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USGS2022

Protocols for collecting and processing macroinvertebrates from the benthos and water column in depressional wetlands

Freshwater aquatic macroinvertebrates are key links in food webs and nutrient cycles, and thus often serve as biological indicators of ecosystem health. Macroinvertebrate investigations in research and monitoring require consistent and reliable field and laboratory procedures. Comprehensive standard operating procedures for sampling macroinvertebrates from depressional wetlands, which can range from riverine floodplain lakes to wetlands of any size and hydrologic regime, remain relatively sparse. This report provides step-by-step protocols for efficient use of time and resources while collecting and processing aquatic macroinvertebrate samples; for example, a single wetland can typically be field surveyed in less than 1 hour, and the samples can be processed in the laboratory in less than 2 hours. Samples can be collected from inside a motorboat or canoe or while wading. This procedures manual describes dip netting to collect macroinvertebrates from the wetland bottom and water column separately to facilitate investigations of habitat use by species occupying different areas of the wetland. This report also provides descriptive supplemental materials and data sheets to assist with the preparation of survey maps, the acquisition of field and laboratory equipment, and the calculation of macroinvertebrate densities from the wetland bottom and water column. These procedures can be applied to most macroinvertebrate species and communities that inhabit a variety of wetland sizes and types. Uses and applications can range from elementary and secondary environmental education to rigorous scientific evaluations of community abundance, diversity, distribution, or species-habitat relations.

Open-File Report↗

USGS1998

A simulation-optimization model for water-resources management, Santa Barbara, California

In times of drought, the local water supplies of the city of Santa Barbara, California, are insufficient to satisfy water demand. In response, the city has built a seawater desalination plant and gained access to imported water in 1997. Of primary concern to the city is delivering water from the various sources at a minimum cost while satisfying water demand and controlling seawater intrusion that might result from the overpumping of ground water. A simulation-optimization model has been developed for the optimal management of Santa Barbara?s water resources. The objective is to minimize the cost of water supply while satisfying various physical and institutional constraints such as meeting water demand, maintaining minimum hydraulic heads at selected sites, and not exceeding water-delivery or pumping capacities. The model is formulated as a linear programming problem with monthly management periods and a total planning horizon of 5 years. The decision variables are water deliveries from surface water (Gibraltar Reservoir, Cachuma Reservoir, Cachuma Reservoir cumulative annual carryover, Mission Tunnel, State Water Project, and desalinated seawater) and ground water (13 production wells). The state variables are hydraulic heads. Basic assumptions for all simulations are that (1) the cost of water varies with source but is fixed over time, and (2) only existing or planned city wells are considered; that is, the construction of new wells is not allowed. The drought of 1947?51 is Santa Barbara?s worst drought on record, and simulated surface-water supplies for this period were used as a basis for testing optimal management of current water resources under drought conditions. Assumptions that were made for this base case include a head constraint equal to sea level at the coastal nodes; Cachuma Reservoir carryover of 3,000 acre-feet per year, with a maximum carryover of 8,277 acre-feet; a maximum annual demand of 15,000 acre-feet; and average monthly capacities for the Cachuma and the Gibraltar Reservoirs. The base-case results indicate that water demands can be met, with little water required from the most expensive water source (desalinated seawater), at a total cost of $5.56 million over the 5-year planning horizon. The simulation model has drains, which operate as nonlinear functions of heads and could affect the model solutions. However, numerical tests show that the drains have little effect on the optimal solution. Sensitivity analyses on the base case yield the following results: If allowable Cachuma Reservoir carryover is decreased by about 50 percent, then costs increase by about 14 percent; if the peak demand is decreased by 7 percent, then costs will decrease by about 14 percent; if the head constraints are loosened to -30 feet, then the costs decrease by about 18 percent; if the heads are constrained such that a zero hydraulic gradient condition occurs at the ocean boundary, then the optimization problem does not have a solution; if the capacity of the desalination plant is constrained to zero acre-feet, then the cost increases by about 2 percent; and if the carryover of State Water Project water is implemented, then the cost decreases by about 0.5 percent. Four additional monthly diversion distribution scenarios for the reservoirs were tested: average monthly Cachuma Reservoir deliveries with the actual (scenario 1) and proposed (scenario 2) monthly distributions of Gibraltar Reservoir water, and variable monthly Cachuma Reservoir deliveries with the actual (scenario 3) and proposed (scenario 4) monthly distributions of Gibraltar Reservoir water. Scenario 1 resulted in a total cost of about $7.55 million, scenario 2 resulted in a total cost of about $5.07 million, and scenarios 3 and 4 resulted in a total cost of about $4.53 million. Sensitivities of the scenarios 1 and 2 to desalination-plant capacity and State Water Project water carryover were tested. The scenario 1 sensitivity analysis indicated that incorpo

