The collection of fish eggs is a commonly used technique for monitoring invasive carp. Genetic identification is the most trusted method for identifying fish eggs but is expensive and slow. Recent work suggests random forest models could provide an inexpensive method for identifying invasive carp eggs based on morphometric egg characteristics. While random forests provide accurate predictions, they do not produce a simple formula for obtaining new predictions. Instead, individuals must have knowledge of the R coding language, limiting the individuals who can use the random forests for resource management. We present WhoseEgg: a web-based point-and-click application that allows non-R users to access random forests via a point and click interface to rapidly identify fish eggs with an objective of detecting invasive carp (Bighead, Grass, and Silver Carp) in the Upper Mississippi River basin. This article provides an overview of WhoseEgg, an example application, and future research directions.
Martin A. Simonson, Michael J. Weber, Grace M. Wilkinson and Andrew R. Annear. 2023. Annual changes in water quality and sportfish community structure following commercial harvest of common carp and bigmouth buffalo. Lake Reserv Manage. XX:XXX–XXX.Commercial harvest of common carp (Cyprinus carpio; hereafter carp) and bigmouth buffalo (Ictiobus cyprinellus; hereafter buffalo) populations had little detectable effect on shallow lake ecosystems. We tested whether carp and buffalo biomass removal affects limnological variables and fish community metrics across 6 shallow, natural lakes of northwestern Iowa using mixed effects models. Annual commercial harvest of carp ranged from 0 to 71 kg/ha; annual harvest of buffalo ranged from 0 to 356 kg/ha. Biomanipulation (i.e., commercial harvest) of carp was associated with decreases in soluble phosphorus and nitrogen concentrations, but not total phosphorus or nitrogen. Buffalo harvest was unrelated to annual changes in nutrient concentrations but was associated with reductions in chlorophyll a and phycocyanin concentrations. Secchi disk transparency and total suspended solids were unrelated to carp and buffalo harvest. Carp harvest was associated with reduced biomass of large cladocerans but no other zooplankton biomass densities; buffalo harvest was unrelated to zooplankton biomass. Species richness and rake density of aquatic macrophytes were unrelated to carp and buffalo harvest. Carp and buffalo harvest was unrelated to changes in most indices of sportfish abundance, condition, and size distribution. Our results suggest harvest of carp and buffalo <71 kg/ha has little effect on abiotic and biotic ecosystem components on short time scales and highlights the challenges associated with shallow lake restoration.
Among numerous concerns, restoration ecologists are routinely plagued with the problem of where to implement conservation efforts to best maintain spatial connectivity and population structure. Knowledge about connectivity within a metapopulation could offer valuable insight to address this issue and could help with the allocation of limited resources more effectively. However, direct estimation of dispersal is challenging because species can disperse widely within a landscape. Here, we developed a novel hierarchical Bayesian model to estimate spatial connectivity from occurrence data of an endangered stream fish, Topeka shiner (Notropis topeka). Our goal was to identify dispersal corridors that are centrally connected to the metapopulation that could be beneficial in decision making about future habitat restorations aimed at maintaining population structure. Connectivity modeling is data intensive and resource managers may not have the necessary data requirements; thus, we also examined the usefulness of graph theory (i.e. network centrality) as a proxy for connectivity. Model selection identified an upstream biased asymmetric dispersal pattern for the species. We were able to quantify and map connectivity and identified over 68 km of stream reaches as highly connected to the metapopulation. Probability of occurrence in dispersal corridors (i.e. streams) increased with connectivity and decreased with drainage area, highlighting the importance of conserving dispersal corridors and preferred habitat patches. Restorations in connected locations would provide critical habitat near important dispersal corridors. Betweenness centrality was positively correlated with connectivity and occurrence in restored habitat. Modeling of metapopulation connectivity and its correlation with graph theory demonstrated the usefulness of these techniques to guide conservation actions, especially in countries where data collection efforts are not common and conservation funding is limited.
Abstract Despite the longstanding presence of grass carp Ctenopharyngodon idella in the Upper Mississippi River (UMR) watershed, information regarding their populations remains largely unknown, in part because capture is difficult. Occupancy models are a popular wildlife assessment tool to account for imperfect detections but have been slow to be adopted in fisheries. Herein, we used occupancy modelling to evaluate the influence of two environmental covariates (river discharge and water temperature) on grass carp occupancy, extinction, colonization, and detection at nine sites within south‐eastern Iowa rivers from April to October 2014 and 2015. Grass carp were detected at least once at all but one site. The most parsimonious model indicated that grass carp colonization probability increased from 0.15 to 0.67 with increases in river discharge. In contrast, occupancy (0.20), extinction (0.29), and detection (0.50) probabilities were temporally constant. Models indicated that water temperatures did not influence grass carp extinction or colonization probabilities relative to river discharge. Cumulative grass carp detection probability approached 1.0, whereas conditional occupancy estimates were less than 0.1 when using five or more sampling transects. The use of a robust design occupancy model allowed us to estimate site occupancy rates of grass carp corrected for imperfect detections, while demonstrating the importance of river discharge for site colonization. These results can be used to assess the distribution of a cryptic fish while helping to guide grass carp sampling and removal efforts.
