and -154 had no significant declines. When categorized by waterbody type, nestlings from Great Lakes and river study areas had higher concentrations of ∑PBDEs than those at inland lakes, but river study areas spanned the extremes. From 2006 to 2017, ∑PBDEs declined by 7.3% annually in Great Lakes nestlings and by 3.2% in nestlings along rivers, and increased by 32.7% at inland lakes. Using a longer dataset (1995-2015), we found that ∑PBDEs declined in Lake Superior nestlings by 3.3% annually. Our results show that PBDEs declined in bald eagle nestling plasma in most study areas since PBDE production was reduced, but that concentrations remain high near urban centers and that trends differ by congener, study area, and waterbody type. Environ Toxicol Chem 2021;40:1606-1618. © 2021 The Authors. Environmental Toxicology and Chemistry published by Wiley Periodicals LLC on behalf of SETAC.

Urocleidus sayani n. sp. (Monogenea: Dactylogyridae) from Gills of Pirate Perch (Aphredoderus sayanus)

Urocleidus sayani n. sp. is described from the gills of pirate perch (Aphredoderus sayanus) in the Wisconsin backwaters of the upper Mississippi River and was found in samples from the Southeastern United States. Urocleidus sayani n. sp. is the second monogenean described from the pirate perch and the first for this host within Dactylogyridae. The description includes a partial 18S rRNA gene sequence (623 bp), filling a void in sequence data from North American monogeneans.

Resilience of the zooplankton community in the northeast Gulf of Mexico during and after the Deepwater Horizon oil spill

We evaluated the resilience of the zooplankton community to the Deepwater Horizon oil spill in the northeast Gulf of Mexico, by assessing abundance, biomass, spatial distribution, species composition, and diversity indices during spring, summer, and winter, May 2010 to August 2014. SEAMAP samples collected between spring and summer 2005-2009 were analyzed as a baseline. Our results did not indicate that there was a long-term impact from the oil spill, but did demonstrate that environmental variability and riverine processes strongly governed zooplankton community dynamics. Zooplankton abundances during the oil spill (spring 2010) were not significantly different from abundances during spring 2011 and 2012. Summer 2010 abundances were the highest observed for the 2005 to 2014 period, due to high river discharge, high chlorophyll, and aggregation in eddies. High densities of the dinoflagellate, Noctiluca, during the oil spill, and the copepod, Centropages velificatus, and larvaceans in all years, suggest that these taxa warrant further investigation. Ecosystem connectivity (zooplankton transport by currents into the oil spill region), high fecundity, relatively short generation times, and refugia in deeper depths are key factors in zooplankton resilience to major perturbations. This study serves as a baseline for assessment of future impacts to this system.

Using Socioenvironmental Report Cards as a Tool for Transdisciplinary Collaboration

The process of developing a socioenvironmental report card through transdisciplinary collaboration can be used in any system and can provide the foundation for collaborative solutions for sustainable resource management by creating a holistic assessment that balances environmental, economic, and social concerns that incorporates multiple perspectives from multisectoral actors. We demonstrated this in the Mississippi River watershed, USA with the ultimate goal of promoting holistic management of the region's natural resources. But working at the scale of the Mississippi River watershed presents the challenge of working across geographical, organizational, and disciplinary boundaries. The development of a socioenvironmental report card served as the focus for efforts to foster a shared vision among diverse stakeholders in the watershed and to promote transdisciplinary collaboration. The process engaged more than 700 participants from environment, flood control, transportation, water supply, economy, and recreation sectors, from more than 400 organizations representing local, state, and federal government agencies, businesses and trade associations, and private, nonprofit, and academic institutions. This broad engagement in the selection of important themes, indicators, measures, and assessment methods as part of the cocreation of boundary objects aimed to foster social and mutual learning and to develop common understanding and shared visioning among stakeholders with differing perspectives. The process was facilitated by boundary-spanning organizations, creating an atmosphere of trust by utilizing "third places" for knowledge exchange and integration. This transdisciplinary process also led to collective action through collaboration and selection of restoration and management activities that could improve conditions for multiple sectors simultaneously and/or recognize potential tradeoffs for informed decision making. Integr Environ Assess Manag 2020;16:494-507. © 2020 The Authors. Integrated Environmental Assessment and Management published by Wiley Periodicals, Inc. on behalf of Society of Environmental Toxicology & Chemistry (SETAC).