Water-Resources Investigations Report↗

USGS2018

American Recent Eulipotyphla: Nesophontids, Solenodons, Moles, and Shrews in the New World

The mammalian taxonomic order Eulipotyphla is comprised of the living taxonomic families Erinaceidae (gymnures, hedgehogs, and moonrats), Solenodontidae (solenodonts), Soricidae (shrews), and Talpidae (desmans and moles). Morphological and molecular studies continue to alter our view of relationships within and among these families, and this research has added considerably to our understanding of the diversity, distributions, and relationships of many of the New World species that belong to them. Currently, there are more than 450 recognized living species worldwide, making the Eulipotyphla the third most speciose order of mammals. New World (North and South America and associated islands) eulipotyphlans currently include 110 recognized species of shrews, seven species of moles, and both living species of solenodons. In this work, I attempt to summarize the taxonomic results of recent studies and provide a guide to the most appropriate current applications of taxonomic names in this region.

Book↗

USGS2002

Waterbird conservation for the Americas: The North American waterbird conservation plan, version 1

The North American Waterbird Conservation Plan (the Plan) is the product of an independent partnership of individuals and institutions having interest and responsibility for conservation of waterbirds and their habitats in the Americas. This partnership - Waterbird Conservation for the Americas - was created to support a vision in which the distribution, diversity, and abundance of populations and habitats of breeding, migratory, and nonbreeding waterbirds are sustained or restored throughout the lands and waters of North America, Central America, and the Caribbean. The Plan provides a continental-scale framework for the conservation and management of 210 species of waterbirds, including seabirds, coastal waterbirds, wading birds, and marshbirds utilizing aquatic habitats in 29 nations throughout North America, Central America, the islands and pelagic waters of the Caribbean Sea and western Atlantic, the U.S.-associated Pacific Islands and pelagic inland and pelagic waters of the Pacific. Birds as familiar as herons, loons, pelicans, and gulls, as well as the lesser known albatrosses, petrels, auks, and rails are among the species considered in the Plan. These birds' dependence on aquatic habitats such as wooded swamps, stream corridors, salt marshes, barrier islands, continental shelf waters and open pelagic waters make them especially vulnerable to the myriad threats facing water and wetland resources globally. In addition, the congregatory behavior of many waterbirds increases population risks by concentrating populations in limited areas.

Book↗

USGS2016

Geographic distribution of genetic diversity in populations of Rio Grande Chub Gila pandora

In the southwestern United States (US), the Rio Grande chub ( Gila pandora) is state-listed as a fish species of greatest conservation need and federally listed as sensitive due to habitat alterations and competition with non-native fishes. Characterizing genetic diversity, genetic population structure, and effective number of breeders will assist with conservation efforts by providing a baseline of genetic metrics. Genetic relatedness within and among G. pandora populations throughout New Mexico was characterized using 11 microsatellite loci among 15 populations in three drainage basins (Rio Grande, Pecos, Canadian). Observed heterozygosity (H O ) ranged from 0.71–0.87 and was similar to expected heterozygosity (0.75–0.87). Rio Ojo Caliente (Rio Grande) had the highest allelic richness (A R = 15.09), while Upper Rio Bonito (Pecos) had the lowest allelic richness (A R = 6.75). Genetic differentiation existed among all populations with the lowest genetic variation occurring within the Pecos drainage. STRUCTURE analysis revealed seven genetic clusters. Populations of G. pandora within the upper Rio Grande drainage (Rio Ojo Caliente, Rio Vallecitos, Rio Pueblo de Taos) had high levels of admixture with Q-values ranging from 0.30–0.50. In contrast, populations within the Pecos drainage (Pecos River and Upper Rio Bonito) had low levels of admixture (Q = 0.94 and 0.87, respectively). Estimates of effective number of breeders ( N b ) varied from 6.1 (Pecos: Upper Rio Bonito) to 109.7 (Rio Grande: Rio Peñasco) indicating that populations in the Pecos drainage are at risk of extirpation. In the event that management actions are deemed necessary to preserve or increase genetic diversity of G. pandora , consideration must be given as to which populations are selected for translocation.

