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At least 235 records · Page 13Linked to original sources
USGS2026

Modeling carbon fluxes in tidal forested wetlands in the Mississippi river deltaic plain under various hydrologic conditions: Implications for river diversions

Our understanding of the impacts of climate change, sea-level rise (SLR), and freshwater management on the magnitude and variability of carbon fluxes in tidal forested wetlands remains limited. In this study, we applied a process-driven wetland biogeochemistry model, Wetland Carbon Assessment Tool—DeNitrification-DeComposition (WCAT-DNDC) model to explore responses of carbon fluxes in tidal swamp forests to climate change-induced alterations in hydrologic conditions and to predict impacts of planned reintroduction of river flows. We selected twelve sites in three habitats (throughput, relict, degraded) inside the Lake Maurepas swamp forests (Louisiana, USA) to represent various hydrological and salinity regimes. Environmental scenarios included dry, average, and wet conditions, SLR (low and high), and a Mississippi River (MR) diversion. Simulation results showed that the responses of net ecosystem exchange (NEE), net primary productivity (NPP), ecosystem respiration (ER), methane (CH 4 ) and nitrous oxide (N 2 O) emissions in the Lake Maurepas swamp forests varied substantially among sites. However, the overall net carbon uptake capacity of the Lake Maurepas swamp forests was high (NEE: − 1143 to − 1650 g C m −2 yr −1 ), suggesting that Lake Maurepas swamp forests are large carbon sinks. The high net carbon uptake capacity could be significantly affected by climate change induced drought, flooding, and SLR with the bi-directional changes (increase or decrease) depending on the direction and magnitude of the hydrologic regime changes. The response of the net carbon uptake capacity to MR diversion is also bi-directional and site-specific, but enhancement of the capacity of NEE of up to − 1957 g C m 2 yr −1 is possible, implying that MR diversion into the swamp forests could be beneficial in the context of carbon cycling and carbon sequestration.

Louisiana↗
USGS2020

Submarine canyons influence macrofaunal diversity and density patterns in the deep-sea benthos

Submarine canyons are often morphologically complex features in the deep sea contributing to habitat heterogeneity. In addition, they act as major conduits of organic matter from the shallow productive shelf to the food deprived deep-sea, promoting gradients in food resources and areas of sediment resuspension and deposition. This study focuses on the Baltimore and Norfolk canyons, in the western North Atlantic Ocean, and investigates how different biogeochemical drivers influence canyon and slope macrofaunal communities. Replicated sediment cores were collected along the main axes (~180–1200 m) of Baltimore and Norfolk canyons and at comparable depths on the adjacent slopes. Cores were sorted, assessing whole community macrofaunal (>300 μm) abundance, diversity and standing stocks. Canyon communities were significantly different from slope communities in terms of diversity, abundance patterns and community assemblages, which were attributed to high levels of organic matter enrichment within canyons. There was a significant departure from the expected density-depth relationship in both canyons, driven by enhanced abundances between 800 and 900 m canyon depths, which was characterised as a deposition zone for organic matter. Bathymetric zonation, sediment dynamics, organic enrichment, and disturbance events were clear factors that structured the benthic communities in both Baltimore and Norfolk canyons. Coupling family-level community data, with sediment grain-size and biogeochemistry data explained community dynamics across depth and biogeochemical gradients, providing further evidence that canyons disrupt macrofaunal diversity and density patterns in the deep-sea benthos.