Single-Pot Method for the Collection and Preparation of Natural Water for Microplastic Analyses: Microplastics in the Mississippi River System during and after Historic Flooding

We describe a simple single-pot method for collection and preparation of natural water for microplastic analyses. The method prepares samples in the same vessel (mason jars) that they are collected in right up until the microplastics are transferred onto filters or spectroscopic windows for analyses. The method minimized contamination, degradation, and losses, while increasing recoveries and throughput when compared with conventional sieving. We applied it to surface grab samples collected from the Mississippi River and its major tributaries during and after historic flooding in 2019. Microplastics (>~30 µm) were quantified using Nile red fluorescence detection, and a small subset of samples were identified by micro-Fourier transform infrared imaging spectroscopy. Concentrations were lower during the flooding, likely due to dilution. Concentrations ranged from approximately 14 microplastics/L in the Tennessee River during flooding to approximately 83 microplastics/L in the Ohio River during low-flow (summer) conditions. Loads of microplastics tended to increase downriver and ranged from approximately 87 to approximately 129 trillion microplastics/d near New Orleans. Most of the microplastics (>60%) were in the lower size fraction (~30-90 µm) and consisted primarily of fragments (~85%), followed by fibers (~8%) and beads (~7%), with polyester, polyethylene, polypropylene, and polyacrylate as the primary microplastic types. Overall, we demonstrate that the single-pot method is effective and versatile and, because it uses relatively inexpensive and easily assembled materials, can be adapted for microplastic surveys worldwide, especially those involving sample collection by volunteers from the community and schools. Environ Toxicol Chem 2020;39:986-995. © 2020 SETAC.

Biogeographic barriers, Pleistocene refugia, and climatic gradients in the southeastern Nearctic drive diversification in cornsnakes (Pantherophis guttatus complex)

The southeastern Nearctic is a biodiversity hotspot that is also rich in cryptic species. Numerous hypotheses (e.g., vicariance, local adaptation, and Pleistocene speciation in glacial refugia) have been tested in an attempt to explain diversification and the observed pattern of extant biodiversity. However, previous phylogeographic studies have both supported and refuted these hypotheses. Therefore, while data support one or more of these diversification hypotheses, it is likely that taxa are forming within this region in species-specific ways. Here, we generate a genomic data set for the cornsnakes (Pantherophis guttatus complex), which are widespread across this region, spanning both biogeographic barriers and climatic gradients. We use phylogeographic model selection combined with hindcast ecological niche models to determine regions of habitat stability through time. This combined approach suggests that numerous drivers of population differentiation explain the current diversity of this group of snakes. The Mississippi River caused initial speciation in this species complex, with more recent divergence events linked to adaptations to ecological heterogeneity and allopatric Pleistocene refugia. Lastly, we discuss the taxonomy of this group and suggest there may be additional cryptic species in need of formal recognition.

Bluegill Picornavirus isolated from a mortality event involving Bluegill (Lepomis macrochirus) in the upper Mississippi River

A mortality event involving an estimated 1,000 adult bluegills (Lepomis macrochirus) was observed in an ice-covered backwater lake of the upper Mississippi River near Alma, Wisconsin, in December of 2017. Macroscopic signs of disease included abdominal distension due to fluid accumulation within the internal organs as well as external and internal haemorrhaging. Histological evaluation revealed chronic peritonitis with peritoneal adhesions in all fish examined. Kidney, spleen and ascites fluid samples were collected from diseased bluegills and examined for the presence of pathogens. Bluegill picornavirus (BGPV) was isolated using tissue cell culture methods utilizing a recently developed, uncharacterized bluegill fry cell line (BF-4), and the presence of this virus was confirmed through molecular identification. The current geographic range, known susceptible hosts as well as historical epizootics associated with BPGV is discussed. The ability of BGPV to cause significant mortality in wild fish further emphasizes the importance of monitoring both wild and hatchery populations for this pathogen.

Mercury bioaccumulation in tilefish from the northeastern Gulf of Mexico 2 years after the Deepwater Horizon oil spill: Insights from Hg, C, N and S stable isotopes

Mercury (Hg) concentration in fish of the Gulf of the Mexico (GoM) is a major concern due to the importance of the GoM for U.S. fisheries. The Deepwater Horizon (DWH) oil spill in April 2010 in the northern GoM resulted in large amounts of oil and dispersant released to the water column, which potentially modified Hg bioaccumulation patterns in affected areas. We measured Hg species (methylmercury (MMHg) and inorganic Hg (IHg)) concentrations, and light (C, N and S) and Hg stable isotopes in muscle and liver tissues from tilefish (Lopholatilus chamaleonticeps) sampled in 2012 and 2013 along the shelf break of the northeastern GoM. Fish located close to the mouth of the Mississippi River (MR) and northwest of the DWH well-head (47 km) showed significantly lower Hg levels in muscle and liver than fish located further northeast of the DWH (>109 km), where 98% of tilefish had Hg levels in the muscle above US consumption advisory thresholds (50% for tilefish close to the DWH). Differences in light and Hg stable isotopes signatures were observed between these two areas, showing higher δ¹⁵N, and lower δ²⁰²Hg, Δ¹⁹⁹Hg and δ³⁴S in fish close to the DWH/MR. This suggests that suspended particles from the MR reduces Hg bioavailability at the base of the GoM food chains. This phenomenon can be locally enhanced by the DWH that resulted in increased particles in the water column as evidenced by the marine snow layer in the sediments. On the other hand, freshly deposited Hg associated with organic matter in more oligotrophic marine waters enhanced Hg bioaccumulation in local food webs. Comparing Hg isotopic composition in liver and muscle of fish indicates specific metabolic response in fish having accumulated high levels of MMHg.