Arizona, California, Colorado, Nevada, New Mexico,↗

USGS2010

Seeding Method Influences Warm-Season Grass Abundance and Distribution but not Local Diversity in Grassland Restoration

Ecological theory predicts that the arrangement of seedlings in newly restored communities may influence future species diversity and composition. We test the prediction that smaller distances between neighboring seeds in drill seeded grassland plantings would result in lower species diversity, greater weed abundance, and larger conspecific patch sizes than otherwise similar broadcast seeded plantings. A diverse grassland seed mix was either drill seeded, which places seeds in equally spaced rows, or broadcast seeded, which spreads seeds across the ground surface, into 24 plots in each of three sites in 2005. In summer 2007, we measured species abundance in a 1 m2 quadrat in each plot and mapped common species within the quadrat by recording the most abundant species in each of 64 cells. Quadrat-scale diversity and weed abundance were similar between drilled and broadcast plots, suggesting that processes that limited establishment and controlled invasion were not affected by such fine-scale seed distribution. However, native warm-season (C4) grasses were more abundant and occurred in less compact patches in drilled plots. This difference in C4 grass abundance and distribution may result from increased germination or vegetative propagation of C4 grasses in drilled plots. Our findings suggest that local plant density may control fine-scale heterogeneity and species composition in restored grasslands, processes that need to be further investigated to determine whether seed distributions can be manipulated to increase diversity in restored grasslands. ?? 2010 Society for Ecological Restoration International.

Restoration Ecology↗

USGS2010

Seeding method influences warm-season grass abundance and distribution but not local diversity in grassland restoration

Ecological theory predicts that the arrangement of seedlings in newly restored communities may influence future species diversity and composition. We test the prediction that smaller distances between neighboring seeds in drill seeded grassland plantings would result in lower species diversity, greater weed abundance, and larger conspecific patch sizes than otherwise similar broadcast seeded plantings. A diverse grassland seed mix was either drill seeded, which places seeds in equally spaced rows, or broadcast seeded, which spreads seeds across the ground surface, into 24 plots in each of three sites in 2005. In summer 2007, we measured species abundance in a 1 m 2 quadrat in each plot and mapped common species within the quadrat by recording the most abundant species in each of 64 cells. Quadrat-scale diversity and weed abundance were similar between drilled and broadcast plots, suggesting that processes that limited establishment and controlled invasion were not affected by such fine-scale seed distribution. However, native warm-season (C 4 ) grasses were more abundant and occurred in less compact patches in drilled plots. This difference in C 4 grass abundance and distribution may result from increased germination or vegetative propagation of C 4 grasses in drilled plots. Our findings suggest that local plant density may control fine-scale heterogeneity and species composition in restored grasslands, processes that need to be further investigated to determine whether seed distributions can be manipulated to increase diversity in restored grasslands.

Restoration Ecology↗

USGS2010

Deducing the distribution of terminal electron-accepting processes in hydrologically diverse groundwater systems

The distribution of microbially mediated terminal electron-accepting processes (TEAPs( was investigated in four hydrologically diverse groundwater systems by considering patterns of electron acceptor (nitrate, sulfate) consumption, intermediate product (hydrogen (H 2 )) concentrations, and final product (ferrous iron, sulfide, and methane) production. In each hydrologic system a determination of predominant TEAPs could be arrived at, but the level of confidence appropriate for each determination differed. In a portion of the lacustrine aquifer of the San Joaquin Valley, for example, all three indicators (sulfate concentrations decreasing, H 2 concentrations in the 1–2 nmol range, and sulfide concentrations increasing along flow paths identified sulfate reduction as the predominant TEAP, leading to a high degree of confidence in the determination. In portions of the Floridan aquifer and a petroleum hydrocarbon-contaminated aquifer, sulfate reduction and methanogenesis are indicated by production of sulfide and methane, and hydrogen oncentrations in the 1–4 nmol and 5–14 nmol range, respectively. However, because electron acceptor consumption could not be documented in these systems, less confidence is warranted in the TEAP determination. In the Black Creek aquifer, no pattern of sulfate consumption and sulfide production were observed, but H2 concentrations indicated sulfate reduction as the predominant TEAP. In this case, where just a single line of evidence is available, the least confidence in the TEAP diagnosis is justified. Because this methodology is based on measurable water chemistry parameters and upon the physiology of microbial electron transfer processes, it provides a better description of predominant redox processes in groundwater systems than more traditional Eh-based methods.