Deep Sea Research Part A, Oceanographic Research P↗
USGS2009

A mosaic of diverse ideas: The ecological legacy of J. Frederick Grassle

During the 40 years (and counting) of his scientific career, J. Frederick Grassle has made fundamental contributions to our understanding of marine ecosystems from coral reefs to deep-sea sediments. His advocacy and passion for marine biodiversity in the form of myriad groundbreaking studies and influential reviews, his generosity of ideas and capacity to catalyze and inspire those working with him as well as the science community in general, his breakthroughs in improved ocean observation, his marine science infrastructure initiatives, together with his tireless persistence, have helped lead to major shifts in approaches to marine science and the shape of modern ocean studies to one that favours multidisciplinary research, teamwork, continuous, long-term observation, in situ experimentation, recognition of the importance of marine biodiversity, and global cooperation on research and data sharing. In shallow-water ecology, he co-discovered sibling species of Capitella spp., important not only because it is a key pollution indicator but also because the work helped to pave the way for the discovery of numerous sibling species in other taxa with major ramifications for ecological understanding. He was also a key player in the West Falmouth oil spill study which, along with complementary mesocosm experiments, remains one of the most important and detailed studies of its kind. He was also a lead player in the first biological expedition to hydrothermal vents and wrote the seminal articles that helped to inspire the flurry of vent research that followed. He is perhaps best known for his deep-sea work, where he brought submersibles to the forefront as a sampling tool, brought experimental manipulative studies to the primarily descriptive discipline of deep-sea benthic ecology, and generated tremendous excitement, debate, and rekindled interest in marine biodiversity with the first quantitative estimate of global deep-sea diversity. His efforts to document marine biodiversity resulted in the international Census of Marine Life, and his emphasis on the need for continuous, long-term ocean observation has led to breakthroughs in international cooperation in cabled observatories such as LEO-15. These efforts have also enhanced efforts to integrate ocean data on a global scale in platforms such as the Ocean Biogeographic Information System (OBIS). The diversity of his contributions to marine science mirror the immense marine diversity he has recognized, documented, and championed so effectively over the last four decades.

Deep-Sea Research Part II: Topical Studies in Ocea↗
USGS2026

A Bayesian hierarchical modeling approach for species diversity in ecology

Species diversity is the foundation of many ecological disciplines. This metric is often approximated using species richness and evenness, even though actual richness likely exceeds observations due to imperfect sampling methods. Estimating the “true” species richness, which includes identifying the number of missing species, has intrigued ecologists for decades. We adopted a parametric model that appeared in Fisher et al. (1943), which models the numbers of individuals from different species as random samples from a negative binomial distribution, and developed a Bayesian computational approach to directly estimate the distribution model parameters. The model parameters represent species abundance and evenness, and can be used to derive species richness. We evaluated our parametric approach using (1) a simulation study and (2) three historical data sets. Furthermore, we illustrated the hierarchical modeling approach to combine data from multiple parallel studies using a biannual fishery survey data set. Our parametric model formulation is computationally efficient, and the hierarchical structure facilitates embedding diversity estimation into broader application, such as assessing spatial and temporal trends in species diversity associated with environmental stressors. Additionally, because the two parameters of the negative binomial distribution model represent species abundance and evenness of a community, this parametric approach facilitates a deeper understanding of the ecological systems under study. The negative binomial distribution model works with a wide range of species frequency distribution types. As a result, our emphasis on a parametric model can help us characterize the structure of an ecosystem and provide a greater depth of ecologically meaningful information.

Ecological Informatics↗
USGS2013

Predicted macroinvertebrate response to water diversion from a montane stream using two-dimensional hydrodynamic models and zero flow approximation

We used two-dimensional hydrodynamic models for the assessment of water diversion effects on benthic macroinvertebrates and associated habitat in a montane stream in Yosemite National Park, Sierra Nevada Mountains, CA, USA. We sampled the macroinvertebrate assemblage via Surber sampling, recorded detailed measurements of bed topography and flow, and coupled a two-dimensional hydrodynamic model with macroinvertebrate indicators to assess habitat across a range of low flows in 2010 and representative past years. We also made zero flow approximations to assess response of fauna to extreme conditions. The fauna of this montane reach had a higher percentage of Ephemeroptera, Plecoptera, and Trichoptera (%EPT) than might be expected given the relatively low faunal diversity of the study reach. The modeled responses of wetted area and area-weighted macroinvertebrate metrics to decreasing discharge indicated precipitous declines in metrics as flows approached zero. Changes in area-weighted metrics closely approximated patterns observed for wetted area, i.e., area-weighted invertebrate metrics contributed relatively little additional information above that yielded by wetted area alone. Loss of habitat area in this montane stream appears to be a greater threat than reductions in velocity and depth or changes in substrate, and the modeled patterns observed across years support this conclusion. Our models suggest that step function losses of wetted area may begin when discharge in the Merced falls to 0.02 m 3 /s; proportionally reducing diversions when this threshold is reached will likely reduce impacts in low flow years.