Extended Water-Level Drawdowns in Dammed Rivers Enhance Fish Habitat: Environmental Pool Management in the Upper Mississippi River

Environmental Pool Management (EPM) can improve ecosystem function in rivers by restoring aspects of the natural flow regime lost to dam construction. EPM recreates summer baseflow conditions and promotes the growth of terrestrial vegetation which is inundated in the fall, thereby improving habitat heterogeneity for many aquatic taxa. A three-year experiment was conducted wherein terrestrial floodplain areas were dewatered through EPM water-level reductions and the resulting terrestrial vegetation was (1) allowed to remain or (2) removed in paired plots in Mississippi River pool 25. Fish assemblage and abundance were quantified in paired plots after inundation. Abundances of many fish species were greater in vegetated plots, especially for species that utilize vegetation during portions of their life history. Fish assemblages varied more between plot types when the magnitude of EPM water-level drawdowns was greater, which produced greater vegetation growth. Young-of-year individuals, especially from small, early maturing species and/or species reliant on vegetation for refuge, feeding, or life history, utilized vegetated plots more than devegetated plots. Vegetation growth produced under EPM was heavily used by river fishes, including young-of-year individuals, which may ultimately positively influence recruitment. Increased habitat heterogeneity may mitigate some of the negative impacts of dam construction and water-level regulation on river fishes. Annual variability in vegetation responses that occurs under EPM enhances natural environmental variability which could ultimately contribute to increased fish diversity. Low-cost programs like EPM can be implemented as a part of adaptive management plans to help maintain biodiversity and ecosystem health in anthropogenically altered rivers.

At the confluence of vicariance and dispersal: Phylogeography of cavernicolous springtails (Collembola: Arrhopalitidae, Tomoceridae) codistributed across a geologically complex karst landscape in Illinois and Missouri

The processes of vicariance and dispersal are central to our understanding of diversification, yet determining the factors that influence these processes remains a significant challenge in evolutionary biology. Caves offer ideal systems for examining the mechanisms underlying isolation, divergence, and speciation. Intrinsic ecological differences among cavernicolous organisms, such as the degree of cave dependence, are thought to be major factors influencing patterns of genetic isolation in caves. Using a comparative phylogeographic approach, we employed mitochondrial and nuclear markers to assess the evolutionary history of two ecologically distinct groups of terrestrial cave-dwelling springtails (Collembola) in the genera Pygmarrhopalites (Arrhopalitidae) and Pogonognathellus (Tomoceridae) that are codistributed in caves throughout the Salem Plateau-a once continuous karst region, now bisected by the Mississippi River Valley in Illinois and Missouri. Contrasting phylogeographic patterns recovered for troglobiotic Pygmarrhopalites sp. and eutroglophilic Pogonognathellus sp. suggests that obligate associations with cave habitats can restrict dispersal across major geographic barriers such as rivers and valleys, but may also facilitate subterranean dispersal between neighboring cave systems. Pygmarrhopalites sp. populations spanning the Mississippi River Valley were estimated to have diverged 2.9-4.8 Ma, which we attribute to vicariance resulting from climatic and geological processes involved in Mississippi River Valley formation beginning during the late Pliocene/early Pleistocene. Lastly, we conclude that the detection of many deeply divergent, morphologically cryptic, and microendemic lineages highlights our poor understanding of microarthropod diversity in caves and exposes potential conservation concerns.

Investigation of an early season river flood pulse: Carbon cycling in a subtropical estuary