Water Resources Research↗

USGS2006

Diversity, composition, and geographical distribution of microbial communities in California salt marsh sediments

The Pacific Estuarine Ecosystem Indicators Research Consortium seeks to develop bioindicators of toxicant-induced stress and bioavailability for wetland biota. Within this framework, the effects of environmental and pollutant variables on microbial communities were studied at different spatial scales over a 2-year period. Six salt marshes along the California coastline were characterized using phospholipid fatty acid (PLFA) analysis and terminal restriction fragment length polymorphism (TRFLP) analysis. Additionally, 27 metals, six currently used pesticides, total polychlorinated biphenyls and polycyclic aromatic hydrocarbons, chlordanes, nonachlors, dichlorodiphenyldichloroethane, and dichlorodiphenyldichloroethylene were analyzed. Sampling was performed over large (between salt marshes), medium (stations within a marsh), and small (different channel depths) spatial scales. Regression and ordination analysis suggested that the spatial variation in microbial communities exceeded the variation attributable to pollutants. PLFA analysis and TRFLP canonical correspondence analysis (CCA) explained 74 and 43% of the variation, respectively, and both methods attributed 34% of the variation to tidal cycles, marsh, year, and latitude. After accounting for spatial variation using partial CCA, we found that metals had a greater effect on microbial community composition than organic pollutants had. Organic carbon and nitrogen contents were positively correlated with PLFA biomass, whereas total metal concentrations were positively correlated with biomass and diversity. Higher concentrations of heavy metals were negatively correlated with branched PLFAs and positively correlated with methyl- and cyclo-substituted PLFAs. The strong relationships observed between pollutant concentrations and some of the microbial indicators indicated the potential for using microbial community analyses in assessments of the ecosystem health of salt marshes. Copyright ?? 2006, American Society for Microbiology. All Rights Reserved.

Applied and Environmental Microbiology↗

USGS2021

Distribution, abundance, and genomic diversity of the endangered antioch dunes evening primrose (Oenothera deltoides subsp. howellii) surveyed in 2019

Sand dune ecosystems are highly dynamic landforms found along coastlines and riverine deltas where a supply of sand-sized material is available to be delivered by aquatic and wind environments. These unique ecosystems provide habitat for a variety of endemic and rare plant and animal species. Sand dunes have been affected by human development, sand mining, and shoreline stabilization from invasive weeds. This report provides a summary of a comprehensive literature review, field survey, and genomic analysis for the Antioch Dunes evening primrose ( Oenothera deltoides subsp. howellii , hereafter howellii ), an endemic species to the San Francisco Bay-Delta, California, which was listed as a federally endangered subspecies in 1978. Howellii is found on a historic dune sheet (the Antioch sand sheet) near the confluence of the Sacramento and San Joaquin Rivers. The Antioch sand sheet has been greatly altered by sand mining and land conversion into agriculture and urban development. In chapter A, we describe results of the literature review and field survey. We found howellii at eight locations with over 90 percent of the adult population and nearly 99 percent of juveniles observed on the Antioch Dunes National Wildlife Refuge. We measured a negative relationship between howellii numbers and invasive weed cover, illustrating the importance of mobilized open sand for this species. In chapter B, we describe the genomic study results. We surveyed genomic diversity by using double-digest restriction-site associated sequencing to estimate population genetic structure and levels of diversity across all surveyed occurrences. The genomic analyses included outgroup samples of the closely related Oenothera deltoides subsp. cognata and three occurrences of an unknown taxon with intermediate morphology to cognata and howellii , which also occurs on the Antioch sand sheet, east of the Antioch Dunes National Wildlife Refuge. These three morphologically distinctive groups formed genetically distinctive clusters and well-supported monophyletic clades in clustering and phylogenetic analyses, respectively. There was no indication of recent hybridization among any of the groups. Among howellii occurrences, the Antioch Dunes National Wildlife Refuge contained the greatest genetic diversity. Our approach, which combined field surveys, habitat assessments, and genetic analyses, can provide useful information for the conservation and management of rare and at-risk plant species and highlights the uniqueness of the Antioch sand sheet floral diversity through the discovery of a putative new taxon within the bird-cage evening primrose species complex.