California↗
USGS2019

Mississippi river sediment diversions and coastal wetland sustainability: Synthesis of responses to freshwater, sediment, and nutrient inputs

Management and restoration of coastal wetlands require insight into how inundation, salinity, and the availability of mineral sediment and nutrients interact to influence ecosystem functions that control sustainability. The Mississippi River Delta, which ranks among the world's largest and most productive coastal wetland complexes, has experienced extensive deterioration over the last century due, in large part, to enhanced vulnerability to relative sea-level rise and lateral erosion caused by a combination of natural processes and anthropogenic modifications of hydrology. This land loss crisis has prompted the State of Louisiana to develop a comprehensive restoration plan that includes constructing and implementing a series of large-scale sediment diversions that will reconnect sediment- and nutrient-rich Mississippi River water to adjacent bays, estuaries, and wetlands. Sediment loading through diversions is predicted to enhance the long-term sustainability of coastal wetlands; however, the additive effects of increased inundation, abrubt changes in the salinity regime, and high nutrient loads on wetland plant growth and organic matter (SOM) decomposition rates, which help regulate accretion and elevation change, is uncertain. Therefore, this review attempts to synthesize existing information to inform predictions of the interactive effects of diversions on these drivers of coastal wetland sustainability. The data suggest that sediment deposition within an optimal elevation range will increase the overall productivity of existing wetlands where prolonged flooding does not counter this effect by limiting plant growth. A reduction in salinity may increase plant productivity and cause vegetation shifts to less salt tolerant species, but seasonal swings in salinity may have unforeseen consequences. Nutrient-loading is predicted to lead to greater aboveground productivity, which, in turn, can facilitate additional sediment trapping; however, belowground productivity may decline, particularly in areas where sediment deposition is limited. In areas experiencing net deposition, nutrient-enrichment is predicted to enhance belowground growth into new sediment and contribute to positive effects on soil organic matter accumulation, accretion, and elevation change. Thus, we contend that sediment input is essential for limiting the negative effects of flooding and nutrient-enrichment on wetland processes. These conclusions are generally supported by the biophysical feedbacks occurring in existing prograding deltas of the Mississippi River Delta complex.

Louisiana↗
USGS2021

Demography and loss of genetic diversity in two insular populations of the bobcat (Lynx rufus)

Among felids worldwide, only 6 of 38 species have stable or increasing populations, and most felid species are threatened by anthropogenic influences, especially habitat loss and fragmentation. We documented changes in genetic diversity in an isolated, reintroduced population of bobcats on Cumberland Island (CUIS), Georgia, USA, compared to another bobcat population on Kiawah Island, South Carolina, USA, that was naturally established and experiences limited immigration from the mainland. The CUIS population declined from 32 reintroduced bobcats in 1989 to 10–24 individuals during 2012–2019, and observed heterozygosity declined from 0.742 to 0.634 (SD = 0.240). Observed heterozygosity of bobcats on Kiawah was 0.699 (SD = 0.153). We estimated that one bobcat immigrated to Kiawah Island every 5.3 years. We compared the predictions of a novel population viability analysis ( PVA ) to empirical estimates of abundance and genetic diversity on CUIS and used our PVA to identify management actions that are likely to support long-term viability. Mean heterozygosity from the PVA (0.588, SD = 0.065) was within 1 standard deviation of the empirical estimate. The PVA estimated the population would decline following population restoration due to loss of genetic diversity and inbreeding depression. Translocations of one female every four years would stabilize allele heterozygosity similar to the Kiawah Island population, but even translocations of two females every two years would not restore heterozygosity to founder levels. The PVA predicted no management action would result in a one in five probability of extinction within 50 years of reintroduction, but all translocation strategies nearly eliminated extinction risk through 100 years.

Georgia, South Carolina↗
USGS2019

Phenology and species diversity in a Lake Huron ichthyoplankton community: Ecological implications of invasive species dominance

Ichthyoplankton communities are dynamic and vary spatiotemporally based on factors such as wind, water currents, and phenology. Nonetheless, ichthyoplankton are an indicator of spawning success in fish populations and examining their community diversity and composition can serve to provide information on ecosystem integrity. Although some ichthyoplankton species may be transient, understanding their distribution in space and time provides information on species composition, abundance, and habitat use during critical early life stages. We sampled the spring-summer ichthyoplankton community during 2008 and 2009 in northern Lake Huron to determine species succession, abundance, and species diversity along physical and environmental gradients. Seasonal succession of species was similar during both years, indicating well-defined patterns in spawning by local populations. Invasive alewife, rainbow smelt, and round goby were the dominant species during both years, with native stickleback species also abundant. Shannon Entropy (H’) increased with increasing water temperature until late summer when H’ declined. H’ decreased with increasing bottom depth and distance to tributary mouth indicating the important ecological role of these habitat features during early life stages. Although ichthyoplankton diversity was comparable to or higher than that reported for other areas of the Great Lakes, the prominence of invasive species in our study is reflective of the degraded state of the Lake Huron fish community, despite large reductions in invasive planktivorous fish since 2004. Continued monitoring of ichthyoplankton communities will be important for measuring the impacts of species invasions or other ecosystem stressors on fish community structure in the Great Lakes.