The January 2016 Bonnet Carré Spillway (BCS) opening resulted in a large-scale Mississippi River (MR) flood discharge that qualitatively and quantitatively impacted the dissolved organic matter (DOM) cycling in the Lake Pontchartrain Estuary (LPE) located in Louisiana, USA. This early season flood event was a result of the delay of snow formation caused by warmer than normal watershed temperatures. During the diversion period and the subsequent weeks, the LPE water temperature remained lower than pre-flood water temperatures, suppressing carbon cycling. Following that period, the water temperature increased, leading to an increase in the rate of abiotic and biological carbon processing (i.e., mineralization, degradation, and consumption). There were multiple and abnormally high discharges into LPE from the northern tributaries, totaling 43% of the MR flood discharge. As a secondary DOM source, the northern tributaries discharge was qualitatively and quantitatively different from the discharge originating from the river or estuarine sources. The dominant DOM source was determined using satellite images in conjunction with UV-Vis, fluorescence EEMs, and PARAFAC indicators. Overall, the three sources (MR, northern tributaries, and LPE) characteristics were identified by UV-Vis, fluorescence EEMs, and PARAFAC parameters, namely: i) spectral slope (S₂₇₅), serving as an indicator of lignin-like compounds' molecular weights, with a trend of MR > northern tributaries > LPE; ii) biological index (BIX), indicating freshness of DOM, with a trend of LPE > MR > northern tributaries; and iii) Fluorophore T intensity, serving as an indicator of the amount of terrestrial-like sourced DOM, with a trend of northern tributaries > LPE > MR. It was possible to identify DOM sources and monitor DOM transformation in the water column, increasing our understanding of DOM, carbon, and nitrogen ecological processing.

(Monogenea: Dactylogyridae) from flathead catfish (Pylodictis olivaris) in the upper Mississippi River, including remarks on taxonomy influencing monogenean treatment regulation in the United States

Ligictaluridus michaelalicea n. sp. (Monogenea: Dactylogyridae, Ancyrocephalinae) is described from the gills of Pylodictis olivaris (Siluriformes: Ictaluridae) from Wisconsin and Iowa portions of the upper Mississippi River. Diagnostic features include a relatively large, strongly curved tubular cirrus with minor terminal flare; an accessory piece with a prominent basal lobe and a simple, thick terminal limb featuring a thin lateral flange and blunt distal tip devoid of recurved hooks. The sinistral vagina, two prostatic reservoirs, and a terminal seminal vesicle of the vas deferens are prominent. The anchors, ventral and dorsal bars, and hooks are similar in overall form to those of other members of the genus. The description includes sequence data for the 18S rRNA gene, which aligned most closely with species of ancyrocephaline monogeneans, with the highest similarity being with Ligictaluridus pricei (Mueller, 1936). Other monogenean species identified from the flathead catfish examined included L. pricei and Ligictaluridus mirabilis (Mueller, 1937). L. michaelalicea n. sp. is the fourth species to be described from P. olivaris within its natural range in central and eastern North America. Implications resulting from taxonomic name changes, including species of Ligictaluridus, and United States Food and Drug Administration treatment regulations are discussed. An updated key to species of the genus Ligictaluridus is presented.

Spatial and temporal trends of poly- and perfluoroalkyl substances in fish fillets and water collected from pool 2 of the Upper Mississippi River

In 2011, poly- and perfluoroalkyl substances (PFASs) were analyzed in surface water and fish fillet samples taken from Pool 2 of the Upper Mississippi River, a 33-mile stretch inclusive of the Minneapolis/St. Paul, Minnesota (USA) metropolitan area. Approximately 100 each of bluegill, freshwater drum, smallmouth bass, and white bass were sampled within the study area. Surface water samples were also collected from each of the 10 sampling reaches established for the study. Water and fillet samples were analyzed for perfluorinated carboxylic acids (C4-C12), perfluorinated sulfonic acids (C4, C6, and C8), and perfluorooctane sulfonamide. Perfluorooctane sulfonate (PFOS) was observed with the greatest frequency in fish fillets and ranged from 3.0 to 760 ng/g wet weight. Mean (geometric) PFOS concentrations in bluegill, freshwater drum, smallmouth bass, and white bass were 20, 28, 29, and 58 ng/g wet weight, respectively. When compared with fish data collected in 2009, a significant reduction (p < 0.05) in PFOS concentrations was noted. This finding was confirmed based on data from studies conducted in 2012 and 2013. Overall, between 2009 and 2013, PFOS concentrations decreased by 65, 76, and 50% for bluegill, freshwater drum, and white bass, respectively (44% decrease for smallmouth bass from 2009 to 2012). These declines in fish PFOS concentrations are consistent with ongoing efforts to effectively control sources of PFASs to the Mississippi River. Environ Toxicol Chem 2017;36:3138-3147. © 2017 SETAC.