California↗

USGS2025

Genetic structure and diversity in wild populations of the Light-footed Ridgway’s Rail reflect 20 years of augmentation through captive breeding and release

Captive breeding and release programs aimed at recovery of rare species can be informed by genetic data to help select high-diversity source populations, make pairing decisions to minimize inbreeding, and manage release strategies. We developed a set of 54 microsatellite loci to assess genetic structure and diversity across the United States range of the Light-footed Ridgway’s Rail ( Rallus obsoletus levipes ), a federally endangered marsh bird for which populations have been augmented by a captive breeding program annually since 2001. We identified three regional genetic clusters, with the highest genetic diversity reported in the central cluster, which included all sampled wetlands in north San Diego County. Recent (2019–24) captive-breeding adults all clustered within the northernmost cluster (Orange and Ventura Counties), which was expected given that this cluster included the source wetland for the captive breeding program. Gene flow rates, which approximate the proportions of individuals in a population originating from other populations, were relatively high among clusters (4–24 percent) and may have been enhanced through the release of captive-bred rails. Based on the genetic data analyzed in a genetic rescue decision framework, sourcing new breeding birds from the north San Diego County cluster could provide the greatest genetic diversity benefits. The northernmost cluster, which included Mugu Lagoon and all sampled Orange County wetlands, was considered the most in need of genetic rescue. Recent breeding pairs in the captive breeding program have comparatively low diversity and high interrelatedness. Sourcing birds from wetlands with high genetic diversity and population sizes, assessing genetic relatedness before pairing, and focusing releases in areas that have low estimates of genetic diversity could improve the distribution of genetic diversity across wild populations in the future.

California↗

USGS1977

Benthic invertebrates in an arctic mountain stream, Brooks Range, Alaska

A 1-day, late-summer reconnaissance of the Dietrich River, Alaska, determined species composition and diversity of benthic invertebrates and examined the correlation between stream order and invertebrate distribution. Benthic invertebrates were collected by dip net, drift net, and 10-rock collections, and results were combined for each station. Forty-nine taxa were identified from 5 stations representing stream orders 1 through 5. Aquatic insects comprised 88 percent of all taxa and 97 percent of all individuals from the Dietrich River. Diptera, especially Chironomidae, was the most abundant, followed by Plecoptera. Diamesinae was abundant at the headwaters, decreasing downstream; Orthocladiinae exhibited the reverse distribution pattern. Diversity of collections generally increased downstream. The station collections were compared using coefficients of similarity, cluster analysis, and taxonomy. Collections from adjacent stations were most similar and similarity decreased with increasing distance. The fauna was tentatively divided into zones with characteristic communities: a Diamesinae-Simuliidae fauna in zone I (stream order 1), zone II, a region of transition (orders 2-4), and an Orthocladiinae-Plecoptera-Ephemeroptera fauna in zone III (order 5). The fauna compares closely with that of other arctic streams. Although not conclusive, the benthic invertebrate results are consistent with the hypothesis that stream order is related to lotic biological communities.

Alaska↗

USGS2014

Breeding loggerhead marine turtles Caretta caretta in Dry Tortugas National Park, USA, show high fidelity to diverse habitats near nesting beaches

We used satellite telemetry to identify in-water habitat used by individuals in the smallest North-west Atlantic subpopulation of adult nesting loggerhead turtles Caretta caretta during the breeding season. During 2010, 2011 and 2012 breeding periods, a total of 20 adult females used habitats proximal to nesting beaches with various levels of protection within Dry Tortugas National Park. We then used a rapid, high-resolution, digital imaging system to map habitat adjacent to nesting beaches, revealing the diversity and distribution of available benthic cover. Turtle behaviour showing measurable site-fidelity to these diverse habitats has implications for managing protected areas and human activities within them. Protecting diverse benthic areas adjacent to loggerhead turtle nesting beaches here and elsewhere could provide benefits for overall biodiversity conservation.