Lake Huron↗
USGS2022

Loss of phylogenetic diversity under landscape change

Habitat alteration and destruction are primary drivers of biodiversity loss. However, the evolutionary dimensions of biodiversity loss remain largely unexplored in many systems. For example, little is known about how habitat alteration/loss can lead to phylogenetic deconstruction of ecological assemblages at the local level. That is, while species loss is evident, are some lineages favored over others? Using a long-term dataset of a globally, ecologically important guild of invertebrate consumers, stream leaf “shredders,” we created a phylogenetic tree of the taxa in the regional species pool, calculated mean phylogenetic distinctiveness for >1000 communities spanning >10 year period, and related species richness, phylogenetic diversity, and distinctiveness to watershed-scale impervious cover. Using a combination of changepoint and compositional analyses, we learned that increasing impervious cover produced marked reductions in all three measures of diversity. These results aid in understanding both phylogenetic diversity and mean assemblage phylogenetic distinctiveness. Our findings indicate that, not only are species lost when there is an increase in watershed urbanization, as other studies have demonstrated, but that those lost are members of more distinct lineages relative to the community as a whole.

Science of the Total Environment↗
USGS2012

Analysis of host genetic diversity and viral entry as sources of between-host variation in viral load

Little is known about the factors that drive the high levels of between-host variation in pathogen burden that are frequently observed in viral infections. Here, two factors thought to impact viral load variability, host genetic diversity and stochastic processes linked with viral entry into the host, were examined. This work was conducted with the aquatic vertebrate virus, Infectious hematopoietic necrosis virus (IHNV), in its natural host, rainbow trout. It was found that in controlled in vivo infections of IHNV, a suggestive trend of reduced between-fish viral load variation was observed in a clonal population of isogenic trout compared to a genetically diverse population of out-bred trout. However, this trend was not statistically significant for any of the four viral genotypes examined, and high levels of fish-to-fish variation persisted even in the isogenic trout population. A decrease in fish-to-fish viral load variation was also observed in virus injection challenges that bypassed the host entry step, compared to fish exposed to the virus through the natural water-borne immersion route of infection. This trend was significant for three of the four virus genotypes examined and suggests host entry may play a role in viral load variability. However, high levels of viral load variation also remained in the injection challenges. Together, these results indicate that although host genetic diversity and viral entry may play some role in between-fish viral load variation, they are not major factors. Other biological and non-biological parameters that may influence viral load variation are discussed.

Virus Research↗
USGS2024

Integrative phylogenetic, phylogeographic and morphological characterisation of the Unio crassus species complex reveals cryptic diversity with important conservation implications

The global decline of freshwater mussels and their crucial ecological services highlight the need to understand their phylogeny, phylogeography and patterns of genetic diversity to guide conservation efforts. Such knowledge is urgently needed for Unio crassus , a highly imperilled species originally widespread throughout Europe and southwest Asia. Recent studies have resurrected several species from synonymy based on mitochondrial data, revealing U. crassus to be a complex of cryptic species. To address long-standing taxonomic uncertainties hindering effective conservation, we integrate morphometric, phylogenetic, and phylogeographic analyses to examine species diversity within the U. crassus complex across its entire range. Phylogenetic analyses were performed using cytochrome c oxidase subunit I (815 specimens from 182 populations) and, for selected specimens, whole mitogenome sequences and Anchored Hybrid Enrichment (AHE) data on ∼600 nuclear loci. Mito-nuclear discordance was detected, consistent with mitochondrial DNA gene flow between some species during the Pliocene and Pleistocene. Fossil-calibrated phylogenies based on AHE data support a Mediterranean origin for the U. crassus complex in the Early Miocene. The results of our integrative approach support 12 species in the group: the previously recognised Unio bruguierianus , Unio carneus, Unio crassus , Unio damascensis , Unio ionicus , Unio sesirmensis , and Unio tumidiformis , and the reinstatement of five nominal taxa: Unio desectus stat. rev. , Unio gontierii stat. rev. , Unio mardinensis stat. rev. , Unio nanus stat. rev. , and Unio vicarius stat. rev. Morphometric analyses of shell contours reveal important morphospace overlaps among these species, highlighting cryptic, but geographically structured, diversity. The distribution, taxonomy, phylogeography, and conservation of each species are succinctly described.