Concentrations of select dissolved trace elements and anthropogenic organic compounds in the Mississippi River and major tributaries during the summer of 2012 and 2013

The Mississippi River drainage basin includes the Illinois, Missouri, Ohio, Tennessee, and Arkansas rivers. These rivers drain areas with different physiography, population centers, and land use, with each contributing a different suites of metals and wastewater contaminants that can affect water quality. In July 2012, we determined 18 elements (Be, Rb, Sr, Cd, Cs, Ba, Tl, Pb, Mg, Al, V, Cr, Mn, Fe, Co, Ni, Cu, Zn) and chlorophyll-a (Chl-a) in the five major tributaries and in the Upper Mississippi River. The following summer, we determined both trace elements and 25 trace organic compounds at 10 sites in a longitudinal study of the main stem of the Mississippi River from Grafton, Illinois to Natchez, Mississippi. We detected wastewater contaminants, including pharmaceuticals and endocrine disrupting compounds, throughout the river system, with the highest concentrations occurring near urban centers (St. Louis and Memphis). Concentrations were highest for atrazine (673 ng L^-1), DEET (540 ng L^-1), TCPP (231 ng L^-1), and caffeine (202 ng L^-1). The Illinois, Missouri, and Yazoo rivers, which drain areas with intense agriculture, had relatively high concentrations of Chl-a and atrazine. However, the Ohio River delivered higher loads of contaminants to the Mississippi River, including an estimated 177 kg day^-1 of atrazine, due to higher flow volumes. Concentrations of heavy metals (Ni, V, Co, Cu, Cd, and Zn) were relatively high in the Illinois River and low in the Ohio River, although dissolved metal concentrations were below US EPA maximum contaminant levels for surface water. Multivariate analysis demonstrated that the rivers can be distinguished based on elemental and contaminant profiles.

Lake sturgeon Acipenser fulvescens and shovelnose sturgeon Scaphirhynchus platorynchus environmental life history revealed using pectoral fin-ray microchemistry: implications for interjurisdictional conservation through fishery closure zones

This study inferred that the majority of shovelnose sturgeon Scaphirhynchus platorynchus captured in the upper Mississippi River probably originated from locations outside the upper Mississippi River (Missouri River, middle Mississippi River); whereas, lake sturgeon Acipenser fulvescens exhibit infrequent movement outside of the upper Mississippi River, but may move throughout these interconnected large rivers at various life stages. By using pectoral fin-ray microchemistry (a non-lethal alternative to using otoliths), it is suggest that interjurisdictional cooperation will probably be needed to ensure sustainability of the S. platorynchus commercial fishery and the success of A. fulvescens reintroduction in the upper Mississippi River. Additionally, fin-ray microchemistry can provide invaluable data to make informed management decisions regarding large river fishes, that cross jurisdictional boundaries or that move outside of closure zones, without causing further mortality to compromised fish populations (e.g. threatened and endangered species).

from flathead catfish (Pylodictis olivaris) in the upper Mississippi River

A novel species of Henneguya was isolated from flathead catfish (Pylodictis olivaris) captured in the upper Mississippi River near Lansing (Allamakee County), IA, and La Crosse (La Crosse County), WI. Designated Henneguya laseeae n. sp., this novel species is described using critical morphological features, histology, and 18S ribosomal RNA gene sequence. Ovoid cysts, ranging from 1200 to 1800 μm in width, tended to be at filament tips or in the distal third, often directly on the filament midline, but occasionally paramedian. Lanceolate-shaped myxospores were consistent with those of the genus Henneguya. The spore body was 16.2 ± 0.5 μm (mean ± standard deviation; range = 15.1-17.0 μm) in length, 6.0 ± 0.4 μm (5.1-6.6 μm) in width, and 4.7 ± 0.2 μm (4.4-4.9 μm) thick. The two polar capsules at the anterior of the spore body were 5.9 ± 0.3 μm (5.3-6.3 μm) in length and 1.8 ± 0.1 μm (1.6-2.1 μm) in width and contained six to seven turns in the polar filament. The caudal processes tapered to fine points and were 54.3 ± 2.9 μm (49.1-61.7 μm) in length. Total spore length was 70.4 ± 3.3 μm (64.5-79.4 μm). The spores and plasmodium of this species are of similar size and morphology to other species of Henneguya from ictalurid fishes. Additionally, the 18S rRNA gene sequences placed this isolate within a clade populated by Henneguya spp. from North American ictalurids. This is the first reported species of Henneguya from flathead catfish.

Mississippi River Plume Enriches Microbial Diversity in the Northern Gulf of Mexico