Abstract Weber NJ, Brown ML. 2012. Diel and temporal habitat use of four juvenile fishes in a complex glacial lake. Lake Reserv Manage. 28:120-129. Juvenile fishes may use multiple habitats during early life stages, and habitat use may change based on diel period, temporally, or ontogenetically, with patterns of habitat use being species specific. To better understand habitat use of juvenile fishes, we evaluated relative abundance of juvenile black crappie (Pomoxis nigromaculatus), bluegill (Lepomis macrochirus), yellow perch (Perca flavescens), and common carp (Cyprinus carpio) among nearshore open water, emergent vegetation, submergent vegetation, flooded timber, and open water offshore habitats in a glacial lake. In August, catch rates of common carp were highest in emergent vegetation, yellow perch and black crappie catch rates were highest in submergent vegetation, and bluegill catch rates were highest in nearshore open water, submergent vegetation, and flooded timber. In September, submergent vegetation was no longer available due to senescence, and catch rates of all species did not differ among habitats, except for common carp where catch rates were highest in emergent vegetation and flooded timber. Within a species, fishes were generally of similar size among habitats. Abundance of invertebrate prey was highly variable and was generally similar among habitats. Our results provide information about the habitat use of juvenile fishes that can be useful to the management of these species and aquatic habitat conservation.
Abstract In the USA, the Topeka shiner ( Notropis topeka ) is a federally listed endangered species that has been in decline for decades. A key reason for the decline is the alteration of naturally flowing streams and associated oxbow habitats resulting from land‐use changes. The focus of recent conservation efforts for Topeka shiners has been the restoration of oxbow habitats by removing sediment from natural oxbows until a groundwater connection is re‐established. This restoration practice has become common in portions of Iowa and south‐west Minnesota. The goals of this study were to compare the occurrence and abundance of Topeka shiners in restored and unrestored oxbows and to determine the characteristics that influenced their presence in these systems. In 2016–2017, 34 unrestored and 64 restored oxbows in the Boone, Beaver Creek, North Raccoon and Rock River basins in Iowa and Minnesota were sampled for their fish assemblages and abiotic features. Topeka shiners were present more often and with higher average relative abundances in restored oxbows. Nonmetric multidimensional scaling ordinations indicated that fish assemblages found in oxbows where Topeka shiners were present were less variable than assemblages found at oxbows where they were absent, but that abiotic characteristics were similar between oxbow types. Logistic regression models suggested that the presence of Topeka shiners in oxbows was positively associated with species richness, brassy minnow ( Hybognathus hankinsoni ) catch per unit effort (no. fish/100 m 2 ; CPUE), orangespotted sunfish ( Lepomis humilis ) CPUE, dissolved oxygen and turbidity, and negatively associated with oxbow wetted length. These results highlight the use of restored oxbows by Topeka shiners while also providing new information to help guide restoration and conservation efforts.
Anthropogenic development of floodplains and alteration to natural hydrological regimes have resulted in extensive loss of off-channel habitat. Interest has grown in restoring these habitats as an effective conservation strategy for numerous aquatic species. This study developed a process to reproducibly identify areas of former stream meanders to assist future off-channel restoration site selections. Three watersheds in Iowa and Minnesota where off-channel restorations are currently being conducted to aid the conservation of the Topeka Shiner (Notropis topeka) were selected as the study area. Floodplain depressions were identified with LiDAR-derived digital elevation models, and their morphologic and topographic characteristics were described. Classification tree models were developed to distinguish relic streams and oxbows from other landscape features. All models demonstrated a strong ability to distinguish between target and non-target features with area under the receiver operator curve (AUC) values ≥ 0.82 and correct classification rates ≥ 0.88. Solidity, concavity, and mean height above channel metrics were among the first splits in all trees. To compensate for the noise associated with the final model designation, features were ranked by their conditional probability. The results of this study will provide conservation managers with an improved process to identify candidate restoration sites.
ABSTRACT Humans have extensively altered rivers to accommodate anthropogenic uses. Dams modify river flow and temperature regimes important for lotic fish reproduction. Yet, assessments of fish production in relation to environmental conditions in regulated rivers are lacking but are needed to guide experimental environmental flows. We evaluated the effects of water temperature and discharge on larval Catostomidae, Sciaenidae, and Clupeidae production to inform environmental flow management. We sampled ichthyoplankton from April through June on the Des Moines and Iowa rivers prior to (2014–2015) and after (2021–2022) an experimental environmental flow was incorporated on the Des Moines River. We used a hurdle model to assess the effects of water temperature, discharge, and discharge variation on larval presence (logistic regression) and density (linear regression). Larval Catostomidae were captured once water temperatures exceeded 15°C, Sciaenidae appeared when water temperature surpassed 18°C, while Clupeidae appeared when water temperature exceeded 20°C. The probability of larval Sciaenidae and Clupeidae presence increased with discharge variation while densities were both positively associated with discharge and discharge variation. The probability of Sciaenidae and Catostomidae larval presence increased with water temperature. Interactions between water temperature and discharge influenced Clupeidae presence and Catostomidae density. The probability of Clupeidae presence increased with discharge at warmer water temperatures. Catostomidae densities increased with discharge at cool water temperature (13°C) and decreased with discharge at warm (25°C) temperatures. Our results provide information about the effects of discharge, discharge variation, and water temperature driving larval fish production in anthropogenically altered rivers to guide environmental flow management.