Molecular Phylogenetics and Evolution↗
USGS2001

Monitoring of biological diversity in space and time

Monitoring programmes are being used increasingly to assess spatial and temporal trends of biological diversity, with an emphasis on evaluating the efficiency of management policies. Recent reviews of the existing programmes, with a focus on their design in particular, have highlighted the main weaknesses: the lack of well-articulated objectives and the neglect of different sources of error in the estimation of biological diversity. We review recent developments in methods and designs that aim to integrate sources of error to provide unbiased estimates of change in biological diversity and to suggest the potential causes.

Trends in Ecology and Evolution↗
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↗
USGS2013

Next-generation sequencing reveals cryptic mtDNA diversity of Plasmodium relictum in the Hawaiian Islands

Next-generation 454 sequencing techniques were used to re-examine diversity of mitochondrial cytochrome b lineages of avian malaria (Plasmodium relictum) in Hawaii. We document a minimum of 23 variant lineages of the parasite based on single nucleotide transitional changes, in addition to the previously reported single lineage (GRW4). A new, publicly available portal (Integroomer) was developed for initial parsing of 454 datasets. Mean variant prevalence and frequency was higher in low elevation Hawaii Amakihi (Hemignathus virens) with Avipoxvirus-like lesions (P = 0·001), suggesting that the variants may be biologically distinct. By contrast, variant prevalence and frequency did not differ significantly among mid-elevation Apapane (Himatione sanguinea) with or without lesions (P = 0·691). The low frequency and the lack of detection of variants independent of GRW4 suggest that multiple independent introductions of P. relictum to Hawaii are unlikely. Multiple variants may have been introduced in heteroplasmy with GRW4 or exist within the tandem repeat structure of the mitochondrial genome. The discovery of multiple mitochondrial lineages of P. relictum in Hawaii provides a measure of genetic diversity within a geographically isolated population of this parasite and suggests the origins and evolution of parasite diversity may be more complicated than previously recognized.

Hawai'i↗
USGS2014

Herbivores and nutrients control grassland plant diversity via light limitation

Human alterations to nutrient cycles and herbivore communities are affecting global biodiversity dramatically. Ecological theory predicts these changes should be strongly counteractive: nutrient addition drives plant species loss through intensified competition for light, whereas herbivores prevent competitive exclusion by increasing ground-level light, particularly in productive systems. Here we use experimental data spanning a globally relevant range of conditions to test the hypothesis that herbaceous plant species losses caused by eutrophication may be offset by increased light availability due to herbivory. This experiment, replicated in 40 grasslands on 6 continents, demonstrates that nutrients and herbivores can serve as counteracting forces to control local plant diversity through light limitation, independent of site productivity, soil nitrogen, herbivore type and climate. Nutrient addition consistently reduced local diversity through light limitation, and herbivory rescued diversity at sites where it alleviated light limitation. Thus, species loss from anthropogenic eutrophication can be ameliorated in grasslands where herbivory increases ground-level light.