The Mississippi River (MR) serves as the primary source of freshwater and nutrients to the northern Gulf of Mexico (nGOM). Whether this input of freshwater also enriches microbial diversity as the MR plume migrates and mixes with the nGOM serves as the central question addressed herein. Specifically, in this study physicochemical properties and planktonic microbial community composition and diversity was determined using iTag sequencing of 16S rRNA genes in 23 samples collected along a salinity (and nutrient) gradient from the mouth of the MR, in the MR plume, in the canyon, at the Deepwater Horizon wellhead and out to the loop current. Analysis of these datasets revealed that the MR influenced microbial diversity as far offshore as the Deepwater Horizon wellhead. The MR had the highest microbial diversity, which decreased with increasing salinity. MR bacterioplankton communities were distinct compared to the nGOM, particularly in the surface where Actinobacteria and Proteobacteria dominated, while the deeper MR was also enriched in Thaumarchaeota. Statistical analyses revealed that nutrients input by the MR, along with salinity and depth, were the primary drivers in structuring the microbial communities. These results suggested that the reduced salinity, nutrient enriched MR plume could act as a seed bank for microbial diversity as it mixes with the nGOM. Whether introduced microorganisms are active at higher salinities than freshwater would determine if this seed bank for microbial diversity is ecologically significant. Alternatively, microorganisms that are physiologically restricted to freshwater habitats that are entrained in the plume could be used as tracers for freshwater input to the marine environment.

Redox effects on release kinetics of arsenic, cadmium, cobalt, and vanadium in Wax Lake Deltaic freshwater marsh soils

The impact of redox potential (EH), pH, iron (Fe), manganese (Mn), chloride (Cl(-)), aliphatic and aromatic dissolved organic carbon (DOC), and sulfate ( [Formula: see text] ) on the release of dissolved arsenic (As), cadmium (Cd), cobalt (Co), and vanadium (V) were studied in Louisiana freshwater marsh Wax Lake Delta soil (Mississippi River) using an automated biogeochemical microcosm apparatus. The experiment was conducted from reducing (-60 mV) to stepwise oxidizing (+491 mV) conditions. The initial pH was 7.4 and decreased under reducing conditions to 4.9, and remained constant during the increase of EH. Concentrations of As (1.3-120.5 μg L(-1)), V (0.9-48.6 μg L(-1)), Fe, DOC, and the specific UV absorbance increased under reducing conditions and decreased with rising EH. Release of As and V appeared to be related to changes of EH/pH, co-precipitation with Fe oxides, and the release of dissolved aromatic carbon compounds. Concentrations of soluble Cd (4.8-11.2 μg L(-1)), Mn, [Formula: see text] , and Cl(-) increased under oxidizing conditions. Release of Co (166.6-258.2 μg L(-1)) was related to the chemistry of Fe, Mn and DOC. Phospholipid fatty acids analysis indicated the potential for the microbial community to be involved in biogeochemical processes such as the formation of sulfides, oxidation and reduction of compounds, and the bio-methylation of elements such as As. Overall, we measured a release of As and V under anoxic conditions, while oxic conditions favored the release of Cd. These results outline concern on the potential risk of mobilization of toxic elements in temporary waterlogged soils for agricultural purposes in deltaic ecosystems.

Sediments and Soils Act as Reservoirs for Taxonomic and Functional Bacterial Diversity in the Upper Mississippi River

In this study, we utilized Illumina next-generation sequencing of 16S rDNA to characterize the bacterial communities in water, sediments, and soils at four sites along the Mississippi River and Minnesota River, in Minnesota, in order to evaluate community exchanges between these habitats. Communities in water and sediment were hypothesized to show greater taxonomic similarity than those in soil, while microbial communities in sediment and soil would show greater functional similarity. Habitat-specific communities showed significant differences in phylogenetic structure and β-diversity (P < 0.001), but site-specific differences in community structures within a single habitat type did not differ greatly (P ≥ 0.083). Community exchange among habitats generally influenced < 5% of the total community composition in a single sample, with the exception of the sediment community at the Minnesota River site, which contributed to a mean of 14% of the microbial community in the water column. Communities from all habitat types were significantly correlated with each other (r = 0.44-0.64, P ≤ 0.004). Furthermore, approximately 33% of the taxonomic units were found in all samples and comprised at least 40% of the bacterial community. Functional annotation of shotgun sequencing data revealed similar functional profiles for sediment and soil communities that were distinct from those in the water. Results of this study suggest that sediments, when disturbed, contribute significantly to bacterial communities in the water and that a core bacterial community may be supported in the soils and sediments. Furthermore, a high degree of functional redundancy results in similar functional profiles in sediment and soil communities.

Aboveground Net Primary Productivity in a Riparian Wetland Following Restoration of Hydrology

This research presents the initial results of the effects of hydrological restoration on forested wetlands in the Mississippi alluvial plain near Memphis, Tennessee. Measurements were carried out in a secondary channel, the Loosahatchie Chute, in which rock dikes were constructed in the 1960s to keep most flow in the main navigation channel. In 2008–2009, the dikes were notched to allow more flow into the secondary channel. Study sites were established based on relative distance downstream of the notched dikes. Additionally, a reference site was established north of the Loosahatchie Chute where the dikes remained unnotched. We compared various components of vegetation composition and productivity at sites in the riparian wetlands for two years. Salix nigra had the highest Importance Value at every site. Species with minor Importance Values were Celtis laevigata, Acer rubrum, and Plantanus occidentalis. Productivity increased more following the introduction of river water in affected sites compared to the reference. Aboveground net primary productivity was highest at the reference site (2926 ± 458.1 g·m⁻²·year⁻¹), the intact site; however, there were greater increase at the sites in the Loosahatchie Chute, where measurements ranged from 1197.7 ± 160.0 g m⁻²·year⁻¹·to 2874.2 ± 794.0 g·m⁻²·year⁻¹. The site furthest from the notching was the most affected. Pulsed inputs into these wetlands may enhance forested wetland productivity. Continued monitoring will quantify impacts of restored channel hydrology along the Mississippi River.