Florida↗

USGS2015

Genetic diversity is related to climatic variation and vulnerability in threatened bull trout

Understanding how climatic variation influences ecological and evolutionary processes is crucial for informed conservation decision-making. Nevertheless, few studies have measured how climatic variation influences genetic diversity within populations or how genetic diversity is distributed across space relative to future climatic stress. Here, we tested whether patterns of genetic diversity (allelic richness) were related to climatic variation and habitat features in 130 bull trout ( Salvelinus confluentus ) populations from 24 watersheds (i.e., ~4–7th order river subbasins) across the Columbia River Basin, USA. We then determined whether bull trout genetic diversity was related to climate vulnerability at the watershed scale, which we quantified on the basis of exposure to future climatic conditions (projected scenarios for the 2040s) and existing habitat complexity. We found a strong gradient in genetic diversity in bull trout populations across the Columbia River Basin, where populations located in the most upstream headwater areas had the greatest genetic diversity. After accounting for spatial patterns with linear mixed models, allelic richness in bull trout populations was positively related to habitat patch size and complexity, and negatively related to maximum summer temperature and the frequency of winter flooding. These relationships strongly suggest that climatic variation influences evolutionary processes in this threatened species and that genetic diversity will likely decrease due to future climate change. Vulnerability at a watershed scale was negatively correlated with average genetic diversity ( r = −0.77; P < 0.001); watersheds containing populations with lower average genetic diversity generally had the lowest habitat complexity, warmest stream temperatures, and greatest frequency of winter flooding. Together, these findings have important conservation implications for bull trout and other imperiled species. Genetic diversity is already depressed where climatic vulnerability is highest; it will likely erode further in the very places where diversity may be most needed for future persistence.

Global Change Biology↗

USGS2003

Species area relationships in mediterranean-climate plant communities

Aim To determine the best-fit model of species–area relationships for Mediterranean-type plant communities and evaluate how community structure affects these species–area models. Location Data were collected from California shrublands and woodlands and compared with literature reports for other Mediterranean-climate regions. Methods The number of species was recorded from 1, 100 and 1000 m 2 nested plots. Best fit to the power model or exponential model was determined by comparing adjusted r 2 values from the least squares regression, pattern of residuals, homoscedasticity across scales, and semi-log slopes at 1–100 m 2 and 100–1000 m 2 . Dominance–diversity curves were tested for fit to the lognormal model, MacArthur's broken stick model, and the geometric and harmonic series. Results Early successional Western Australia and California shrublands represented the extremes and provide an interesting contrast as the exponential model was the best fit for the former, and the power model for the latter, despite similar total species richness. We hypothesize that structural differences in these communities account for the different species–area curves and are tied to patterns of dominance, equitability and life form distribution. Dominance–diversity relationships for Western Australian heathlands exhibited a close fit to MacArthur's broken stick model, indicating more equitable distribution of species. In contrast, Californian shrublands, both postfire and mature stands, were best fit by the geometric model indicating strong dominance and many minor subordinate species. These regions differ in life form distribution, with annuals being a major component of diversity in early successional Californian shrublands although they are largely lacking in mature stands. Both young and old Australian heathlands are dominated by perennials, and annuals are largely absent. Inherent in all of these ecosystems is cyclical disequilibrium caused by periodic fires. The potential for community reassembly is greater in Californian shrublands where only a quarter of the flora resprout, whereas three quarters resprout in Australian heathlands. Other Californian vegetation types sampled include coniferous forests, oak savannas and desert scrub, and demonstrate that different community structures may lead to a similar species–area relationship. Dominance–diversity relationships for coniferous forests closely follow a geometric model whereas associated oak savannas show a close fit to the lognormal model. However, for both communities, species–area curves fit a power model. The primary driver appears to be the presence of annuals. Desert scrub communities illustrate dramatic changes in both species diversity and dominance–diversity relationships in high and low rainfall years, because of the disappearance of annuals in drought years. Main conclusions Species–area curves for immature shrublands in California and the majority of Mediterranean plant communities fit a power function model. Exceptions that fit the exponential model are not because of sampling error or scaling effects, rather structural differences in these communities provide plausible explanations. The exponential species–area model may arise in more than one way. In the highly diverse Australian heathlands it results from a rapid increase in species richness at small scales. In mature California shrublands it results from very depauperate richness at the community scale. In both instances the exponential model is tied to a preponderance of perennials and paucity of annuals. For communities fit by a power model, coefficients z and log c exhibit a number of significant correlations with other diversity parameters, suggesting that they have some predictive value in ecological communities.