Nature↗
USGS2020

Ecology and management of plague in diverse communities of rodents and fleas

Plague originated in Asia as a flea-borne zoonosis of mammalian hosts. Today, the disease is distributed nearly worldwide. In western United States of America, plague is maintained, transmitted, and amplified in diverse communities of rodents and fleas. We examined flea diversity on three species of prairie dogs ( Cynomys spp., PDs) and six species of sympatric small rodents in Montana and Utah, United States of America. Among 2896 fleas, 19 species were identified; 13 were found on PDs and 9 were found on small rodents. In Montana, three flea species were found on PDs; the three species parasitize PDs and mice. In Utah, 12 flea species were found on PDs; the 12 species parasitize PDs, mice, voles, chipmunks, ground squirrels, rock squirrels, and marmots. Diverse flea communities and their willingness to parasitize many types of hosts, across multiple seasons and habitats, may favor plague maintenance and transmission. Flea parasitism on Peromyscus deer mice varied directly with elevation. Fleas are prone to desiccation, and might prosper at higher, mesic elevations; in addition, Peromyscus nest characteristics may vary with elevation. Effective management of plague is critical. Plague management is probably most effective when encompassing communities of rodents and fleas. Treatment of PD burrows with 0.05% deltamethrin dust, which suppressed fleas on PDs for >365 days, suppressed fleas on small rodents for at least 58 days. At one site, deltamethrin suppressed fleas on small rodents for at least 383 days. By simultaneously suppressing fleas on PDs and small rodents, deltamethrin should promote ecosystem resilience and One Health objectives.

Montana, Utah↗
USGS2000

Genetic analyses reveal unusually high diversity of infectious haematopoietic necrosis virus in rainbow trout aquaculture

Infectious haematopoietic necrosis virus (IHNV) is the most significant virus pathogen of salmon and trout in North America. Previous studies have shown relatively low genetic diversity of IHNV within large geographical regions. In this study, the genetic heterogeneity of 84 IHNV isolates sampled from rainbow trout ( Oncorhynchus mykiss ) over a 20 year period at four aquaculture facilities within a 12 mile stretch of the Snake River in Idaho, USA was investigated. The virus isolates were characterized using an RNase protection assay (RPA) and nucleotide sequence analyses. Among the 84 isolates analysed, 46 RPA haplotypes were found and analyses revealed a high level of genetic heterogeneity relative to that detected in other regions. Sequence analyses revealed up to 7·6% nucleotide divergence, which is the highest level of diversity reported for IHNV to date. Phylogenetic analyses identified four distinct monophyletic clades representing four virus lineages. These lineages were distributed across facilities, and individual facilities contained multiple lineages. These results suggest that co-circulating IHNV lineages of relatively high genetic diversity are present in the IHNV populations in this rainbow trout culture study site. Three of the four lineages exhibited temporal trends consistent with rapid evolution.

Journal of General Virology↗
USGS2025

Diversity of polyomaviruses and papillomaviruses in penguins from eastern and western Antarctica

Polyomaviruses and papillomaviruses are icosahedral viruses with small circular dsDNA genomes. Limited information on their diversity and evolution in avian hosts is available, with even less known regarding Antarctic penguins. Prior to this study, only one polyomavirus and two papillomaviruses had been identified in Adélie penguins ( Pygoscelis adeliae ). To expand our knowledge of these viruses in Antarctic penguins, we collected faecal and cloacal swab samples from 246 Adélie penguins over 3 breeding seasons (2021–2024) and 10 emperor penguins ( Aptenodytes forsteri ) during the 2023–2024 season on Ross Island (Ross Sea). Additionally, we sampled 66 Adélie, 40 chinstrap ( Pygoscelis antarcticus ) and 71 gentoo ( Pygoscelis papua ) penguins during the 2022–2023 season across various sites on the Antarctic Peninsula. All samples were screened for papillomaviruses and polyomaviruses. We identified 31 polyomaviruses in Adélie, gentoo and chinstrap penguins and 4 papillomaviruses in Adélie penguins sampled in both eastern and western Antarctica. The 31 penguin polyomaviruses belong to a single species but form four distinct variants that are host species specific with strong geographic clustering. The four papillomaviruses represent three different types, of which two are new types from Adélie penguins sampled on Yalour Island in the West Antarctic Peninsula. Co-occurrence of two polyomavirus variants was identified in two individual gentoo penguins. Both of these variants appear to be circulating in gentoo penguins at Cierva Cove, Hope Bay in Trinity Peninsula along the Antarctic Peninsula, and at Hannah Point on Livingstone Island and Stranger Point on King George Island in the South Shetland Islands. Here, we expand the known diversity, host and geographical ranges of penguin polyomaviruses and, together with a previously identified polyomavirus on Ross Island from 2012 to 2013, show that they form five distinct lineages. The four papillomaviruses identified in this study, together with two previously identified from Ross Island in 2012 and 2013 breeding seasons, show substantial diversity reflecting four papillomavirus types across three viral species and two distinct genera. Continued surveillance and viral genomic analysis across a larger geographical framework will help understand the evolution, transmission and incidence rates of these viruses.

Microbial Genomics↗