Cahokia's emergence and decline coincided with shifts of flood frequency on the Mississippi River

Here we establish the timing of major flood events of the central Mississippi River over the last 1,800 y, using floodwater sediments deposited in two floodplain lakes. Shifts in the frequency of high-magnitude floods are mediated by moisture availability over midcontinental North America and correspond to the emergence and decline of Cahokia--a major late prehistoric settlement in the Mississippi River floodplain. The absence of large floods from A.D. 600 to A.D. 1200 facilitated agricultural intensification, population growth, and settlement expansion across the floodplain that are associated with the emergence of Cahokia as a regional center around A.D. 1050. The return of large floods after A.D. 1200, driven by waning midcontinental aridity, marks the onset of sociopolitical reorganization and depopulation that culminate in the abandonment of Cahokia and the surrounding region by A.D. 1350. Shifts in the frequency and magnitude of flooding may be an underappreciated but critical factor in the formation and dissolution of social complexity in early agricultural societies.

Frequencies of heavy metal resistance are associated with land cover type in the Upper Mississippi River

Taxonomic compositions of freshwater bacterial communities have been well-characterized via metagenomic and amplicon-based approaches, especially next-generation sequencing. However, functional diversity of these communities remains less well-studied. Various anthropogenic sources are known to impact the bacterial community composition in freshwater riverine systems and potentially alter functional diversity. In this study, high-throughput functional screening of large (~10,000 clones) fosmid libraries representing communities in the Upper Mississippi River revealed low frequencies of resistance to heavy metals in the following order: Mn2+>Cr3+>Zn2+>Cd2+>Hg2+. No resistance to Cu2+ was detected. Significant, but weak, correlations were observed between resistance frequencies of Cd and Cr with developed land cover (r2=0.08, P=0.016 and r=0.07, P=0.037, respectively). While discriminant function analyses further supported these associations, redundancy analysis further indicated associations with forested land cover and greater resistance to Hg and Zn. Nutrient and metal ion concentrations and abundances of bacterial orders were poorly correlated with heavy metal resistance, except for an association of Pseudomonadales abundance and resistance to Hg and Zn. Taken together, results of this study suggest that allochthonous bacteria contributed from specific land cover types influence the patterns of metal resistance throughout this river.

Simultaneous determination of mercury and organic carbon in sediment and soils using a direct mercury analyzer based on thermal decomposition-atomic absorption spectrophotometry

The purpose of this work was to study the feasibility of using a direct mercury analyzer (DMA) to simultaneously determine mercury (Hg) and organic matter content in sediment and soils. Organic carbon was estimated by re-weighing the sample boats post analysis to obtain loss-on-ignition (LOI) data. The DMA-LOI results were statistically similar (p<0.05) to the conventional muffle furnace approach. A regression equation was developed to convert DMA-LOI data to total organic carbon (TOC), which varied between 0.2% and 13.0%. Thus, mercury analyzers based on combustion can provide accurate estimates of organic carbon content in non-calcareous sediment and soils; however, weight gain from moisture (post-analysis), measurement uncertainty, and sample representativeness should all be taken into account. Sediment cores from seasonal wetland and open water areas from six oxbow lakes in the Mississippi River alluvial flood plain were analyzed. Wetland sediments generally had higher levels of Hg than open water areas owing to a greater fraction of fine particles and higher levels of organic matter. Annual loading of Hg in open water areas was estimated at 4.3, 13.4, 19.2, 20.7, 129, and 135 ng cm(-2) yr(-1) for Beasley, Roundaway, Hampton, Washington, Wolf and Sky Lakes, respectively. Generally, the interval with the highest Hg flux was dated to the 1960s and 1970s.