Journal of Biogeography↗

USGS2011

Guidelines for collecting and maintaining archives for genetic monitoring

Rapid advances in molecular genetic techniques and the statistical analysis of genetic data have revolutionized the way that populations of animals, plants and microorganisms can be monitored. Genetic monitoring is the practice of using molecular genetic markers to track changes in the abundance, diversity or distribution of populations, species or ecosystems over time, and to follow adaptive and non-adaptive genetic responses to changing external conditions. In recent years, genetic monitoring has become a valuable tool in conservation management of biological diversity and ecological analysis, helping to illuminate and define cryptic and poorly understood species and populations. Many of the detected biodiversity declines, changes in distribution and hybridization events have helped to drive changes in policy and management. Because a time series of samples is necessary to detect trends of change in genetic diversity and species composition, archiving is a critical component of genetic monitoring. Here we discuss the collection, development, maintenance, and use of archives for genetic monitoring. This includes an overview of the genetic markers that facilitate effective monitoring, describes how tissue and DNA can be stored, and provides guidelines for proper practice.

Conservation Genetics Resources↗

USGS2017

Rafinesque's Sicilian whale, Balena gastrytis

In 1815, the naturalist Constantine S. Rafinesque described a new species of cetacean, Balena gastrytis, from Sicily, based on a whale that stranded on Carini beach near Palermo. In comparing the characteristics of his new whale with known species, Rafinesque also took the opportunity to name a new genus, Cetoptera, to replace Balaenoptera Lacépède, 1804. Unfortunately, few of Rafinesque's contemporaries saw his article, which appeared in Il Portafoglio, a local journal that he published and distributed. The journal remains rare, and awareness of the whale remains minimal, despite its relevance to cetacean taxonomy and understanding of whale diversity and distribution in the Mediterranean. We describe the circumstances of the stranding of the Sicilian whale and provide Rafinesque's original description of the whale, as well as an evaluation of its reported characteristics and its current identity.

Archives of Natural History↗

USGS2025

Multi-scale spectroscopy to map intertidal microbial biofilm community and trait diversity

Intertidal microbial biofilms, or microphytobenthos, support estuarine biogeochemical cycling, the physical stability of mudflats, and food webs, particularly those of migratory shorebirds. Photosynthetic biofilms dominated by diatoms, cyanobacteria, and chlorophytes represent a significant fraction of biofilm biomass and contain pigments that can be detected with remote sensing. These diverse biofilm community types vary in indicator pigments and functional traits related to biogeochemical cycling and nutritional quality. We modeled and mapped spatial variation in intertidal biofilm distribution, quantity, diversity, and functional traits using multi-scale spectroscopic data collected within southern San Francisco Bay, California, USA (South SFB). We developed a new biofilm index (B-index) from 5 mm HySpex spectra to detect biofilm presence. We developed single and multiple response partial least squares regression (PLS) models of chlorophyll -a (chl -a ; biomass indicator), indicator pigments: fucoxanthin and diadinoxanthin (diatoms), zeaxanthin (cyanobacteria), and chl -b (chlorophytes), and functional traits: carbohydrates, lipids, and total organic carbon from paired in situ biofilm data and field spectra. The B-index and PLS models were scaled to South SFB with a 3.7 m AVIRIS-NG hyperspectral image. The model %RMSE calculated from AVIRIS-NG test samples ranged from 12.7% for chl -a to 49% for chl -b ; for six of the eight models, %RMSE was 23% or below. Mapped community types differed in mapped traits, with average lipid concentrations three times higher in areas indicated as diatoms compared to other groups. Available maps depict for the first time the spatial variation of an important shorebird food resource and inform the contribution of intertidal biofilm in carbon and nutrient cycling.

California↗