Species sorting and seasonal dynamics primarily shape bacterial communities in the Upper Mississippi River

Bacterial community structure (BCS) in freshwater ecosystems varies seasonally and due to physicochemical gradients, but metacommunity structure of a major river remains understudied. Here we characterize the BCS along the Mississippi River and contributing rivers in Minnesota over three years using Illumina next-generation sequencing, to determine how changes in environmental conditions as well as inputs from surrounding land and confluences impacted community structure. Contributions of sediment to water microbial diversity were also evaluated. Long-term variation in community membership was observed, and significant shifts in relative abundances of major freshwater taxa, including α-Proteobacteria, Burkholderiales, and Actinomycetales, were observed due to temporal and spatial variations. Environmental parameters (e.g. temperature, rainfall, and nutrient concentrations) primarily contributed to differences in phyla abundances (88% of variance), with minimal influence from spatial distance alone (<1% of variance). Furthermore, an annually-recurrent BCS was observed in late summer, further suggesting that seasonal dynamics strongly influence community composition. Sediment communities differed from those in the water, but contributed up to 50% to community composition in the water column. Among water sampling sites, 34% showed significant variability in BCS of replicate samples indicating variability among riverine communities due to heterogeneity in the water column. Results of this study highlight the need for a better understanding of spatial and temporal variations in riverine bacterial diversity associated with physicochemical gradients and reveal how communities in sediments, and potentially other environmental reservoirs, impact waterborne BCS. Techniques used in this study may prove useful to determine sources of microbes from sediments and soils to waterways, which will facilitate best management practices and total maximum daily load determinations.

Core functional traits of bacterial communities in the Upper Mississippi River show limited variation in response to land cover

Taxonomic characterization of environmental microbial communities via high-throughput DNA sequencing has revealed that patterns in microbial biogeography affect community structure. However, shifts in functional diversity related to variation in taxonomic composition are poorly understood. To overcome limitations due to the prohibitive cost of high-depth metagenomic sequencing, tools to infer functional diversity based on phylogenetic distributions of functional traits have been developed. In this study we characterized functional microbial diversity at 11 sites along the Mississippi River in Minnesota using both metagenomic sequencing and functional-inference-based (PICRUSt) approaches. This allowed us to determine how distance and variation in land cover throughout the river influenced the distribution of functional traits, as well as to validate PICRUSt inferences. The distribution and abundance of functional traits, by metagenomic analysis, were similar among sites, with a median standard deviation of 0.0002% among tier 3 functions in KEGG. Overall inferred functional variation was significantly different (P ≤ 0.035) between two water basins surrounded by agricultural vs. developed land cover, and abundances of bacterial orders that correlated with functional traits by metagenomic analysis were greater where abundances of the trait were inferred to be higher. PICRUSt inferences were significantly correlated (r = 0.147, P = 1.80 × 10(-30)) with metagenomic annotations. Discrepancies between metagenomic and PICRUSt taxonomic-functional relationships, however, suggested potential functional redundancy among abundant and rare taxa that impeded the ability to accurately assess unique functional traits among rare taxa at this sequencing depth. Results of this study suggest that a suite of "core functional traits" is conserved throughout the river and distributions of functional traits, rather than specific taxa, may shift in response to environmental heterogeneity.

Short-term Influences on Suspended Particulate Matter Distribution in the Northern Gulf of Mexico: Satellite and Model Observations

Energetic meteorological events such as frontal passages and hurricanes often impact coastal regions in the northern Gulf of Mexico that influence geochemical processes in the region. Satellite remote sensing data such as winds from QuikSCAT, suspended particulate matter (SPM) concentrations derived from SeaWiFS and the outputs (sea level and surface ocean currents) of a nested navy coastal ocean model (NCOM) were combined to assess the effects of frontal passages between 23-28 March 2005 on the physical properties and the SPM characteristics in the northern Gulf of Mexico. Typical changes in wind speed and direction associated with frontal passages were observed in the latest 12.5 km wind product from QuikSCAT with easterly winds before the frontal passage undergoing systematic shifts in direction and speed and turning northerly, northwesterly during a weak and a strong front on 23 and 27 March, respectively. A quantitative comparison of model sea level results with tide gauge observations suggest better correlations near the delta than in the western part of the Gulf with elevated sea levels along the coast before the frontal passage and a large drop in sea level following the frontal passage on 27 March. Model results of surface currents suggested strong response to wind forcing with westward and onshore currents before the frontal passage reversing into eastward, southeastward direction over a six day period from 23 to 28 March 2005. Surface SPM distribution derived from SeaWiFS ocean color data for two clear days on 23 and 28 March 2005 indicated SPM plumes to be oriented with the current field with increasing concentrations in nearshore waters due to resuspension and discharge from the rivers and bays and its seaward transport following the frontal passage. The backscattering spectral slope γ, a parameter sensitive to particle size distribution also indicated lower γ values (larger particles) in nearshore waters that decreased offshore (smaller particles). The use of both satellite and model results revealed the strong interactions between physical processes and the surface particulate field in response to the frontal passage in a large river-dominated coastal margin.